0s autopkgtest [17:55:46]: starting date and time: 2024-11-01 17:55:46+0000 0s autopkgtest [17:55:46]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [17:55:46]: host juju-7f2275-prod-proposed-migration-environment-14; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.td8eaxuv/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:htslib --apt-upgrade python-pyfaidx --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=htslib/1.20+ds-2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-14@bos03-arm64-23.secgroup --name adt-plucky-arm64-python-pyfaidx-20241101-175546-juju-7f2275-prod-proposed-migration-environment-14-ec419165-c19b-4d56-b90a-74b31adc9e29 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-14 --net-id=net_prod-proposed-migration -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/ 96s autopkgtest [17:57:22]: testbed dpkg architecture: arm64 96s autopkgtest [17:57:22]: testbed apt version: 2.9.8 96s autopkgtest [17:57:22]: @@@@@@@@@@@@@@@@@@@@ test bed setup 97s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 98s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 98s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [183 kB] 98s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [2775 kB] 98s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [44.0 kB] 98s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [241 kB] 98s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 98s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [2023 kB] 98s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [36.5 kB] 99s Fetched 5433 kB in 1s (4194 kB/s) 99s Reading package lists... 101s Reading package lists... 101s Building dependency tree... 101s Reading state information... 102s Calculating upgrade... 103s The following packages will be upgraded: 103s libevdev2 libftdi1-2 libinih1 nano python3-lazr.uri 103s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 103s Need to get 374 kB of archives. 103s After this operation, 17.4 kB of additional disk space will be used. 103s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 libevdev2 arm64 1.13.3+dfsg-1 [36.0 kB] 103s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 nano arm64 8.2-1 [289 kB] 103s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libftdi1-2 arm64 1.5-7 [28.4 kB] 103s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libinih1 arm64 58-1ubuntu1 [7412 B] 103s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-lazr.uri all 1.0.6-4 [13.6 kB] 103s Fetched 374 kB in 0s (830 kB/s) 104s (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 ... 79705 files and directories currently installed.) 104s Preparing to unpack .../libevdev2_1.13.3+dfsg-1_arm64.deb ... 104s Unpacking libevdev2:arm64 (1.13.3+dfsg-1) over (1.13.2+dfsg-1) ... 104s Preparing to unpack .../archives/nano_8.2-1_arm64.deb ... 104s Unpacking nano (8.2-1) over (8.1-1) ... 104s Preparing to unpack .../libftdi1-2_1.5-7_arm64.deb ... 104s Unpacking libftdi1-2:arm64 (1.5-7) over (1.5-6build5) ... 104s Preparing to unpack .../libinih1_58-1ubuntu1_arm64.deb ... 104s Unpacking libinih1:arm64 (58-1ubuntu1) over (55-1ubuntu2) ... 104s Preparing to unpack .../python3-lazr.uri_1.0.6-4_all.deb ... 104s Unpacking python3-lazr.uri (1.0.6-4) over (1.0.6-3) ... 104s Setting up libinih1:arm64 (58-1ubuntu1) ... 104s Setting up python3-lazr.uri (1.0.6-4) ... 104s Setting up libftdi1-2:arm64 (1.5-7) ... 104s Setting up nano (8.2-1) ... 104s Setting up libevdev2:arm64 (1.13.3+dfsg-1) ... 104s Processing triggers for man-db (2.12.1-3) ... 105s Processing triggers for install-info (7.1.1-1) ... 105s Processing triggers for libc-bin (2.40-1ubuntu3) ... 105s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 107s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 107s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 107s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 107s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 108s Reading package lists... 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 109s Calculating upgrade... 109s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 109s Reading package lists... 110s Building dependency tree... 110s Reading state information... 