0s autopkgtest [02:19:33]: starting date and time: 2024-11-17 02:19:33+0000 0s autopkgtest [02:19:33]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [02:19:33]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.yn91vlip/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python-packaging --apt-upgrade python-pyfaidx --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python-packaging/24.2-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-17.secgroup --name adt-plucky-amd64-python-pyfaidx-20241117-014431-juju-7f2275-prod-proposed-migration-environment-20-c6846280-9087-42dc-9eb6-a24b3a518814 --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/ 43s autopkgtest [02:20:16]: testbed dpkg architecture: amd64 43s autopkgtest [02:20:16]: testbed apt version: 2.9.8 43s autopkgtest [02:20:16]: @@@@@@@@@@@@@@@@@@@@ test bed setup 44s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 45s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 45s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [982 kB] 45s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.1 kB] 45s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [88.9 kB] 45s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [108 kB] 45s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [168 kB] 45s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 45s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [795 kB] 45s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [296 kB] 45s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [1116 B] 45s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9728 B] 45s Fetched 2578 kB in 1s (3062 kB/s) 45s Reading package lists... 47s Reading package lists... 48s Building dependency tree... 48s Reading state information... 48s Calculating upgrade... 48s The following NEW packages will be installed: 48s python3.13-gdbm 48s The following packages will be upgraded: 48s debianutils dmidecode libftdi1-2 libnvme1t64 python3-gdbm 48s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 48s Need to get 325 kB of archives. 48s After this operation, 101 kB of additional disk space will be used. 48s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 debianutils amd64 5.21 [92.9 kB] 48s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 dmidecode amd64 3.6-2 [73.6 kB] 48s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 48s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 48s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libftdi1-2 amd64 1.5-7build1 [30.2 kB] 48s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libnvme1t64 amd64 1.11-2 [88.7 kB] 49s Fetched 325 kB in 0s (802 kB/s) 49s (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 ... 75582 files and directories currently installed.) 49s Preparing to unpack .../debianutils_5.21_amd64.deb ... 49s Unpacking debianutils (5.21) over (5.20) ... 49s Setting up debianutils (5.21) ... 49s (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 ... 75582 files and directories currently installed.) 49s Preparing to unpack .../dmidecode_3.6-2_amd64.deb ... 49s Unpacking dmidecode (3.6-2) over (3.6-1) ... 49s Selecting previously unselected package python3.13-gdbm. 49s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 49s Unpacking python3.13-gdbm (3.13.0-2) ... 49s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 49s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 49s Preparing to unpack .../libftdi1-2_1.5-7build1_amd64.deb ... 49s Unpacking libftdi1-2:amd64 (1.5-7build1) over (1.5-7) ... 49s Preparing to unpack .../libnvme1t64_1.11-2_amd64.deb ... 49s Unpacking libnvme1t64 (1.11-2) over (1.11-1) ... 49s Setting up libftdi1-2:amd64 (1.5-7build1) ... 49s Setting up libnvme1t64 (1.11-2) ... 49s Setting up dmidecode (3.6-2) ... 49s Setting up python3.13-gdbm (3.13.0-2) ... 49s Setting up python3-gdbm:amd64 (3.12.7-1) ... 49s Processing triggers for man-db (2.13.0-1) ... 50s Processing triggers for libc-bin (2.40-1ubuntu3) ... 50s Reading package lists... 50s Building dependency tree... 50s Reading state information... 51s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 51s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 51s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 51s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 51s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 52s Reading package lists... 52s Reading package lists... 52s Building dependency tree... 52s Reading state information... 52s Calculating upgrade... 52s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 52s Reading package lists... 53s Building dependency tree... 53s Reading state information... 53s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 55s autopkgtest [02:20:28]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 56s autopkgtest [02:20:29]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 57s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (dsc) [2544 B] 57s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (tar) [96.5 kB] 57s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (diff) [7096 B] 58s gpgv: Signature made Wed Oct 16 19:20:44 2024 UTC 58s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 58s gpgv: issuer "emollier@debian.org" 58s gpgv: Can't check signature: No public key 58s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.3-1.dsc: no acceptable signature found 58s autopkgtest [02:20:31]: testing package python-pyfaidx version 0.8.1.3-1 58s autopkgtest [02:20:31]: build not needed 58s autopkgtest [02:20:31]: test run-unit-test: preparing testbed 59s Reading package lists... 