0s autopkgtest [20:47:22]: starting date and time: 2024-11-14 20:47:22+0000 0s autopkgtest [20:47:22]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [20:47:22]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.3zzmntmp/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade ncbi-acc-download --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-15.secgroup --name adt-plucky-i386-ncbi-acc-download-20241114-204722-juju-7f2275-prod-proposed-migration-environment-20-4c03ceff-23b9-4ec9-9710-16c22aa0aa13 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 47s autopkgtest [20:48:09]: testbed dpkg architecture: amd64 47s autopkgtest [20:48:09]: testbed apt version: 2.9.8 48s autopkgtest [20:48:10]: test architecture: i386 48s autopkgtest [20:48:10]: @@@@@@@@@@@@@@@@@@@@ test bed setup 48s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 49s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.7 kB] 49s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 49s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [105 kB] 49s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1044 kB] 49s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [144 kB] 49s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [79.4 kB] 49s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 49s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [805 kB] 49s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [295 kB] 49s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 49s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9660 B] 49s Fetched 2613 kB in 1s (3261 kB/s) 49s Reading package lists... 51s Reading package lists... 51s Building dependency tree... 51s Reading state information... 52s Calculating upgrade... 52s The following NEW packages will be installed: 52s python3.13-gdbm 52s The following packages will be upgraded: 52s libcap-ng0 libpython3-stdlib pastebinit python3 python3-gdbm python3-minimal 52s python3-systemd 52s 7 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 52s Need to get 178 kB of archives. 52s After this operation, 256 kB of additional disk space will be used. 52s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 52s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 52s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 52s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 52s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 52s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 52s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 52s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 52s Fetched 178 kB in 0s (441 kB/s) 53s (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 ... 75542 files and directories currently installed.) 53s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 53s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 53s Setting up python3-minimal (3.12.7-1) ... 53s (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 ... 75542 files and directories currently installed.) 53s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 53s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 53s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 53s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 53s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 53s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 53s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 53s Selecting previously unselected package python3.13-gdbm. 53s (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 ... 75542 files and directories currently installed.) 53s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 53s Unpacking python3.13-gdbm (3.13.0-2) ... 53s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 53s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 53s Preparing to unpack .../pastebinit_1.7.1-1_all.deb ... 53s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 53s Preparing to unpack .../python3-systemd_235-1build5_amd64.deb ... 53s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 53s Setting up python3.13-gdbm (3.13.0-2) ... 53s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 53s Setting up python3 (3.12.7-1) ... 53s Setting up python3-systemd (235-1build5) ... 53s Setting up python3-gdbm:amd64 (3.12.7-1) ... 53s Setting up pastebinit (1.7.1-1) ... 53s Processing triggers for libc-bin (2.40-1ubuntu3) ... 53s Processing triggers for man-db (2.12.1-3) ... 54s Reading package lists... 54s Building dependency tree... 54s Reading state information... 54s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 55s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 55s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 55s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 55s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 56s Reading package lists... 56s Reading package lists... 56s Building dependency tree... 56s Reading state information... 56s Calculating upgrade... 56s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 56s Reading package lists... 56s Building dependency tree... 56s Reading state information... 56s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 59s autopkgtest [20:48:21]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 59s autopkgtest [20:48:21]: @@@@@@@@@@@@@@@@@@@@ apt-source ncbi-acc-download 60s Get:1 http://ftpmaster.internal/ubuntu plucky/universe ncbi-acc-download 0.2.8-3 (dsc) [2434 B] 60s Get:2 http://ftpmaster.internal/ubuntu plucky/universe ncbi-acc-download 0.2.8-3 (tar) [20.9 kB] 60s Get:3 http://ftpmaster.internal/ubuntu plucky/universe ncbi-acc-download 0.2.8-3 (diff) [4420 B] 61s gpgv: Signature made Thu Aug 1 23:03:26 2024 UTC 61s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 61s gpgv: issuer "tille@debian.org" 61s gpgv: Can't check signature: No public key 61s dpkg-source: warning: cannot verify inline signature for ./ncbi-acc-download_0.2.8-3.dsc: no acceptable signature found 61s autopkgtest [20:48:23]: testing package ncbi-acc-download version 0.2.8-3 61s autopkgtest [20:48:23]: build not needed 61s autopkgtest [20:48:23]: test run-unit-test: preparing testbed 63s Note, using file '/tmp/autopkgtest.WHncE0/1-autopkgtest-satdep.dsc' to get the build dependencies 63s Reading package lists... 