110s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s autopkgtest [17:57:39]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 113s autopkgtest [17:57:39]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 116s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.2-1 (dsc) [2578 B] 116s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.2-1 (tar) [96.5 kB] 116s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.2-1 (diff) [7004 B] 116s gpgv: Signature made Sun Aug 11 17:37:37 2024 UTC 116s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 116s gpgv: issuer "emollier@debian.org" 116s gpgv: Can't check signature: No public key 116s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.2-1.dsc: no acceptable signature found 116s autopkgtest [17:57:42]: testing package python-pyfaidx version 0.8.1.2-1 116s autopkgtest [17:57:42]: build not needed 117s autopkgtest [17:57:43]: test run-unit-test: preparing testbed 118s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s Starting pkgProblemResolver with broken count: 0 119s Starting 2 pkgProblemResolver with broken count: 0 119s Done 120s The following additional packages will be installed: 120s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 120s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libgfortran5 120s libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 libimagequant0 libjbig0 120s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 120s libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 120s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python-pyfaidx-examples 120s python3-all python3-biopython python3-cairo python3-freetype 120s python3-importlib-metadata python3-iniconfig python3-numpy python3-packaging 120s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 120s python3-rlpycairo sgml-base tabix w3c-sgml-lib x11-common xfonts-encodings 120s xfonts-utils xml-core 120s Suggested packages: 120s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 120s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 120s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 120s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 120s gcc gfortran python-numpy-doc python3-dev python-pil-doc pdf-viewer 120s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 120s sgml-base-doc debhelper 120s Recommended packages: 120s python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra 120s The following NEW packages will be installed: 120s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 120s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 120s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 120s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 120s liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 120s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 120s python-pyfaidx-examples python3-all python3-biopython python3-cairo 120s python3-freetype python3-importlib-metadata python3-iniconfig python3-numpy 120s python3-packaging python3-pil python3-pluggy python3-pyfaidx python3-pytest 120s python3-reportlab python3-rlpycairo sgml-base tabix w3c-sgml-lib x11-common 120s xfonts-encodings xfonts-utils xml-core 120s 0 upgraded, 55 newly installed, 0 to remove and 0 not upgraded. 120s Need to get 27.2 MB/27.2 MB of archives. 120s After this operation, 85.5 MB of additional disk space will be used. 120s Get:1 /tmp/autopkgtest.ppbD4i/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [748 B] 120s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 sgml-base all 1.31 [11.4 kB] 120s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB] 120s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB] 121s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontenc1 arm64 1:1.1.8-1build1 [13.9 kB] 121s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 121s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 121s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-utils arm64 1:7.7+7 [95.6 kB] 121s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-urw-base35 all 20200910-8 [11.0 MB] 121s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-1.1ubuntu2 [37.4 kB] 121s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 121s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-1.1ubuntu2 [142 kB] 121s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.42.2-1build1 [204 kB] 121s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB] 121s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B] 121s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB] 121s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB] 