60s Building dependency tree... 60s Reading state information... 60s Starting pkgProblemResolver with broken count: 0 60s Starting 2 pkgProblemResolver with broken count: 0 60s Done 60s The following additional packages will be installed: 60s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 60s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libgfortran5 60s libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 libimagequant0 libjbig0 60s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 60s libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 60s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python-pyfaidx-examples 60s python3-all python3-biopython python3-cairo python3-freetype 60s python3-importlib-metadata python3-iniconfig python3-numpy python3-packaging 60s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 60s python3-rlpycairo sgml-base tabix w3c-sgml-lib x11-common xfonts-encodings 60s xfonts-utils xml-core 60s Suggested packages: 60s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 60s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 60s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 60s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 60s gcc gfortran python-numpy-doc python3-dev python-pil-doc pdf-viewer 60s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 60s sgml-base-doc debhelper 60s Recommended packages: 60s python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra 60s The following NEW packages will be installed: 60s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 60s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 60s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 60s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 60s liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 60s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 60s python-pyfaidx-examples python3-all python3-biopython python3-cairo 60s python3-freetype python3-importlib-metadata python3-iniconfig python3-numpy 60s python3-packaging python3-pil python3-pluggy python3-pyfaidx python3-pytest 60s python3-reportlab python3-rlpycairo sgml-base tabix w3c-sgml-lib x11-common 60s xfonts-encodings xfonts-utils xml-core 60s 0 upgraded, 55 newly installed, 0 to remove and 0 not upgraded. 60s Need to get 29.5 MB/29.5 MB of archives. 60s After this operation, 93.8 MB of additional disk space will be used. 60s Get:1 /tmp/autopkgtest.Bj8doW/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [752 B] 60s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 60s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 61s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 61s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 61s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 61s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 61s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 61s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 61s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 61s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 61s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 61s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 61s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 61s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 61s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 61s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 61s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 61s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 61s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 61s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 61s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 61s Get:23 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 61s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 61s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 61s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 61s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 61s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 61s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 61s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 61s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 61s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 61s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 61s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 61s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 61s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 61s Get:37 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-pyfaidx-examples all 0.8.1.3-1 [38.6 kB] 61s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 61s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 61s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 61s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 61s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 61s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 61s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 61s Get:45 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 61s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 61s Get:47 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 61s Get:48 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4 [1714 kB] 61s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 61s Get:50 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 61s Get:51 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-packaging all 24.2-1 [51.5 kB] 61s Get:52 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 61s Get:53 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 61s Get:54 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 62s Get:55 http://ftpmaster.internal/ubuntu plucky/universe amd64 tabix amd64 1.20+ds-1 [510 kB] 62s Fetched 29.5 MB in 2s (19.5 MB/s) 62s Selecting previously unselected package sgml-base. 62s (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 ... 