63s Building dependency tree... 63s Reading state information... 64s Starting pkgProblemResolver with broken count: 0 64s Starting 2 pkgProblemResolver with broken count: 0 64s Done 64s The following NEW packages will be installed: 64s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 64s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 g++ 64s g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 64s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libblas3 libcairo2 64s libcc1-0 libdeflate0 libfontconfig1 libfontenc1 libgcc-14-dev libgfortran5 64s libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libimagequant0 libisl23 64s libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-hotkeys 64s libjs-jquery-isonscreen libjs-jquery-metadata libjs-jquery-tablesorter 64s libjs-jquery-throttle-debounce liblapack3 liblcms2-2 liblerc4 liblsan0 64s libmpc3 libopenjp2-7 libpixman-1-0 libpython3.13-minimal 64s libpython3.13-stdlib libquadmath0 libraqm0 libsharpyuv0 libstdc++-14-dev 64s libtiff6 libtsan2 libubsan1 libwebp7 libwebpdemux2 libwebpmux3 64s libxcb-render0 libxcb-shm0 libxrender1 ncbi-acc-download python3-all 64s python3-biopython python3-cairo python3-coverage python3-freetype 64s python3-iniconfig python3-numpy python3-packaging python3-pil python3-pluggy 64s python3-pytest python3-pytest-cov python3-pytest-mock python3-reportlab 64s python3-requests-mock python3-rlpycairo python3.13 python3.13-minimal 64s sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 64s 0 upgraded, 89 newly installed, 0 to remove and 0 not upgraded. 64s Need to get 101 MB of archives. 64s After this operation, 338 MB of additional disk space will be used. 64s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 65s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 65s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 65s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 65s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-hotkeys all 0~20130707+git2d51e3a9+dfsg-2.1 [11.5 kB] 65s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 65s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 65s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 65s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 65s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 65s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 65s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 65s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 65s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 65s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 65s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 65s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 65s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 65s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 65s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 65s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 66s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 67s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 67s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 67s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 67s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 67s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 67s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 67s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 67s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 67s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 67s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 67s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 67s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 67s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 67s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 67s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 67s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 68s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 68s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 68s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 68s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 68s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 68s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 68s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 68s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 68s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 68s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 68s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 68s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 68s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 68s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 68s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 68s Get:54 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-metadata all 12-4 [6582 B] 68s Get:55 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-4 [192 kB] 68s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-throttle-debounce all 1.1+dfsg.1-2 [12.5 kB] 68s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 68s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 68s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 68s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 68s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 68s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 68s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 68s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 68s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 