121s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.21-1 [46.2 kB] 121s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-7ubuntu1 [438 kB] 121s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-7ubuntu1 [145 kB] 121s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB] 121s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 9.0.0-1 [486 kB] 121s Get:23 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhtscodecs2 arm64 1.6.0-1build1 [78.0 kB] 121s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB] 121s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu2 [163 kB] 121s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 121s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 121s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.14-2build1 [161 kB] 121s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu2 [154 kB] 121s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libraqm0 arm64 0.10.1-1build1 [14.7 kB] 121s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [16.3 kB] 121s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB] 121s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.4.0-0.1 [192 kB] 121s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB] 121s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpdemux2 arm64 1.4.0-0.1 [12.3 kB] 121s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpmux3 arm64 1.4.0-0.1 [25.1 kB] 121s Get:37 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-pyfaidx-examples all 0.8.1.2-1 [38.0 kB] 121s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-all arm64 3.12.6-0ubuntu1 [886 B] 121s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB] 122s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 libopenjp2-7 arm64 2.5.0-2ubuntu1 [182 kB] 122s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pil arm64 10.4.0-1ubuntu1 [456 kB] 122s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-cairo arm64 1.26.1-2 [121 kB] 122s Get:43 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-freetype all 2.4.0-2 [81.3 kB] 122s Get:44 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-rlpycairo all 0.3.0-3 [9130 B] 122s Get:45 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-reportlab all 4.2.2-1 [1130 kB] 122s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 xml-core all 0.19 [20.3 kB] 122s Get:47 http://ftpmaster.internal/ubuntu plucky/universe arm64 w3c-sgml-lib all 1.3-3 [280 kB] 122s Get:48 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-biopython arm64 1.83+dfsg1-3 [1646 kB] 122s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-importlib-metadata all 8.2.0-2 [20.3 kB] 122s Get:50 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 122s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB] 122s Get:52 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 122s Get:53 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyfaidx all 0.8.1.2-1 [29.6 kB] 122s Get:54 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.2-1 [251 kB] 122s Get:55 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 tabix arm64 1.20+ds-2 [524 kB] 122s Fetched 27.2 MB in 2s (14.2 MB/s) 122s Selecting previously unselected package sgml-base. 122s (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 ... 79705 files and directories currently installed.) 122s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 122s Unpacking sgml-base (1.31) ... 122s Selecting previously unselected package fonts-dejavu-mono. 123s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 123s Unpacking fonts-dejavu-mono (2.37-8) ... 123s Selecting previously unselected package fonts-dejavu-core. 123s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 123s Unpacking fonts-dejavu-core (2.37-8) ... 123s Selecting previously unselected package libfontenc1:arm64. 123s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_arm64.deb ... 123s Unpacking libfontenc1:arm64 (1:1.1.8-1build1) ... 123s Selecting previously unselected package x11-common. 123s Preparing to unpack .../04-x11-common_1%3a7.7+23ubuntu3_all.deb ... 123s Unpacking x11-common (1:7.7+23ubuntu3) ... 123s Selecting previously unselected package xfonts-encodings. 123s Preparing to unpack .../05-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 123s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 123s Selecting previously unselected package xfonts-utils. 123s Preparing to unpack .../06-xfonts-utils_1%3a7.7+7_arm64.deb ... 