75588 files and directories currently installed.) 62s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 62s Unpacking sgml-base (1.31) ... 62s Selecting previously unselected package fonts-dejavu-mono. 62s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 62s Unpacking fonts-dejavu-mono (2.37-8) ... 62s Selecting previously unselected package fonts-dejavu-core. 62s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 62s Unpacking fonts-dejavu-core (2.37-8) ... 62s Selecting previously unselected package libfontenc1:amd64. 62s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 62s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 62s Selecting previously unselected package x11-common. 62s Preparing to unpack .../04-x11-common_1%3a7.7+23ubuntu3_all.deb ... 62s Unpacking x11-common (1:7.7+23ubuntu3) ... 62s Selecting previously unselected package xfonts-encodings. 62s Preparing to unpack .../05-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 62s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 62s Selecting previously unselected package xfonts-utils. 62s Preparing to unpack .../06-xfonts-utils_1%3a7.7+7_amd64.deb ... 62s Unpacking xfonts-utils (1:7.7+7) ... 62s Selecting previously unselected package fonts-urw-base35. 62s Preparing to unpack .../07-fonts-urw-base35_20200910-8_all.deb ... 62s Unpacking fonts-urw-base35 (20200910-8) ... 62s Selecting previously unselected package fontconfig-config. 62s Preparing to unpack .../08-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 62s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 62s Selecting previously unselected package libblas3:amd64. 62s Preparing to unpack .../09-libblas3_3.12.0-3build2_amd64.deb ... 62s Unpacking libblas3:amd64 (3.12.0-3build2) ... 62s Selecting previously unselected package libfontconfig1:amd64. 62s Preparing to unpack .../10-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 62s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 62s Selecting previously unselected package libpixman-1-0:amd64. 63s Preparing to unpack .../11-libpixman-1-0_0.44.0-3_amd64.deb ... 63s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 63s Selecting previously unselected package libxcb-render0:amd64. 63s Preparing to unpack .../12-libxcb-render0_1.17.0-2_amd64.deb ... 63s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 63s Selecting previously unselected package libxcb-shm0:amd64. 63s Preparing to unpack .../13-libxcb-shm0_1.17.0-2_amd64.deb ... 63s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 63s Selecting previously unselected package libxrender1:amd64. 63s Preparing to unpack .../14-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 63s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 63s Selecting previously unselected package libcairo2:amd64. 63s Preparing to unpack .../15-libcairo2_1.18.2-2_amd64.deb ... 63s Unpacking libcairo2:amd64 (1.18.2-2) ... 63s Selecting previously unselected package libdeflate0:amd64. 63s Preparing to unpack .../16-libdeflate0_1.22-1_amd64.deb ... 63s Unpacking libdeflate0:amd64 (1.22-1) ... 63s Selecting previously unselected package libgfortran5:amd64. 63s Preparing to unpack .../17-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 63s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 63s Selecting previously unselected package libgomp1:amd64. 63s Preparing to unpack .../18-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 63s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 63s Selecting previously unselected package libgraphite2-3:amd64. 63s Preparing to unpack .../19-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 63s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 63s Selecting previously unselected package libharfbuzz0b:amd64. 63s Preparing to unpack .../20-libharfbuzz0b_10.0.1-1_amd64.deb ... 63s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 63s Selecting previously unselected package libhtscodecs2:amd64. 63s Preparing to unpack .../21-libhtscodecs2_1.6.1-1_amd64.deb ... 63s Unpacking libhtscodecs2:amd64 (1.6.1-1) ... 63s Selecting previously unselected package libimagequant0:amd64. 63s Preparing to unpack .../22-libimagequant0_2.18.0-1build1_amd64.deb ... 63s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 63s Selecting previously unselected package libjpeg-turbo8:amd64. 63s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 63s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 63s Selecting previously unselected package libjpeg8:amd64. 63s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_amd64.deb ... 