68s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 68s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 68s Get:68 http://ftpmaster.internal/ubuntu plucky/universe amd64 ncbi-acc-download all 0.2.8-3 [13.3 kB] 68s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 68s Get:70 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 68s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 68s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 68s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 68s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 68s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 68s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 68s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 68s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 68s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 68s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4 [1714 kB] 69s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-coverage amd64 7.4.4+dfsg1-0ubuntu2 [147 kB] 69s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 69s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 69s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 69s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 69s Get:86 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-isonscreen all 1.2.0-1.1 [3244 B] 69s Get:87 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest-cov all 5.0.0-1 [21.3 kB] 69s Get:88 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest-mock all 3.14.0-2 [11.7 kB] 69s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-requests-mock all 1.12.1-2 [17.8 kB] 69s Fetched 101 MB in 5s (21.4 MB/s) 69s Selecting previously unselected package libpython3.13-minimal:amd64. 69s (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 ... 75554 files and directories currently installed.) 69s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 69s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 69s Selecting previously unselected package python3.13-minimal. 69s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 69s Unpacking python3.13-minimal (3.13.0-2) ... 69s Selecting previously unselected package sgml-base. 69s Preparing to unpack .../02-sgml-base_1.31_all.deb ... 69s Unpacking sgml-base (1.31) ... 69s Selecting previously unselected package libjs-jquery. 69s Preparing to unpack .../03-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 69s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 69s Selecting previously unselected package libjs-jquery-hotkeys. 69s Preparing to unpack .../04-libjs-jquery-hotkeys_0~20130707+git2d51e3a9+dfsg-2.1_all.deb ... 69s Unpacking libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ... 69s Selecting previously unselected package libisl23:amd64. 69s Preparing to unpack .../05-libisl23_0.27-1_amd64.deb ... 69s Unpacking libisl23:amd64 (0.27-1) ... 69s Selecting previously unselected package libmpc3:amd64. 69s Preparing to unpack .../06-libmpc3_1.3.1-1build2_amd64.deb ... 69s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 69s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 69s Preparing to unpack .../07-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 69s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 69s Selecting previously unselected package cpp-14. 69s Preparing to unpack .../08-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 69s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 69s Selecting previously unselected package cpp-x86-64-linux-gnu. 69s Preparing to unpack .../09-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 69s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 69s Selecting previously unselected package cpp. 69s Preparing to unpack .../10-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 69s Unpacking cpp (4:14.1.0-2ubuntu1) ... 69s Selecting previously unselected package libcc1-0:amd64. 69s Preparing to unpack .../11-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 69s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 69s Selecting previously unselected package libgomp1:amd64. 69s Preparing to unpack .../12-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 69s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 69s Selecting previously unselected package libitm1:amd64. 69s Preparing to unpack .../13-libitm1_14.2.0-8ubuntu1_amd64.deb ... 69s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 69s Selecting previously unselected package libasan8:amd64. 69s Preparing to unpack .../14-libasan8_14.2.0-8ubuntu1_amd64.deb ... 69s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package liblsan0:amd64. 70s Preparing to unpack .../15-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package libtsan2:amd64. 70s Preparing to unpack .../16-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package libubsan1:amd64. 70s Preparing to unpack .../17-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package libhwasan0:amd64. 70s Preparing to unpack .../18-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package libquadmath0:amd64. 70s Preparing to unpack .../19-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package libgcc-14-dev:amd64. 70s Preparing to unpack .../20-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 70s Preparing to unpack .../21-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package gcc-14. 70s Preparing to unpack .../22-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package gcc-x86-64-linux-gnu. 70s Preparing to unpack .../23-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 70s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 70s Selecting previously unselected package gcc. 70s Preparing to unpack .../24-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 70s Unpacking gcc (4:14.1.0-2ubuntu1) ... 70s Selecting previously unselected package libstdc++-14-dev:amd64. 