123s Unpacking xfonts-utils (1:7.7+7) ... 123s Selecting previously unselected package fonts-urw-base35. 123s Preparing to unpack .../07-fonts-urw-base35_20200910-8_all.deb ... 123s Unpacking fonts-urw-base35 (20200910-8) ... 123s Selecting previously unselected package fontconfig-config. 123s Preparing to unpack .../08-fontconfig-config_2.15.0-1.1ubuntu2_arm64.deb ... 123s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 123s Selecting previously unselected package libblas3:arm64. 124s Preparing to unpack .../09-libblas3_3.12.0-3build2_arm64.deb ... 124s Unpacking libblas3:arm64 (3.12.0-3build2) ... 124s Selecting previously unselected package libfontconfig1:arm64. 124s Preparing to unpack .../10-libfontconfig1_2.15.0-1.1ubuntu2_arm64.deb ... 124s Unpacking libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ... 124s Selecting previously unselected package libpixman-1-0:arm64. 124s Preparing to unpack .../11-libpixman-1-0_0.42.2-1build1_arm64.deb ... 124s Unpacking libpixman-1-0:arm64 (0.42.2-1build1) ... 124s Selecting previously unselected package libxcb-render0:arm64. 124s Preparing to unpack .../12-libxcb-render0_1.17.0-2_arm64.deb ... 124s Unpacking libxcb-render0:arm64 (1.17.0-2) ... 124s Selecting previously unselected package libxcb-shm0:arm64. 124s Preparing to unpack .../13-libxcb-shm0_1.17.0-2_arm64.deb ... 124s Unpacking libxcb-shm0:arm64 (1.17.0-2) ... 124s Selecting previously unselected package libxrender1:arm64. 124s Preparing to unpack .../14-libxrender1_1%3a0.9.10-1.1build1_arm64.deb ... 124s Unpacking libxrender1:arm64 (1:0.9.10-1.1build1) ... 124s Selecting previously unselected package libcairo2:arm64. 124s Preparing to unpack .../15-libcairo2_1.18.2-2_arm64.deb ... 124s Unpacking libcairo2:arm64 (1.18.2-2) ... 124s Selecting previously unselected package libdeflate0:arm64. 124s Preparing to unpack .../16-libdeflate0_1.21-1_arm64.deb ... 124s Unpacking libdeflate0:arm64 (1.21-1) ... 124s Selecting previously unselected package libgfortran5:arm64. 124s Preparing to unpack .../17-libgfortran5_14.2.0-7ubuntu1_arm64.deb ... 124s Unpacking libgfortran5:arm64 (14.2.0-7ubuntu1) ... 124s Selecting previously unselected package libgomp1:arm64. 124s Preparing to unpack .../18-libgomp1_14.2.0-7ubuntu1_arm64.deb ... 124s Unpacking libgomp1:arm64 (14.2.0-7ubuntu1) ... 124s Selecting previously unselected package libgraphite2-3:arm64. 124s Preparing to unpack .../19-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ... 124s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 124s Selecting previously unselected package libharfbuzz0b:arm64. 124s Preparing to unpack .../20-libharfbuzz0b_9.0.0-1_arm64.deb ... 124s Unpacking libharfbuzz0b:arm64 (9.0.0-1) ... 124s Selecting previously unselected package libhtscodecs2:arm64. 124s Preparing to unpack .../21-libhtscodecs2_1.6.0-1build1_arm64.deb ... 124s Unpacking libhtscodecs2:arm64 (1.6.0-1build1) ... 124s Selecting previously unselected package libimagequant0:arm64. 124s Preparing to unpack .../22-libimagequant0_2.18.0-1build1_arm64.deb ... 124s Unpacking libimagequant0:arm64 (2.18.0-1build1) ... 124s Selecting previously unselected package libjpeg-turbo8:arm64. 124s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu2_arm64.deb ... 124s Unpacking libjpeg-turbo8:arm64 (2.1.5-2ubuntu2) ... 124s Selecting previously unselected package libjpeg8:arm64. 124s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_arm64.deb ... 124s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ... 124s Selecting previously unselected package liblapack3:arm64. 124s Preparing to unpack .../25-liblapack3_3.12.0-3build2_arm64.deb ... 124s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 124s Selecting previously unselected package liblcms2-2:arm64. 124s Preparing to unpack .../26-liblcms2-2_2.14-2build1_arm64.deb ... 124s Unpacking liblcms2-2:arm64 (2.14-2build1) ... 124s Selecting previously unselected package liblerc4:arm64. 125s Preparing to unpack .../27-liblerc4_4.0.0+ds-4ubuntu2_arm64.deb ... 125s Unpacking liblerc4:arm64 (4.0.0+ds-4ubuntu2) ... 125s Selecting previously unselected package libraqm0:arm64. 125s Preparing to unpack .../28-libraqm0_0.10.1-1build1_arm64.deb ... 125s Unpacking libraqm0:arm64 (0.10.1-1build1) ... 125s Selecting previously unselected package libsharpyuv0:arm64. 125s Preparing to unpack .../29-libsharpyuv0_1.4.0-0.1_arm64.deb ... 