63s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 63s Selecting previously unselected package liblapack3:amd64. 63s Preparing to unpack .../25-liblapack3_3.12.0-3build2_amd64.deb ... 63s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 63s Selecting previously unselected package liblcms2-2:amd64. 63s Preparing to unpack .../26-liblcms2-2_2.16-2_amd64.deb ... 63s Unpacking liblcms2-2:amd64 (2.16-2) ... 63s Selecting previously unselected package liblerc4:amd64. 63s Preparing to unpack .../27-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 63s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 63s Selecting previously unselected package libraqm0:amd64. 63s Preparing to unpack .../28-libraqm0_0.10.1-1build1_amd64.deb ... 63s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 63s Selecting previously unselected package libsharpyuv0:amd64. 63s Preparing to unpack .../29-libsharpyuv0_1.4.0-0.1_amd64.deb ... 63s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 63s Selecting previously unselected package libjbig0:amd64. 63s Preparing to unpack .../30-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 63s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 63s Selecting previously unselected package libwebp7:amd64. 63s Preparing to unpack .../31-libwebp7_1.4.0-0.1_amd64.deb ... 63s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 63s Selecting previously unselected package libtiff6:amd64. 63s Preparing to unpack .../32-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 63s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 63s Selecting previously unselected package libwebpdemux2:amd64. 63s Preparing to unpack .../33-libwebpdemux2_1.4.0-0.1_amd64.deb ... 63s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 63s Selecting previously unselected package libwebpmux3:amd64. 63s Preparing to unpack .../34-libwebpmux3_1.4.0-0.1_amd64.deb ... 63s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 63s Selecting previously unselected package python-pyfaidx-examples. 63s Preparing to unpack .../35-python-pyfaidx-examples_0.8.1.3-1_all.deb ... 63s Unpacking python-pyfaidx-examples (0.8.1.3-1) ... 63s Selecting previously unselected package python3-all. 63s Preparing to unpack .../36-python3-all_3.12.6-0ubuntu1_amd64.deb ... 63s Unpacking python3-all (3.12.6-0ubuntu1) ... 63s Selecting previously unselected package python3-numpy. 63s Preparing to unpack .../37-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 63s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 63s Selecting previously unselected package libopenjp2-7:amd64. 63s Preparing to unpack .../38-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 63s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 63s Selecting previously unselected package python3-pil:amd64. 63s Preparing to unpack .../39-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 63s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 63s Selecting previously unselected package python3-cairo. 63s Preparing to unpack .../40-python3-cairo_1.26.1-2_amd64.deb ... 63s Unpacking python3-cairo (1.26.1-2) ... 63s Selecting previously unselected package python3-freetype. 63s Preparing to unpack .../41-python3-freetype_2.5.1-1_all.deb ... 63s Unpacking python3-freetype (2.5.1-1) ... 63s Selecting previously unselected package python3-rlpycairo. 63s Preparing to unpack .../42-python3-rlpycairo_0.3.0-3_all.deb ... 63s Unpacking python3-rlpycairo (0.3.0-3) ... 63s Selecting previously unselected package python3-reportlab. 63s Preparing to unpack .../43-python3-reportlab_4.2.5-1_all.deb ... 63s Unpacking python3-reportlab (4.2.5-1) ... 63s Selecting previously unselected package xml-core. 63s Preparing to unpack .../44-xml-core_0.19_all.deb ... 63s Unpacking xml-core (0.19) ... 63s Selecting previously unselected package w3c-sgml-lib. 63s Preparing to unpack .../45-w3c-sgml-lib_1.3-3_all.deb ... 63s Unpacking w3c-sgml-lib (1.3-3) ... 64s Selecting previously unselected package python3-biopython. 64s Preparing to unpack .../46-python3-biopython_1.84+dfsg-4_amd64.deb ... 64s Unpacking python3-biopython (1.84+dfsg-4) ... 64s Selecting previously unselected package python3-importlib-metadata. 64s Preparing to unpack .../47-python3-importlib-metadata_8.5.0-1_all.deb ... 64s Unpacking python3-importlib-metadata (8.5.0-1) ... 64s Selecting previously unselected package python3-iniconfig. 64s Preparing to unpack .../48-python3-iniconfig_1.1.1-2_all.deb ... 64s Unpacking python3-iniconfig (1.1.1-2) ... 64s Selecting previously unselected package python3-packaging. 64s Preparing to unpack .../49-python3-packaging_24.2-1_all.deb ... 64s Unpacking python3-packaging (24.2-1) ... 64s Selecting previously unselected package python3-pluggy. 64s Preparing to unpack .../50-python3-pluggy_1.5.0-1_all.deb ... 64s Unpacking python3-pluggy (1.5.0-1) ... 64s Selecting previously unselected package python3-pyfaidx. 64s Preparing to unpack .../51-python3-pyfaidx_0.8.1.3-1_all.deb ... 64s Unpacking python3-pyfaidx (0.8.1.3-1) ... 64s Selecting previously unselected package python3-pytest. 64s Preparing to unpack .../52-python3-pytest_8.3.3-1_all.deb ... 64s Unpacking python3-pytest (8.3.3-1) ... 64s Selecting previously unselected package tabix. 64s Preparing to unpack .../53-tabix_1.20+ds-1_amd64.deb ... 64s Unpacking tabix (1.20+ds-1) ... 64s Selecting previously unselected package autopkgtest-satdep. 