70s Preparing to unpack .../25-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package g++-14-x86-64-linux-gnu. 70s Preparing to unpack .../26-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 71s Selecting previously unselected package g++-14. 71s Preparing to unpack .../27-g++-14_14.2.0-8ubuntu1_amd64.deb ... 71s Unpacking g++-14 (14.2.0-8ubuntu1) ... 71s Selecting previously unselected package g++-x86-64-linux-gnu. 71s Preparing to unpack .../28-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 71s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 71s Selecting previously unselected package g++. 71s Preparing to unpack .../29-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 71s Unpacking g++ (4:14.1.0-2ubuntu1) ... 71s Selecting previously unselected package build-essential. 71s Preparing to unpack .../30-build-essential_12.10ubuntu1_amd64.deb ... 71s Unpacking build-essential (12.10ubuntu1) ... 71s Selecting previously unselected package fonts-dejavu-mono. 71s Preparing to unpack .../31-fonts-dejavu-mono_2.37-8_all.deb ... 71s Unpacking fonts-dejavu-mono (2.37-8) ... 71s Selecting previously unselected package fonts-dejavu-core. 71s Preparing to unpack .../32-fonts-dejavu-core_2.37-8_all.deb ... 71s Unpacking fonts-dejavu-core (2.37-8) ... 71s Selecting previously unselected package libfontenc1:amd64. 71s Preparing to unpack .../33-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 71s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 71s Selecting previously unselected package x11-common. 71s Preparing to unpack .../34-x11-common_1%3a7.7+23ubuntu3_all.deb ... 71s Unpacking x11-common (1:7.7+23ubuntu3) ... 71s Selecting previously unselected package xfonts-encodings. 71s Preparing to unpack .../35-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 71s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 71s Selecting previously unselected package xfonts-utils. 71s Preparing to unpack .../36-xfonts-utils_1%3a7.7+7_amd64.deb ... 71s Unpacking xfonts-utils (1:7.7+7) ... 71s Selecting previously unselected package fonts-urw-base35. 71s Preparing to unpack .../37-fonts-urw-base35_20200910-8_all.deb ... 71s Unpacking fonts-urw-base35 (20200910-8) ... 71s Selecting previously unselected package fontconfig-config. 71s Preparing to unpack .../38-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 71s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 71s Selecting previously unselected package libblas3:amd64. 71s Preparing to unpack .../39-libblas3_3.12.0-3build2_amd64.deb ... 71s Unpacking libblas3:amd64 (3.12.0-3build2) ... 71s Selecting previously unselected package libfontconfig1:amd64. 71s Preparing to unpack .../40-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 71s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 71s Selecting previously unselected package libpixman-1-0:amd64. 71s Preparing to unpack .../41-libpixman-1-0_0.44.0-3_amd64.deb ... 71s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 71s Selecting previously unselected package libxcb-render0:amd64. 71s Preparing to unpack .../42-libxcb-render0_1.17.0-2_amd64.deb ... 71s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 71s Selecting previously unselected package libxcb-shm0:amd64. 71s Preparing to unpack .../43-libxcb-shm0_1.17.0-2_amd64.deb ... 71s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 71s Selecting previously unselected package libxrender1:amd64. 71s Preparing to unpack .../44-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 71s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 71s Selecting previously unselected package libcairo2:amd64. 71s Preparing to unpack .../45-libcairo2_1.18.2-2_amd64.deb ... 71s Unpacking libcairo2:amd64 (1.18.2-2) ... 71s Selecting previously unselected package libdeflate0:amd64. 71s Preparing to unpack .../46-libdeflate0_1.22-1_amd64.deb ... 71s Unpacking libdeflate0:amd64 (1.22-1) ... 71s Selecting previously unselected package libgfortran5:amd64. 71s Preparing to unpack .../47-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 71s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 71s Selecting previously unselected package libgraphite2-3:amd64. 71s Preparing to unpack .../48-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 71s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 72s Selecting previously unselected package libharfbuzz0b:amd64. 72s Preparing to unpack .../49-libharfbuzz0b_10.0.1-1_amd64.deb ... 72s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 72s Selecting previously unselected package libimagequant0:amd64. 72s Preparing to unpack .../50-libimagequant0_2.18.0-1build1_amd64.deb ... 72s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 72s Selecting previously unselected package libjpeg-turbo8:amd64. 72s Preparing to unpack .../51-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 72s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 72s Selecting previously unselected package libjpeg8:amd64. 72s Preparing to unpack .../52-libjpeg8_8c-2ubuntu11_amd64.deb ... 72s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 72s Selecting previously unselected package libjs-jquery-metadata. 72s Preparing to unpack .../53-libjs-jquery-metadata_12-4_all.deb ... 72s Unpacking libjs-jquery-metadata (12-4) ... 72s Selecting previously unselected package libjs-jquery-tablesorter. 72s Preparing to unpack .../54-libjs-jquery-tablesorter_1%3a2.31.3+dfsg1-4_all.deb ... 72s Unpacking libjs-jquery-tablesorter (1:2.31.3+dfsg1-4) ... 72s Selecting previously unselected package libjs-jquery-throttle-debounce. 72s Preparing to unpack .../55-libjs-jquery-throttle-debounce_1.1+dfsg.1-2_all.deb ... 72s Unpacking libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... 72s Selecting previously unselected package liblapack3:amd64. 72s Preparing to unpack .../56-liblapack3_3.12.0-3build2_amd64.deb ... 