125s Unpacking libsharpyuv0:arm64 (1.4.0-0.1) ... 125s Selecting previously unselected package libjbig0:arm64. 125s Preparing to unpack .../30-libjbig0_2.1-6.1ubuntu2_arm64.deb ... 125s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ... 125s Selecting previously unselected package libwebp7:arm64. 125s Preparing to unpack .../31-libwebp7_1.4.0-0.1_arm64.deb ... 125s Unpacking libwebp7:arm64 (1.4.0-0.1) ... 125s Selecting previously unselected package libtiff6:arm64. 125s Preparing to unpack .../32-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ... 125s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 125s Selecting previously unselected package libwebpdemux2:arm64. 125s Preparing to unpack .../33-libwebpdemux2_1.4.0-0.1_arm64.deb ... 125s Unpacking libwebpdemux2:arm64 (1.4.0-0.1) ... 125s Selecting previously unselected package libwebpmux3:arm64. 125s Preparing to unpack .../34-libwebpmux3_1.4.0-0.1_arm64.deb ... 125s Unpacking libwebpmux3:arm64 (1.4.0-0.1) ... 125s Selecting previously unselected package python-pyfaidx-examples. 125s Preparing to unpack .../35-python-pyfaidx-examples_0.8.1.2-1_all.deb ... 125s Unpacking python-pyfaidx-examples (0.8.1.2-1) ... 125s Selecting previously unselected package python3-all. 125s Preparing to unpack .../36-python3-all_3.12.6-0ubuntu1_arm64.deb ... 125s Unpacking python3-all (3.12.6-0ubuntu1) ... 125s Selecting previously unselected package python3-numpy. 125s Preparing to unpack .../37-python3-numpy_1%3a1.26.4+ds-11build1_arm64.deb ... 125s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 125s Selecting previously unselected package libopenjp2-7:arm64. 125s Preparing to unpack .../38-libopenjp2-7_2.5.0-2ubuntu1_arm64.deb ... 125s Unpacking libopenjp2-7:arm64 (2.5.0-2ubuntu1) ... 125s Selecting previously unselected package python3-pil:arm64. 125s Preparing to unpack .../39-python3-pil_10.4.0-1ubuntu1_arm64.deb ... 125s Unpacking python3-pil:arm64 (10.4.0-1ubuntu1) ... 125s Selecting previously unselected package python3-cairo. 125s Preparing to unpack .../40-python3-cairo_1.26.1-2_arm64.deb ... 125s Unpacking python3-cairo (1.26.1-2) ... 125s Selecting previously unselected package python3-freetype. 125s Preparing to unpack .../41-python3-freetype_2.4.0-2_all.deb ... 125s Unpacking python3-freetype (2.4.0-2) ... 125s Selecting previously unselected package python3-rlpycairo. 125s Preparing to unpack .../42-python3-rlpycairo_0.3.0-3_all.deb ... 125s Unpacking python3-rlpycairo (0.3.0-3) ... 126s Selecting previously unselected package python3-reportlab. 126s Preparing to unpack .../43-python3-reportlab_4.2.2-1_all.deb ... 126s Unpacking python3-reportlab (4.2.2-1) ... 126s Selecting previously unselected package xml-core. 126s Preparing to unpack .../44-xml-core_0.19_all.deb ... 126s Unpacking xml-core (0.19) ... 126s Selecting previously unselected package w3c-sgml-lib. 126s Preparing to unpack .../45-w3c-sgml-lib_1.3-3_all.deb ... 126s Unpacking w3c-sgml-lib (1.3-3) ... 126s Selecting previously unselected package python3-biopython. 126s Preparing to unpack .../46-python3-biopython_1.83+dfsg1-3_arm64.deb ... 126s Unpacking python3-biopython (1.83+dfsg1-3) ... 126s Selecting previously unselected package python3-importlib-metadata. 126s Preparing to unpack .../47-python3-importlib-metadata_8.2.0-2_all.deb ... 126s Unpacking python3-importlib-metadata (8.2.0-2) ... 126s Selecting previously unselected package python3-iniconfig. 126s Preparing to unpack .../48-python3-iniconfig_1.1.1-2_all.deb ... 126s Unpacking python3-iniconfig (1.1.1-2) ... 126s Selecting previously unselected package python3-packaging. 126s Preparing to unpack .../49-python3-packaging_24.1-1_all.deb ... 126s Unpacking python3-packaging (24.1-1) ... 126s Selecting previously unselected package python3-pluggy. 126s Preparing to unpack .../50-python3-pluggy_1.5.0-1_all.deb ... 126s Unpacking python3-pluggy (1.5.0-1) ... 126s Selecting previously unselected package python3-pyfaidx. 126s Preparing to unpack .../51-python3-pyfaidx_0.8.1.2-1_all.deb ... 126s Unpacking python3-pyfaidx (0.8.1.2-1) ... 126s Selecting previously unselected package python3-pytest. 126s Preparing to unpack .../52-python3-pytest_8.3.2-1_all.deb ... 126s Unpacking python3-pytest (8.3.2-1) ... 126s Selecting previously unselected package tabix. 126s Preparing to unpack .../53-tabix_1.20+ds-2_arm64.deb ... 