64s Preparing to unpack .../54-1-autopkgtest-satdep.deb ... 64s Unpacking autopkgtest-satdep (0) ... 64s Setting up libhtscodecs2:amd64 (1.6.1-1) ... 64s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 64s Setting up liblcms2-2:amd64 (2.16-2) ... 64s Setting up python3-iniconfig (1.1.1-2) ... 64s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 64s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 64s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 64s Setting up python3-importlib-metadata (8.5.0-1) ... 64s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 64s Setting up python-pyfaidx-examples (0.8.1.3-1) ... 64s Setting up libxcb-render0:amd64 (1.17.0-2) ... 64s Setting up x11-common (1:7.7+23ubuntu3) ... 64s Setting up libdeflate0:amd64 (1.22-1) ... 64s Setting up python3-all (3.12.6-0ubuntu1) ... 64s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 64s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 64s Setting up python3-freetype (2.5.1-1) ... 64s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 64s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 64s Setting up libblas3:amd64 (3.12.0-3build2) ... 64s 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 64s Setting up python3-packaging (24.2-1) ... 65s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 65s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 65s Setting up fonts-dejavu-mono (2.37-8) ... 65s Setting up fonts-dejavu-core (2.37-8) ... 65s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 65s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 65s Setting up python3-pluggy (1.5.0-1) ... 65s Setting up libwebp7:amd64 (1.4.0-0.1) ... 65s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 65s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 65s Setting up sgml-base (1.31) ... 65s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 65s Setting up tabix (1.20+ds-1) ... 65s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 65s Setting up python3-pyfaidx (0.8.1.3-1) ... 65s Setting up liblapack3:amd64 (3.12.0-3build2) ... 65s 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 65s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 65s Setting up python3-pytest (8.3.3-1) ... 65s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 65s Setting up xfonts-utils (1:7.7+7) ... 65s Setting up libraqm0:amd64 (0.10.1-1build1) ... 65s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 67s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 67s Setting up xml-core (0.19) ... 67s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 67s Setting up fonts-urw-base35 (20200910-8) ... 67s Setting up libcairo2:amd64 (1.18.2-2) ... 67s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 67s Setting up python3-cairo (1.26.1-2) ... 67s Setting up python3-rlpycairo (0.3.0-3) ... 67s Setting up python3-reportlab (4.2.5-1) ... 68s Processing triggers for libc-bin (2.40-1ubuntu3) ... 68s Processing triggers for man-db (2.13.0-1) ... 68s Processing triggers for sgml-base (1.31) ... 68s Setting up w3c-sgml-lib (1.3-3) ... 91s Setting up python3-biopython (1.84+dfsg-4) ... 91s Setting up autopkgtest-satdep (0) ... 94s (Reading database ... 79060 files and directories currently installed.) 94s Removing autopkgtest-satdep (0) ... 95s autopkgtest [02:21:08]: test run-unit-test: [----------------------- 95s Testing with python3.12 in /tmp/autopkgtest.Bj8doW/build.vbI/src: 95s ============================= test session starts ============================== 95s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 95s cachedir: .pytest_cache 95s rootdir: /tmp/autopkgtest.Bj8doW/build.vbI/src 95s configfile: pyproject.toml 95s plugins: typeguard-4.4.1 95s collecting ... collected 136 items 95s 95s tests/test_FastaRecord.py::test_sequence_uppercase PASSED [ 0%] 95s tests/test_FastaRecord.py::test_long_names PASSED [ 1%] 95s tests/test_FastaRecord.py::test_issue_62 PASSED [ 2%] 95s tests/test_FastaRecord.py::test_unpadded_length PASSED [ 2%] 95s tests/test_FastaRecord.py::test_numpy_array PASSED [ 3%] 96s tests/test_FastaRecord_iter.py::test_fetch_whole_fasta PASSED [ 4%] 96s tests/test_FastaRecord_iter.py::test_line_len PASSED [ 5%] 96s tests/test_FastaRecord_iter.py::test_reverse_iter PASSED [ 5%] 96s tests/test_FastaVariant.py::test_fetch_variant SKIPPED (pysam not in...) [ 6%] 96s tests/test_FastaVariant.py::test_fetch_hom_variant SKIPPED (pysam no...) [ 7%] 96s tests/test_FastaVariant.py::test_fetch_het_variant SKIPPED (pysam no...) [ 8%] 96s tests/test_FastaVariant.py::test_fetch_chr_not_in_vcf SKIPPED (pysam...) [ 8%] 96s tests/test_FastaVariant.py::test_all_pos SKIPPED (pysam not installed.) [ 9%] 96s tests/test_FastaVariant.py::test_all_diff SKIPPED (pysam not installed.) [ 10%] 96s tests/test_Fasta_bgzip.py::test_build_issue_126 XFAIL [ 11%] 96s tests/test_Fasta_bgzip.py::test_integer_slice PASSED [ 11%] 96s tests/test_Fasta_bgzip.py::test_integer_index PASSED [ 12%] 96s tests/test_Fasta_bgzip.py::test_fetch_whole_fasta PASSED [ 13%] 96s tests/test_Fasta_bgzip.py::test_line_len PASSED [ 13%] 96s tests/test_Fasta_bgzip.py::test_mutable_bgzf PASSED [ 14%] 96s tests/test_Fasta_bgzip.py::test_long_names XFAIL [ 15%] 96s tests/test_Fasta_bgzip.py::test_fetch_whole_entry PASSED [ 16%] 96s tests/test_Fasta_bgzip.py::test_fetch_middle PASSED [ 16%] 96s