72s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 72s Selecting previously unselected package liblcms2-2:amd64. 72s Preparing to unpack .../57-liblcms2-2_2.16-2_amd64.deb ... 72s Unpacking liblcms2-2:amd64 (2.16-2) ... 72s Selecting previously unselected package liblerc4:amd64. 72s Preparing to unpack .../58-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 72s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 72s Selecting previously unselected package libpython3.13-stdlib:amd64. 72s Preparing to unpack .../59-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 72s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 72s Selecting previously unselected package libraqm0:amd64. 72s Preparing to unpack .../60-libraqm0_0.10.1-1build1_amd64.deb ... 72s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 72s Selecting previously unselected package libsharpyuv0:amd64. 72s Preparing to unpack .../61-libsharpyuv0_1.4.0-0.1_amd64.deb ... 72s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 72s Selecting previously unselected package libjbig0:amd64. 72s Preparing to unpack .../62-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 72s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 72s Selecting previously unselected package libwebp7:amd64. 72s Preparing to unpack .../63-libwebp7_1.4.0-0.1_amd64.deb ... 72s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 72s Selecting previously unselected package libtiff6:amd64. 72s Preparing to unpack .../64-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 72s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 72s Selecting previously unselected package libwebpdemux2:amd64. 72s Preparing to unpack .../65-libwebpdemux2_1.4.0-0.1_amd64.deb ... 72s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 72s Selecting previously unselected package libwebpmux3:amd64. 72s Preparing to unpack .../66-libwebpmux3_1.4.0-0.1_amd64.deb ... 72s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 72s Selecting previously unselected package ncbi-acc-download. 72s Preparing to unpack .../67-ncbi-acc-download_0.2.8-3_all.deb ... 72s Unpacking ncbi-acc-download (0.2.8-3) ... 72s Selecting previously unselected package python3.13. 72s Preparing to unpack .../68-python3.13_3.13.0-2_amd64.deb ... 72s Unpacking python3.13 (3.13.0-2) ... 72s Selecting previously unselected package python3-all. 72s Preparing to unpack .../69-python3-all_3.12.7-1_amd64.deb ... 72s Unpacking python3-all (3.12.7-1) ... 72s Selecting previously unselected package python3-numpy. 72s Preparing to unpack .../70-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 72s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 72s Selecting previously unselected package libopenjp2-7:amd64. 72s Preparing to unpack .../71-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 72s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 72s Selecting previously unselected package python3-pil:amd64. 72s Preparing to unpack .../72-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 72s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 72s Selecting previously unselected package python3-cairo. 72s Preparing to unpack .../73-python3-cairo_1.26.1-2_amd64.deb ... 72s Unpacking python3-cairo (1.26.1-2) ... 72s Selecting previously unselected package python3-freetype. 72s Preparing to unpack .../74-python3-freetype_2.5.1-1_all.deb ... 72s Unpacking python3-freetype (2.5.1-1) ... 72s Selecting previously unselected package python3-rlpycairo. 72s Preparing to unpack .../75-python3-rlpycairo_0.3.0-3_all.deb ... 72s Unpacking python3-rlpycairo (0.3.0-3) ... 72s Selecting previously unselected package python3-reportlab. 72s Preparing to unpack .../76-python3-reportlab_4.2.5-1_all.deb ... 72s Unpacking python3-reportlab (4.2.5-1) ... 72s Selecting previously unselected package xml-core. 72s Preparing to unpack .../77-xml-core_0.19_all.deb ... 72s Unpacking xml-core (0.19) ... 73s Selecting previously unselected package w3c-sgml-lib. 73s Preparing to unpack .../78-w3c-sgml-lib_1.3-3_all.deb ... 73s Unpacking w3c-sgml-lib (1.3-3) ... 73s Selecting previously unselected package python3-biopython. 73s Preparing to unpack .../79-python3-biopython_1.84+dfsg-4_amd64.deb ... 73s Unpacking python3-biopython (1.84+dfsg-4) ... 73s Selecting previously unselected package python3-coverage. 73s Preparing to unpack .../80-python3-coverage_7.4.4+dfsg1-0ubuntu2_amd64.deb ... 73s Unpacking python3-coverage (7.4.4+dfsg1-0ubuntu2) ... 73s Selecting previously unselected package python3-iniconfig. 73s Preparing to unpack .../81-python3-iniconfig_1.1.1-2_all.deb ... 73s Unpacking python3-iniconfig (1.1.1-2) ... 73s Selecting previously unselected package python3-packaging. 73s Preparing to unpack .../82-python3-packaging_24.1-1_all.deb ... 73s Unpacking python3-packaging (24.1-1) ... 73s Selecting previously unselected package python3-pluggy. 73s Preparing to unpack .../83-python3-pluggy_1.5.0-1_all.deb ... 73s Unpacking python3-pluggy (1.5.0-1) ... 73s Selecting previously unselected package python3-pytest. 73s Preparing to unpack .../84-python3-pytest_8.3.3-1_all.deb ... 73s Unpacking python3-pytest (8.3.3-1) ... 73s Selecting previously unselected package libjs-jquery-isonscreen. 73s Preparing to unpack .../85-libjs-jquery-isonscreen_1.2.0-1.1_all.deb ... 73s Unpacking libjs-jquery-isonscreen (1.2.0-1.1) ... 73s Selecting previously unselected package python3-pytest-cov. 73s Preparing to unpack .../86-python3-pytest-cov_5.0.0-1_all.deb ... 73s Unpacking python3-pytest-cov (5.0.0-1) ... 73s Selecting previously unselected package python3-pytest-mock. 73s Preparing to unpack .../87-python3-pytest-mock_3.14.0-2_all.deb ... 73s Unpacking python3-pytest-mock (3.14.0-2) ... 73s Selecting previously unselected package python3-requests-mock. 73s Preparing to unpack .../88-python3-requests-mock_1.12.1-2_all.deb ... 