126s Unpacking tabix (1.20+ds-2) ... 126s Selecting previously unselected package autopkgtest-satdep. 126s Preparing to unpack .../54-1-autopkgtest-satdep.deb ... 126s Unpacking autopkgtest-satdep (0) ... 126s Setting up libhtscodecs2:arm64 (1.6.0-1build1) ... 126s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 126s Setting up liblcms2-2:arm64 (2.14-2build1) ... 126s Setting up python3-iniconfig (1.1.1-2) ... 127s Setting up libpixman-1-0:arm64 (0.42.2-1build1) ... 127s Setting up libsharpyuv0:arm64 (1.4.0-0.1) ... 127s Setting up liblerc4:arm64 (4.0.0+ds-4ubuntu2) ... 127s Setting up python3-importlib-metadata (8.2.0-2) ... 127s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ... 127s Setting up python-pyfaidx-examples (0.8.1.2-1) ... 127s Setting up libxcb-render0:arm64 (1.17.0-2) ... 127s Setting up x11-common (1:7.7+23ubuntu3) ... 127s Setting up libdeflate0:arm64 (1.21-1) ... 127s Setting up python3-all (3.12.6-0ubuntu1) ... 127s Setting up libxcb-shm0:arm64 (1.17.0-2) ... 127s Setting up libgomp1:arm64 (14.2.0-7ubuntu1) ... 127s Setting up python3-freetype (2.4.0-2) ... 127s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ... 127s Setting up libfontenc1:arm64 (1:1.1.8-1build1) ... 127s Setting up libblas3:arm64 (3.12.0-3build2) ... 127s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 127s Setting up python3-packaging (24.1-1) ... 127s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 127s Setting up libimagequant0:arm64 (2.18.0-1build1) ... 127s Setting up fonts-dejavu-mono (2.37-8) ... 127s Setting up fonts-dejavu-core (2.37-8) ... 128s Setting up libjpeg-turbo8:arm64 (2.1.5-2ubuntu2) ... 128s Setting up libgfortran5:arm64 (14.2.0-7ubuntu1) ... 128s Setting up python3-pluggy (1.5.0-1) ... 128s Setting up libwebp7:arm64 (1.4.0-0.1) ... 128s Setting up libopenjp2-7:arm64 (2.5.0-2ubuntu1) ... 128s Setting up libharfbuzz0b:arm64 (9.0.0-1) ... 128s Setting up sgml-base (1.31) ... 128s Setting up libwebpmux3:arm64 (1.4.0-0.1) ... 128s Setting up tabix (1.20+ds-2) ... 128s Setting up libjpeg8:arm64 (8c-2ubuntu11) ... 128s Setting up python3-pyfaidx (0.8.1.2-1) ... 128s Setting up liblapack3:arm64 (3.12.0-3build2) ... 128s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 128s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 128s Setting up python3-pytest (8.3.2-1) ... 129s Setting up libwebpdemux2:arm64 (1.4.0-0.1) ... 129s Setting up xfonts-utils (1:7.7+7) ... 129s Setting up libraqm0:arm64 (0.10.1-1build1) ... 129s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 131s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 131s Setting up xml-core (0.19) ... 131s Setting up libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ... 131s Setting up fonts-urw-base35 (20200910-8) ... 132s Setting up libcairo2:arm64 (1.18.2-2) ... 132s Setting up python3-pil:arm64 (10.4.0-1ubuntu1) ... 132s Setting up python3-cairo (1.26.1-2) ... 132s Setting up python3-rlpycairo (0.3.0-3) ... 133s Setting up python3-reportlab (4.2.2-1) ... 133s Processing triggers for libc-bin (2.40-1ubuntu3) ... 133s Processing triggers for man-db (2.12.1-3) ... 134s Processing triggers for sgml-base (1.31) ... 134s Setting up w3c-sgml-lib (1.3-3) ... 163s Setting up python3-biopython (1.83+dfsg1-3) ... 164s Setting up autopkgtest-satdep (0) ... 168s (Reading database ... 83148 files and directories currently installed.) 168s Removing autopkgtest-satdep (0) ... 169s autopkgtest [17:58:35]: test run-unit-test: [----------------------- 169s Testing with python3.12 in /tmp/autopkgtest.ppbD4i/build.t4o/src: 170s ============================= test session starts ============================== 170s platform linux -- Python 3.12.7, pytest-8.3.2, pluggy-1.5.0 -- /usr/bin/python3.12 170s cachedir: .pytest_cache 170s rootdir: /tmp/autopkgtest.ppbD4i/build.t4o/src 170s configfile: pyproject.toml 170s plugins: typeguard-4.3.0 170s collecting ... collected 136 items 170s 170s tests/test_FastaRecord.py::test_sequence_uppercase PASSED [ 0%] 170s tests/test_FastaRecord.py::test_long_names PASSED [ 1%] 170s tests/test_FastaRecord.py::test_issue_62 PASSED [ 2%] 170s tests/test_FastaRecord.py::test_unpadded_length PASSED [ 2%] 170s tests/test_FastaRecord.py::test_numpy_array PASSED [ 3%] 170s tests/test_FastaRecord_iter.py::test_fetch_whole_fasta PASSED [ 4%] 170s tests/test_FastaRecord_iter.py::test_line_len PASSED [ 5%] 170s