tests/test_Fasta_bgzip.py::test_fetch_end PASSED [ 17%] 96s tests/test_Fasta_bgzip.py::test_fetch_border PASSED [ 18%] 96s tests/test_Fasta_bgzip.py::test_rev PASSED [ 19%] 96s tests/test_Fasta_bgzip.py::test_fetch_past_bounds PASSED [ 19%] 96s tests/test_Fasta_bgzip.py::test_fetch_negative PASSED [ 20%] 96s tests/test_Fasta_bgzip.py::test_fetch_reversed_coordinates PASSED [ 21%] 96s tests/test_Fasta_bgzip.py::test_fetch_keyerror PASSED [ 22%] 96s tests/test_Fasta_bgzip.py::test_blank_string PASSED [ 22%] 96s tests/test_Fasta_bgzip.py::test_slice_from_beginning PASSED [ 23%] 96s tests/test_Fasta_bgzip.py::test_slice_from_end PASSED [ 24%] 96s tests/test_Fasta_bgzip.py::test_issue_74_start PASSED [ 25%] 96s tests/test_Fasta_bgzip.py::test_issue_74_consistency PASSED [ 25%] 96s tests/test_Fasta_bgzip.py::test_issue_74_end_faidx PASSED [ 26%] 96s tests/test_Fasta_bgzip.py::test_issue_74_end_fasta PASSED [ 27%] 96s tests/test_Fasta_bgzip.py::test_issue_79_fix PASSED [ 27%] 96s tests/test_Fasta_bgzip.py::test_issue_79_fix_negate PASSED [ 28%] 96s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false PASSED [ 29%] 96s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false_negate PASSED [ 30%] 96s tests/test_Fasta_bgzip.py::test_fetch_border_padded PASSED [ 30%] 96s tests/test_Fasta_integer_index.py::test_integer_slice PASSED [ 31%] 96s tests/test_Fasta_integer_index.py::test_integer_index PASSED [ 32%] 96s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads PASSED [ 33%] 96s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads_and_writes PASSED [ 33%] 96s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_writes PASSED [ 34%] 96s tests/test_Path.py::test_Faidx PASSED [ 35%] 96s tests/test_Path.py::test_Fasta PASSED [ 36%] 96s tests/test_bio_seqio.py::test_fetch_whole_entry PASSED [ 36%] 96s tests/test_bio_seqio.py::test_slice_whole_entry PASSED [ 37%] 96s tests/test_bio_seqio.py::test_revcomp_whole_entry PASSED [ 38%] 96s tests/test_faidx.py::test_short_line_lengths PASSED [ 38%] 96s tests/test_faidx.py::test_fetch_whole_file PASSED [ 39%] 96s tests/test_faidx.py::test_split_entry PASSED [ 40%] 96s tests/test_faidx.py::test_fetch_error PASSED [ 41%] 96s tests/test_faidx.py::test_key_warning PASSED [ 41%] 96s tests/test_faidx.py::test_auto_strand PASSED [ 42%] 96s tests/test_faidx.py::test_regexp PASSED [ 43%] 96s tests/test_faidx.py::test_not_regexp PASSED [ 44%] 96s tests/test_faidx.py::test_not_regexp_multi PASSED [ 44%] 96s tests/test_feature_bounds_check.py::test_index_zero_length PASSED [ 45%] 96s tests/test_feature_bounds_check.py::test_fetch_zero_length PASSED [ 46%] 96s tests/test_feature_bounds_check.py::test_as_raw_zero_length_subsequence PASSED [ 47%] 96s tests/test_feature_bounds_check.py::test_zero_length_subsequence PASSED [ 47%] 96s tests/test_feature_bounds_check.py::test_fetch_whole_entry PASSED [ 48%] 96s tests/test_feature_bounds_check.py::test_fetch_middle PASSED [ 49%] 96s tests/test_feature_bounds_check.py::test_fetch_end PASSED [ 50%] 96s tests/test_feature_bounds_check.py::test_fetch_border PASSED [ 50%] 96s tests/test_feature_bounds_check.py::test_rev PASSED [ 51%] 96s tests/test_feature_bounds_check.py::test_fetch_past_bounds PASSED [ 52%] 96s tests/test_feature_bounds_check.py::test_fetch_negative PASSED [ 52%] 96s tests/test_feature_bounds_check.py::test_fetch_reversed_coordinates PASSED [ 53%] 96s tests/test_feature_bounds_check.py::test_fetch_keyerror PASSED [ 54%] 96s tests/test_feature_bounds_check.py::test_blank_string PASSED [ 55%] 96s tests/test_feature_bounds_check.py::test_slice_from_beginning PASSED [ 55%] 96s tests/test_feature_bounds_check.py::test_slice_from_end PASSED [ 56%] 96s tests/test_feature_bounds_check.py::test_issue_74_start PASSED [ 57%] 96s tests/test_feature_bounds_check.py::test_issue_74_consistency PASSED [ 58%] 96s tests/test_feature_bounds_check.py::test_issue_74_end_faidx PASSED [ 58%] 96s tests/test_feature_bounds_check.py::test_issue_74_end_fasta PASSED [ 59%] 96s tests/test_feature_bounds_check.py::test_issue_79_fix PASSED [ 60%] 96s tests/test_feature_bounds_check.py::test_issue_79_fix_negate PASSED [ 61%] 96s tests/test_feature_bounds_check.py::test_issue_79_fix_one_based_false PASSED [ 61%] 96s tests/test_feature_bounds_check.py::test_issue_79_fix_one_based_false_negate PASSED [ 62%] 96s tests/test_feature_default_seq.py::test_fetch_border_padded PASSED [ 63%] 96s tests/test_feature_indexing.py::test_version_issue_206 PASSED [ 63%] 96s tests/test_feature_indexing.py::test_build PASSED [ 64%] 96s tests/test_feature_indexing.py::test_build_issue_141 PASSED [ 65%] 96s tests/test_feature_indexing.py::test_build_issue_111 PASSED [ 66%] 96s tests/test_feature_indexing.py::test_order PASSED [ 66%] 99s tests/test_feature_indexing.py::test_valgrind_short_lines PASSED [ 67%] 101s tests/test_feature_indexing.py::test_valgrind_long_lines PASSED [ 68%] 104s tests/test_feature_indexing.py::test_valgrind_blank_lines PASSED [ 69%] 106s tests/test_feature_indexing.py::test_reindex_on_modification PASSED [ 69%] 106s tests/test_feature_indexing.py::test_build_issue_83 PASSED [ 70%] 106s tests/test_feature_indexing.py::test_build_issue_96_fail_build_faidx PASSED [ 71%] 106s tests/test_feature_indexing.py::test_build_issue_96_fail_read_malformed_index_duplicate_key PASSED [ 72%] 106s tests/test_feature_indexing.py::test_read_back_index