73s Unpacking python3-requests-mock (1.12.1-2) ... 73s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 73s Setting up liblcms2-2:amd64 (2.16-2) ... 73s Setting up python3-iniconfig (1.1.1-2) ... 73s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 73s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 73s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 73s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 73s Setting up libxcb-render0:amd64 (1.17.0-2) ... 73s Setting up x11-common (1:7.7+23ubuntu3) ... 73s Setting up libdeflate0:amd64 (1.22-1) ... 73s Setting up python3-coverage (7.4.4+dfsg1-0ubuntu2) ... 74s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 74s Setting up libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... 74s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 74s Setting up python3-freetype (2.5.1-1) ... 74s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 74s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 74s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 74s Setting up libblas3:amd64 (3.12.0-3build2) ... 74s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 74s Setting up python3-packaging (24.1-1) ... 74s Setting up python3-requests-mock (1.12.1-2) ... 74s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 74s Setting up libquadmath0:amd64 (14.2.0-8ubuntu1) ... 74s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 74s Setting up fonts-dejavu-mono (2.37-8) ... 74s Setting up libmpc3:amd64 (1.3.1-1build2) ... 74s Setting up fonts-dejavu-core (2.37-8) ... 74s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 74s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 74s Setting up python3-pluggy (1.5.0-1) ... 74s Setting up libwebp7:amd64 (1.4.0-0.1) ... 74s Setting up libubsan1:amd64 (14.2.0-8ubuntu1) ... 74s Setting up libhwasan0:amd64 (14.2.0-8ubuntu1) ... 74s Setting up libasan8:amd64 (14.2.0-8ubuntu1) ... 74s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 74s Setting up python3.13-minimal (3.13.0-2) ... 75s Setting up ncbi-acc-download (0.2.8-3) ... 75s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 75s Setting up sgml-base (1.31) ... 75s Setting up libtsan2:amd64 (14.2.0-8ubuntu1) ... 75s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 75s Setting up libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ... 75s Setting up libisl23:amd64 (0.27-1) ... 75s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 75s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 75s Setting up libcc1-0:amd64 (14.2.0-8ubuntu1) ... 75s Setting up liblsan0:amd64 (14.2.0-8ubuntu1) ... 75s Setting up libitm1:amd64 (14.2.0-8ubuntu1) ... 75s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 75s Setting up liblapack3:amd64 (3.12.0-3build2) ... 75s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 75s Setting up python3.13 (3.13.0-2) ... 76s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 76s Setting up python3-pytest (8.3.3-1) ... 77s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 77s Setting up python3-all (3.12.7-1) ... 77s Setting up xfonts-utils (1:7.7+7) ... 77s Setting up libjs-jquery-metadata (12-4) ... 77s Setting up libraqm0:amd64 (0.10.1-1build1) ... 77s Setting up libjs-jquery-isonscreen (1.2.0-1.1) ... 77s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 77s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 79s Setting up cpp-14 (14.2.0-8ubuntu1) ... 79s Setting up libjs-jquery-tablesorter (1:2.31.3+dfsg1-4) ... 79s Setting up python3-pytest-mock (3.14.0-2) ... 79s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 79s Setting up xml-core (0.19) ... 80s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 80s Setting up libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 80s Setting up libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 80s Setting up cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 80s Setting up python3-pytest-cov (5.0.0-1) ... 80s Setting up fonts-urw-base35 (20200910-8) ... 80s Setting up libcairo2:amd64 (1.18.2-2) ... 80s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 80s Setting up cpp (4:14.1.0-2ubuntu1) ... 80s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 80s Setting up python3-cairo (1.26.1-2) ... 81s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 81s Setting up gcc-14 (14.2.0-8ubuntu1) ... 81s Setting up python3-rlpycairo (0.3.0-3) ... 81s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 81s Setting up python3-reportlab (4.2.5-1) ... 82s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 82s Setting up g++-14 (14.2.0-8ubuntu1) ... 82s Setting up gcc (4:14.1.0-2ubuntu1) ... 82s Setting up g++ (4:14.1.0-2ubuntu1) ... 82s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 82s Setting up build-essential (12.10ubuntu1) ... 82s Processing triggers for libc-bin (2.40-1ubuntu3) ... 82s Processing triggers for systemd (256.5-2ubuntu4) ... 82s Processing triggers for man-db (2.12.1-3) ... 83s Processing triggers for sgml-base (1.31) ... 83s Setting up w3c-sgml-lib (1.3-3) ... 105s Setting up python3-biopython (1.84+dfsg-4) ... 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s Starting pkgProblemResolver with broken count: 0 108s Starting 2 pkgProblemResolver with broken count: 0 108s Done 109s The following NEW packages will be installed: 109s autopkgtest-satdep 109s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 109s Need to get 0 B/696 B of archives. 109s After this operation, 0 B of additional disk space will be used. 109s Get:1 /tmp/autopkgtest.WHncE0/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [696 B] 109s Selecting previously unselected package autopkgtest-satdep. 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81302 files and directories currently installed.) 109s Preparing to unpack .../2-autopkgtest-satdep.deb ... 109s Unpacking autopkgtest-satdep (0) ... 