tests/test_FastaRecord_iter.py::test_reverse_iter PASSED [ 5%] 170s tests/test_FastaVariant.py::test_fetch_variant SKIPPED (pysam not in...) [ 6%] 170s tests/test_FastaVariant.py::test_fetch_hom_variant SKIPPED (pysam no...) [ 7%] 170s tests/test_FastaVariant.py::test_fetch_het_variant SKIPPED (pysam no...) [ 8%] 170s tests/test_FastaVariant.py::test_fetch_chr_not_in_vcf SKIPPED (pysam...) [ 8%] 170s tests/test_FastaVariant.py::test_all_pos SKIPPED (pysam not installed.) [ 9%] 170s tests/test_FastaVariant.py::test_all_diff SKIPPED (pysam not installed.) [ 10%] 170s tests/test_Fasta_bgzip.py::test_build_issue_126 XFAIL [ 11%] 170s tests/test_Fasta_bgzip.py::test_integer_slice PASSED [ 11%] 170s tests/test_Fasta_bgzip.py::test_integer_index PASSED [ 12%] 170s tests/test_Fasta_bgzip.py::test_fetch_whole_fasta PASSED [ 13%] 170s tests/test_Fasta_bgzip.py::test_line_len PASSED [ 13%] 170s tests/test_Fasta_bgzip.py::test_mutable_bgzf PASSED [ 14%] 170s tests/test_Fasta_bgzip.py::test_long_names XFAIL [ 15%] 170s tests/test_Fasta_bgzip.py::test_fetch_whole_entry PASSED [ 16%] 170s tests/test_Fasta_bgzip.py::test_fetch_middle PASSED [ 16%] 170s tests/test_Fasta_bgzip.py::test_fetch_end PASSED [ 17%] 170s tests/test_Fasta_bgzip.py::test_fetch_border PASSED [ 18%] 170s tests/test_Fasta_bgzip.py::test_rev PASSED [ 19%] 170s tests/test_Fasta_bgzip.py::test_fetch_past_bounds PASSED [ 19%] 170s tests/test_Fasta_bgzip.py::test_fetch_negative PASSED [ 20%] 170s tests/test_Fasta_bgzip.py::test_fetch_reversed_coordinates PASSED [ 21%] 170s tests/test_Fasta_bgzip.py::test_fetch_keyerror PASSED [ 22%] 170s tests/test_Fasta_bgzip.py::test_blank_string PASSED [ 22%] 170s tests/test_Fasta_bgzip.py::test_slice_from_beginning PASSED [ 23%] 170s tests/test_Fasta_bgzip.py::test_slice_from_end PASSED [ 24%] 170s tests/test_Fasta_bgzip.py::test_issue_74_start PASSED [ 25%] 170s tests/test_Fasta_bgzip.py::test_issue_74_consistency PASSED [ 25%] 170s tests/test_Fasta_bgzip.py::test_issue_74_end_faidx PASSED [ 26%] 170s tests/test_Fasta_bgzip.py::test_issue_74_end_fasta PASSED [ 27%] 170s tests/test_Fasta_bgzip.py::test_issue_79_fix PASSED [ 27%] 170s tests/test_Fasta_bgzip.py::test_issue_79_fix_negate PASSED [ 28%] 170s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false PASSED [ 29%] 170s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false_negate PASSED [ 30%] 170s tests/test_Fasta_bgzip.py::test_fetch_border_padded PASSED [ 30%] 170s tests/test_Fasta_integer_index.py::test_integer_slice PASSED [ 31%] 170s tests/test_Fasta_integer_index.py::test_integer_index PASSED [ 32%] 170s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads PASSED [ 33%] 171s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads_and_writes PASSED [ 33%] 171s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_writes PASSED [ 34%] 171s tests/test_Path.py::test_Faidx PASSED [ 35%] 171s tests/test_Path.py::test_Fasta PASSED [ 36%] 171s tests/test_bio_seqio.py::test_fetch_whole_entry PASSED [ 36%] 171s tests/test_bio_seqio.py::test_slice_whole_entry PASSED [ 37%] 171s tests/test_bio_seqio.py::test_revcomp_whole_entry PASSED [ 38%] 171s tests/test_faidx.py::test_short_line_lengths PASSED [ 38%] 171s tests/test_faidx.py::test_fetch_whole_file PASSED [ 39%] 171s tests/test_faidx.py::test_split_entry PASSED [ 40%] 171s tests/test_faidx.py::test_fetch_error PASSED [ 41%] 171s tests/test_faidx.py::test_key_warning PASSED [ 41%] 171s tests/test_faidx.py::test_auto_strand PASSED [ 42%] 171s tests/test_faidx.py::test_regexp PASSED [ 43%] 171s tests/test_faidx.py::test_not_regexp PASSED [ 44%] 171s tests/test_faidx.py::test_not_regexp_multi PASSED [ 44%] 171s tests/test_feature_bounds_check.py::test_index_zero_length PASSED [ 45%] 171s tests/test_feature_bounds_check.py::test_fetch_zero_length PASSED [ 46%] 171s tests/test_feature_bounds_check.py::test_as_raw_zero_length_subsequence PASSED [ 47%] 171s tests/test_feature_bounds_check.py::test_zero_length_subsequence PASSED [ 47%] 171s tests/test_feature_bounds_check.py::test_fetch_whole_entry PASSED [ 48%] 171s tests/test_feature_bounds_check.py::test_fetch_middle PASSED [ 49%] 171s tests/test_feature_bounds_check.py::test_fetch_end PASSED [ 50%] 171s tests/test_feature_bounds_check.py::test_fetch_border PASSED [ 50%] 171s tests/test_feature_bounds_check.py::test_rev PASSED [ 51%] 171s tests/test_feature_bounds_check.py::test_fetch_past_bounds