PASSED [ 72%] 106s tests/test_feature_indexing.py::test_issue_134_no_build_index PASSED [ 73%] 106s tests/test_feature_indexing.py::test_issue_144_no_defline PASSED [ 74%] 106s tests/test_feature_key_function.py::test_keys PASSED [ 75%] 106s tests/test_feature_key_function.py::test_key_function_by_dictionary_get_key PASSED [ 75%] 106s tests/test_feature_key_function.py::test_key_function_by_fetch PASSED [ 76%] 106s tests/test_feature_key_function.py::test_duplicated_keys PASSED [ 77%] 106s tests/test_feature_key_function.py::test_duplicated_keys_shortest PASSED [ 77%] 106s tests/test_feature_key_function.py::test_duplicated_keys_longest PASSED [ 78%] 106s tests/test_feature_read_ahead_buffer.py::test_buffer_false PASSED [ 79%] 106s tests/test_feature_read_ahead_buffer.py::test_buffer_true PASSED [ 80%] 106s tests/test_feature_read_ahead_buffer.py::test_buffer_exceed PASSED [ 80%] 106s tests/test_feature_read_ahead_buffer.py::test_bounds_error PASSED [ 81%] 106s tests/test_feature_read_ahead_buffer.py::test_buffer_value PASSED [ 82%] 106s tests/test_feature_sequence_as_raw.py::test_as_raw_false PASSED [ 83%] 106s tests/test_feature_sequence_as_raw.py::test_as_raw_true PASSED [ 83%] 106s tests/test_feature_sequence_as_raw.py::test_as_raw_false_error PASSED [ 84%] 106s tests/test_feature_sequence_as_raw.py::test_as_raw_true_error PASSED [ 85%] 106s tests/test_feature_sequence_as_raw.py::test_as_raw_type_when_blen_lt_0 PASSED [ 86%] 106s tests/test_feature_spliced_seq.py::test_split_seq PASSED [ 86%] 106s tests/test_feature_spliced_seq.py::test_get_seq_rc PASSED [ 87%] 106s tests/test_feature_split_char.py::test_keys PASSED [ 88%] 106s tests/test_feature_split_char.py::test_key_function_by_dictionary_get_key PASSED [ 88%] 106s tests/test_feature_split_char.py::test_key_function_by_fetch PASSED [ 89%] 106s tests/test_feature_split_char.py::test_stop PASSED [ 90%] 106s tests/test_fsspec.py::test_fsspec_fetch_whole_file SKIPPED (uncondit...) [ 91%] 106s tests/test_fsspec.py::test_fsspec_default_index SKIPPED (uncondition...) [ 91%] 106s tests/test_fsspec.py::test_fsspec_local_index SKIPPED (unconditional...) [ 92%] 106s tests/test_fsspec.py::test_fsspec_remote_index SKIPPED (unconditiona...) [ 93%] 106s tests/test_sequence_class.py::test_negate PASSED [ 94%] 106s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 106s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 106s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 106s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 106s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 106s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 106s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 106s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 106s 106s ================= 124 passed, 10 skipped, 2 xfailed in 10.62s ================== 106s autopkgtest [02:21:19]: test run-unit-test: -----------------------] 107s run-unit-test PASS 107s autopkgtest [02:21:20]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 107s autopkgtest [02:21:20]: test autodep8-python3: preparing testbed 165s autopkgtest [02:22:18]: testbed dpkg architecture: amd64 165s autopkgtest [02:22:18]: testbed apt version: 2.9.8 165s autopkgtest [02:22:18]: @@@@@@@@@@@@@@@@@@@@ test bed setup 166s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 166s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [982 kB] 166s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 166s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.1 kB] 166s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [88.9 kB] 166s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [108 kB] 166s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [168 kB] 166s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 166s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [795 kB] 166s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [296 kB] 166s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9728 B] 166s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [1116 B] 166s Fetched 2578 kB in 1s (3159 kB/s) 166s Reading package lists... 169s Reading package lists... 169s Building dependency tree... 169s Reading state information... 169s Calculating upgrade... 169s The following NEW packages will be installed: 169s python3.13-gdbm 169s The following packages will be upgraded: 169s debianutils dmidecode libftdi1-2 libnvme1t64 python3-gdbm 169s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 169s Need to get 325 kB of archives. 169s After this operation, 101 kB of additional disk space will be used. 169s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 debianutils amd64 5.21 [92.9 kB] 169s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 dmidecode amd64 3.6-2 [73.6 kB] 169s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 169s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 169s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libftdi1-2 amd64 1.5-7build1 [30.2 kB] 169s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libnvme1t64 amd64 1.11-2 [88.7 kB] 170s Fetched 325 kB in 0s (670 kB/s) 170s (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 ... 75582 files and directories currently installed.) 170s Preparing to unpack .../debianutils_5.21_amd64.deb ... 170s Unpacking debianutils (5.21) over (5.20) ... 170s Setting up debianutils (5.21) ... 