109s Setting up autopkgtest-satdep (0) ... 111s (Reading database ... 81302 files and directories currently installed.) 111s Removing autopkgtest-satdep (0) ... 111s autopkgtest [20:49:13]: test run-unit-test: [----------------------- 111s /tmp/autopkgtest.WHncE0/build.25a/src/tests /tmp/autopkgtest.WHncE0/build.25a/src 111s Testing with python3.13 in /tmp/autopkgtest.WHncE0/build.25a/src/tests: 112s ============================= test session starts ============================== 112s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 112s cachedir: .pytest_cache 112s rootdir: /tmp/autopkgtest.WHncE0/build.25a/src 112s plugins: mock-3.14.0, typeguard-4.4.1, requests_mock-1.12.1, cov-5.0.0 112s collecting ... collected 32 items 112s 112s test_core.py::test_config PASSED [ 3%] 112s test_core.py::test_config_no_biopython PASSED [ 6%] 112s test_core.py::test_config_have_biopython FAILED [ 9%] 112s test_core.py::test_download_to_file PASSED [ 12%] 112s test_core.py::test_download_to_file_append PASSED [ 15%] 112s test_core.py::test_download_to_file_retry PASSED [ 18%] 112s test_core.py::test_build_params PASSED [ 21%] 112s test_core.py::test_generate_filename PASSED [ 25%] 112s test_core.py::test_validate_and_write_error_pattern_raises PASSED [ 28%] 112s test_core.py::test_validate_and_write_emit PASSED [ 31%] 112s test_core.py::test_validate_and_write_extended_validation FAILED [ 34%] 112s test_core.py::test_get_stream_exception PASSED [ 37%] 112s test_core.py::test_get_stream_bad_status PASSED [ 40%] 112s test_core.py::test_get_stream_too_many_requests PASSED [ 43%] 112s test_core.py::test_generate_url PASSED [ 46%] 112s test_core.py::test_generate_url_with_api_key PASSED [ 50%] 112s test_correct.py::test_download_and_validate_partial_wgs FAILED [ 53%] 112s test_download.py::test_write_stream PASSED [ 56%] 112s test_validate.py::test_run_extended_validation_no_biopython PASSED [ 59%] 112s test_validate.py::test_run_extended_validation_raises FAILED [ 62%] 112s test_validate.py::test_run_extended_validation_loads FAILED [ 65%] 112s test_wgs.py::test_init PASSED [ 68%] 112s test_wgs.py::test_get_ids PASSED [ 71%] 112s test_wgs.py::test_from_string PASSED [ 75%] 112s test_wgs.py::test_download_wgs_parts_no_biopython PASSED [ 78%] 112s test_wgs.py::test_download_wgs_parts_wgs FAILED [ 81%] 112s test_wgs.py::test_download_wgs_parts_wgs_retry FAILED [ 84%] 112s test_wgs.py::test_download_wgs_parts_wgs_scafld FAILED [ 87%] 112s test_wgs.py::test_download_wgs_parts_supercontig FAILED [ 90%] 112s test_wgs.py::test_download_wgs_parts_supercontig_retry FAILED [ 93%] 112s test_wgs.py::test_download_wgs_no_parts FAILED [ 96%] 112s test_wgs.py::test_download_wgs_parts_tsa XFAIL [100%] 112s 112s =================================== FAILURES =================================== 112s __________________________ test_config_have_biopython __________________________ 112s 112s def test_config_have_biopython(): 112s """Test we detect Biopython.""" 112s > assert core.HAVE_BIOPYTHON 112s E assert False 112s E + where False = core.HAVE_BIOPYTHON 112s 112s test_core.py:46: AssertionError 112s _________________ test_validate_and_write_extended_validation __________________ 112s 112s req = 112s 112s def test_validate_and_write_extended_validation(req): 112s """Test extended validation before writing.""" 112s handle = StringIO() 112s req.get('http://fake/', text=u'>foo\nMAGIC') 112s r = requests.get('http://fake/') 112s > config = core.Config(extended_validation='loads', molecule='protein') 112s 112s test_core.py:226: 112s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 112s /usr/lib/python3/dist-packages/ncbi_acc_download/core.py:64: in __init__ 112s self.extended_validation = extended_validation 112s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 112s 112s self = , value = 'loads' 112s 112s @extended_validation.setter 112s def extended_validation(self, value): 112s if value != 'none' and not HAVE_BIOPYTHON: 112s > raise ValueError("Asked for extended validation, but Biopython not available") 112s E ValueError: Asked for extended validation, but Biopython not available 112s 112s /usr/lib/python3/dist-packages/ncbi_acc_download/core.py:96: ValueError 112s ____________________ test_download_and_validate_partial_wgs ____________________ 112s 112s req = 112s 112s def test_download_and_validate_partial_wgs(req): 112s handle = StringIO(open(full_path('partialcontig.gbk'), 'r').read()) 112s > assert validate.run_extended_validation(handle, 'genbank', 'loads') 112s E AssertionError: assert False 112s E + where False = (<_io.StringIO object at 0x7319f593eec0>, 'genbank', 'loads') 112s E + where = validate.run_extended_validation 112s 112s test_correct.py:15: AssertionError 112s _____________________ test_run_extended_validation_raises ______________________ 112s 112s monkeypatch = <_pytest.monkeypatch.MonkeyPatch object at 0x7319f579fbf0> 112s mocker = 112s 112s def test_run_extended_validation_raises(monkeypatch, mocker): 112s """Test the "seqence loads" validator catches exceptions in SeqIO.parse().""" 112s seqio_mock = mocker.MagicMock() 112s seqio_mock.parse = mocker.MagicMock(side_effect=ValueError) 112s > monkeypatch.setattr(validate, 'SeqIO', seqio_mock) 112s E AttributeError: has no attribute 'SeqIO' 112s 112s test_validate.py:19: AttributeError 112s ______________________ test_run_extended_validation_loads ______________________ 112s 112s def test_run_extended_validation_loads(): 112s """Test the "sequence loads" validator.""" 