170s (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 ... 75582 files and directories currently installed.) 170s Preparing to unpack .../dmidecode_3.6-2_amd64.deb ... 170s Unpacking dmidecode (3.6-2) over (3.6-1) ... 170s Selecting previously unselected package python3.13-gdbm. 170s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 170s Unpacking python3.13-gdbm (3.13.0-2) ... 170s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 170s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 170s Preparing to unpack .../libftdi1-2_1.5-7build1_amd64.deb ... 170s Unpacking libftdi1-2:amd64 (1.5-7build1) over (1.5-7) ... 170s Preparing to unpack .../libnvme1t64_1.11-2_amd64.deb ... 170s Unpacking libnvme1t64 (1.11-2) over (1.11-1) ... 170s Setting up libftdi1-2:amd64 (1.5-7build1) ... 170s Setting up libnvme1t64 (1.11-2) ... 170s Setting up dmidecode (3.6-2) ... 170s Setting up python3.13-gdbm (3.13.0-2) ... 170s Setting up python3-gdbm:amd64 (3.12.7-1) ... 170s Processing triggers for man-db (2.13.0-1) ... 171s Processing triggers for libc-bin (2.40-1ubuntu3) ... 172s Reading package lists... 172s Building dependency tree... 172s Reading state information... 172s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 172s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 172s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 173s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 173s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 173s Reading package lists... 173s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s Calculating upgrade... 174s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 178s Reading package lists... 178s Building dependency tree... 178s Reading state information... 178s Starting pkgProblemResolver with broken count: 0 178s Starting 2 pkgProblemResolver with broken count: 0 178s Done 178s The following additional packages will be installed: 178s python3-all python3-importlib-metadata python3-packaging python3-pyfaidx 178s Recommended packages: 178s python3-biopython 178s The following NEW packages will be installed: 178s autopkgtest-satdep python3-all python3-importlib-metadata python3-packaging 178s python3-pyfaidx 178s 0 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. 178s Need to get 103 kB/103 kB of archives. 178s After this operation, 473 kB of additional disk space will be used. 178s Get:1 /tmp/autopkgtest.Bj8doW/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [720 B] 179s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 179s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 179s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-packaging all 24.2-1 [51.5 kB] 179s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 179s Fetched 103 kB in 0s (255 kB/s) 179s Selecting previously unselected package python3-all. 179s (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 ... 75588 files and directories currently installed.) 179s Preparing to unpack .../python3-all_3.12.6-0ubuntu1_amd64.deb ... 179s Unpacking python3-all (3.12.6-0ubuntu1) ... 179s Selecting previously unselected package python3-importlib-metadata. 179s Preparing to unpack .../python3-importlib-metadata_8.5.0-1_all.deb ... 179s Unpacking python3-importlib-metadata (8.5.0-1) ... 179s Selecting previously unselected package python3-packaging. 179s Preparing to unpack .../python3-packaging_24.2-1_all.deb ... 179s Unpacking python3-packaging (24.2-1) ... 179s Selecting previously unselected package python3-pyfaidx. 179s Preparing to unpack .../python3-pyfaidx_0.8.1.3-1_all.deb ... 179s Unpacking python3-pyfaidx (0.8.1.3-1) ... 179s Selecting previously unselected package autopkgtest-satdep. 179s Preparing to unpack .../2-autopkgtest-satdep.deb ... 179s Unpacking autopkgtest-satdep (0) ... 179s Setting up python3-importlib-metadata (8.5.0-1) ... 179s Setting up python3-all (3.12.6-0ubuntu1) ... 179s Setting up python3-packaging (24.2-1) ... 179s Setting up python3-pyfaidx (0.8.1.3-1) ... 179s Setting up autopkgtest-satdep (0) ... 179s Processing triggers for man-db (2.13.0-1) ... 182s (Reading database ... 75652 files and directories currently installed.) 182s Removing autopkgtest-satdep (0) ... 183s autopkgtest [02:22:36]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import pyfaidx; print(pyfaidx)" ; done 183s autopkgtest [02:22:36]: test autodep8-python3: [----------------------- 183s Testing with python3.12: 183s 184s autopkgtest [02:22:37]: test autodep8-python3: -----------------------] 184s autodep8-python3 PASS (superficial) 184s autopkgtest [02:22:37]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 184s autopkgtest [02:22:37]: @@@@@@@@@@@@@@@@@@@@ summary 184s run-unit-test PASS 184s autodep8-python3 PASS (superficial) 195s nova [W] Skipping flock for amd64 195s Creating nova instance adt-plucky-amd64-python-pyfaidx-20241117-014431-juju-7f2275-prod-proposed-migration-environment-20-c6846280-9087-42dc-9eb6-a24b3a518814 from image adt/ubuntu-plucky-amd64-server-20241116.img (UUID b82727a2-bb7f-4d76-a476-69f4305c6899)... 195s nova [W] Skipping flock for amd64 195s Creating nova instance adt-plucky-amd64-python-pyfaidx-20241117-014431-juju-7f2275-prod-proposed-migration-environment-20-c6846280-9087-42dc-9eb6-a24b3a518814 from image adt/ubuntu-plucky-amd64-server-20241116.img (UUID b82727a2-bb7f-4d76-a476-69f4305c6899)...