112s handle = StringIO(u'>foo\nATGC\n>bar\nATGTGA\n') 112s > assert validate.run_extended_validation(handle, 'fasta', 'loads') 112s E AssertionError: assert False 112s E + where False = (<_io.StringIO object at 0x7319f593e680>, 'fasta', 'loads') 112s E + where = validate.run_extended_validation 112s 112s test_validate.py:29: AssertionError 112s _________________________ test_download_wgs_parts_wgs __________________________ 112s 112s req = 112s 112s def test_download_wgs_parts_wgs(req): 112s cfg = Config(format="genbank") 112s wgs_contig = open(full_path('wgs.gbk'), 'rt') 112s req.get( 112s ENTREZ_URL, 112s body=open(full_path('wgs_full.gbk'), 'rb'), 112s headers={"Content-Type": "text/plain; charset=UTF-8"}, 112s ) 112s 112s outhandle = wgs.download_wgs_parts(wgs_contig, cfg) 112s wgs_full = open(full_path('wgs_full.gbk'), 'rt') 112s > assert outhandle.getvalue() == wgs_full.read() 112s E AttributeError: '_io.TextIOWrapper' object has no attribute 'getvalue' 112s 112s test_wgs.py:95: AttributeError 112s ______________________ test_download_wgs_parts_wgs_retry _______________________ 112s 112s req = 112s 112s def test_download_wgs_parts_wgs_retry(req): 112s cfg = Config(format="genbank") 112s wgs_contig = open(full_path('wgs.gbk'), 'rt') 112s req.get(ENTREZ_URL, response_list=[ 112s {"text": u'Whoa, slow down', "status_code": 429, "headers": {"Retry-After": "0"}}, 112s { 112s "body": open(full_path('wgs_full.gbk'), 'rb'), 112s "headers": {"Content-Type": "text/plain; charset=UTF-8"}, 112s }, 112s ]) 112s 112s outhandle = wgs.download_wgs_parts(wgs_contig, cfg) 112s wgs_full = open(full_path('wgs_full.gbk'), 'rt') 112s > assert outhandle.getvalue() == wgs_full.read() 112s E AttributeError: '_io.TextIOWrapper' object has no attribute 'getvalue' 112s 112s test_wgs.py:113: AttributeError 112s ______________________ test_download_wgs_parts_wgs_scafld ______________________ 112s 112s req = 112s 112s def test_download_wgs_parts_wgs_scafld(req): 112s cfg = Config(format="genbank") 112s wgs_contig = open(full_path('wgs_scafld.gbk'), 'rt') 112s with open(full_path('wgs_full.gbk'), 'rt') as handle: 112s full_file = handle.read() 112s req.get(ENTREZ_URL, text=full_file) 112s 112s outhandle = wgs.download_wgs_parts(wgs_contig, cfg) 112s > assert outhandle.getvalue() == full_file 112s E AttributeError: '_io.TextIOWrapper' object has no attribute 'getvalue' 112s 112s test_wgs.py:126: AttributeError 112s _____________________ test_download_wgs_parts_supercontig ______________________ 112s 112s req = 112s 112s def test_download_wgs_parts_supercontig(req): 112s cfg = Config(format="genbank") 112s supercontig = open(full_path('supercontig.gbk'), 'rt') 112s req.get( 112s ENTREZ_URL, 112s body=open(full_path('supercontig_full.gbk'), 'rb'), 112s headers={"Content-Type": "text/plain; charset=UTF-8"}, 112s ) 112s 112s outhandle = wgs.download_wgs_parts(supercontig, cfg) 112s supercontig_full = open(full_path('supercontig_full.gbk'), 'rt') 112s > assert outhandle.getvalue() == supercontig_full.read() 112s E AttributeError: '_io.TextIOWrapper' object has no attribute 'getvalue' 112s 112s test_wgs.py:141: AttributeError 112s __________________ test_download_wgs_parts_supercontig_retry ___________________ 112s 112s req = 112s 112s def test_download_wgs_parts_supercontig_retry(req): 112s cfg = Config(format="genbank") 112s supercontig = open(full_path('supercontig.gbk'), 'rt') 112s req.get(ENTREZ_URL, response_list=[ 112s {"text": u'Whoa, slow down', "status_code": 429, "headers": {"Retry-After": "0"}}, 112s { 112s "body": open(full_path('supercontig_full.gbk'), 'rb'), 112s "headers": {"Content-Type": "text/plain; charset=UTF-8"}, 112s }, 112s ]) 112s 112s outhandle = wgs.download_wgs_parts(supercontig, cfg) 112s supercontig_full = open(full_path('supercontig_full.gbk'), 'rt') 112s > assert outhandle.getvalue() == supercontig_full.read() 112s E AttributeError: '_io.TextIOWrapper' object has no attribute 'getvalue' 112s 112s test_wgs.py:159: AttributeError 112s __________________________ test_download_wgs_no_parts __________________________ 112s 112s req = 112s 112s def test_download_wgs_no_parts(req): 112s cfg = Config(format="genbank") 112s supercontig = open(full_path('supercontig_full.gbk'), 'rt') 112s req.get(ENTREZ_URL, status_code=404) 112s 112s outhandle = wgs.download_wgs_parts(supercontig, cfg) 112s supercontig_full = open(full_path('supercontig_full.gbk'), 'rt') 112s > assert outhandle.getvalue() == supercontig_full.read() 112s E AttributeError: '_io.TextIOWrapper' object has no attribute 'getvalue' 112s 112s test_wgs.py:171: AttributeError 112s =========================== short test summary info ============================ 112s FAILED test_core.py::test_config_have_biopython - assert False 112s FAILED test_core.py::test_validate_and_write_extended_validation - ValueError... 112s FAILED test_correct.py::test_download_and_validate_partial_wgs - AssertionErr... 112s FAILED test_validate.py::test_run_extended_validation_raises - AttributeError... 112s FAILED test_validate.py::test_run_extended_validation_loads - AssertionError:... 112s FAILED test_wgs.py::test_download_wgs_parts_wgs - AttributeError: '_io.TextIO... 112s FAILED test_wgs.py::test_download_wgs_parts_wgs_retry - AttributeError: '_io.... 112s FAILED test_wgs.py::test_download_wgs_parts_wgs_scafld - AttributeError: '_io... 112s FAILED test_wgs.py::test_download_wgs_parts_supercontig - AttributeError: '_i... 112s FAILED test_wgs.py::test_download_wgs_parts_supercontig_retry - AttributeErro... 112s FAILED test_wgs.py::test_download_wgs_no_parts - AttributeError: '_io.TextIOW... 112s =================== 11 failed, 20 passed, 1 xfailed in 0.17s =================== 112s autopkgtest [20:49:14]: test run-unit-test: -----------------------] 113s run-unit-test FAIL non-zero exit status 1 113s autopkgtest [20:49:15]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 113s autopkgtest [20:49:15]: @@@@@@@@@@@@@@@@@@@@ summary 113s run-unit-test FAIL non-zero exit status 1 117s nova [W] Skipping flock for amd64 117s Creating nova instance adt-plucky-i386-ncbi-acc-download-20241114-204722-juju-7f2275-prod-proposed-migration-environment-20-4c03ceff-23b9-4ec9-9710-16c22aa0aa13 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...