PASSED [ 52%] 171s tests/test_feature_bounds_check.py::test_fetch_negative PASSED [ 52%] 171s tests/test_feature_bounds_check.py::test_fetch_reversed_coordinates PASSED [ 53%] 171s tests/test_feature_bounds_check.py::test_fetch_keyerror PASSED [ 54%] 171s tests/test_feature_bounds_check.py::test_blank_string PASSED [ 55%] 171s tests/test_feature_bounds_check.py::test_slice_from_beginning PASSED [ 55%] 171s tests/test_feature_bounds_check.py::test_slice_from_end PASSED [ 56%] 171s tests/test_feature_bounds_check.py::test_issue_74_start PASSED [ 57%] 171s tests/test_feature_bounds_check.py::test_issue_74_consistency PASSED [ 58%] 171s tests/test_feature_bounds_check.py::test_issue_74_end_faidx PASSED [ 58%] 171s tests/test_feature_bounds_check.py::test_issue_74_end_fasta PASSED [ 59%] 171s tests/test_feature_bounds_check.py::test_issue_79_fix PASSED [ 60%] 171s tests/test_feature_bounds_check.py::test_issue_79_fix_negate PASSED [ 61%] 171s tests/test_feature_bounds_check.py::test_issue_79_fix_one_based_false PASSED [ 61%] 171s tests/test_feature_bounds_check.py::test_issue_79_fix_one_based_false_negate PASSED [ 62%] 171s tests/test_feature_default_seq.py::test_fetch_border_padded PASSED [ 63%] 171s tests/test_feature_indexing.py::test_version_issue_206 PASSED [ 63%] 171s tests/test_feature_indexing.py::test_build PASSED [ 64%] 171s tests/test_feature_indexing.py::test_build_issue_141 PASSED [ 65%] 171s tests/test_feature_indexing.py::test_build_issue_111 PASSED [ 66%] 171s tests/test_feature_indexing.py::test_order PASSED [ 66%] 173s tests/test_feature_indexing.py::test_valgrind_short_lines PASSED [ 67%] 176s tests/test_feature_indexing.py::test_valgrind_long_lines PASSED [ 68%] 179s tests/test_feature_indexing.py::test_valgrind_blank_lines PASSED [ 69%] 181s tests/test_feature_indexing.py::test_reindex_on_modification PASSED [ 69%] 181s tests/test_feature_indexing.py::test_build_issue_83 PASSED [ 70%] 181s tests/test_feature_indexing.py::test_build_issue_96_fail_build_faidx PASSED [ 71%] 181s tests/test_feature_indexing.py::test_build_issue_96_fail_read_malformed_index_duplicate_key PASSED [ 72%] 181s tests/test_feature_indexing.py::test_read_back_index PASSED [ 72%] 181s tests/test_feature_indexing.py::test_issue_134_no_build_index PASSED [ 73%] 181s tests/test_feature_indexing.py::test_issue_144_no_defline PASSED [ 74%] 181s tests/test_feature_key_function.py::test_keys PASSED [ 75%] 181s tests/test_feature_key_function.py::test_key_function_by_dictionary_get_key PASSED [ 75%] 181s tests/test_feature_key_function.py::test_key_function_by_fetch PASSED [ 76%] 181s tests/test_feature_key_function.py::test_duplicated_keys PASSED [ 77%] 181s tests/test_feature_key_function.py::test_duplicated_keys_shortest PASSED [ 77%] 181s tests/test_feature_key_function.py::test_duplicated_keys_longest PASSED [ 78%] 181s tests/test_feature_read_ahead_buffer.py::test_buffer_false PASSED [ 79%] 181s tests/test_feature_read_ahead_buffer.py::test_buffer_true PASSED [ 80%] 181s tests/test_feature_read_ahead_buffer.py::test_buffer_exceed PASSED [ 80%] 181s tests/test_feature_read_ahead_buffer.py::test_bounds_error PASSED [ 81%] 181s tests/test_feature_read_ahead_buffer.py::test_buffer_value PASSED [ 82%] 181s tests/test_feature_sequence_as_raw.py::test_as_raw_false PASSED [ 83%] 181s tests/test_feature_sequence_as_raw.py::test_as_raw_true PASSED [ 83%] 181s tests/test_feature_sequence_as_raw.py::test_as_raw_false_error PASSED [ 84%] 181s tests/test_feature_sequence_as_raw.py::test_as_raw_true_error PASSED [ 85%] 181s tests/test_feature_sequence_as_raw.py::test_as_raw_type_when_blen_lt_0 PASSED [ 86%] 181s tests/test_feature_spliced_seq.py::test_split_seq PASSED [ 86%] 181s tests/test_feature_spliced_seq.py::test_get_seq_rc PASSED [ 87%] 181s tests/test_feature_split_char.py::test_keys PASSED [ 88%] 181s tests/test_feature_split_char.py::test_key_function_by_dictionary_get_key PASSED [ 88%] 181s tests/test_feature_split_char.py::test_key_function_by_fetch PASSED [ 89%] 181s tests/test_feature_split_char.py::test_stop PASSED [ 90%] 181s tests/test_fsspec.py::test_fsspec_fetch_whole_file SKIPPED (uncondit...) [ 91%] 181s tests/test_fsspec.py::test_fsspec_default_index SKIPPED (uncondition...) [ 91%] 181s tests/test_fsspec.py::test_fsspec_local_index SKIPPED (unconditional...) [ 92%] 181s tests/test_fsspec.py::test_fsspec_remote_index SKIPPED (unconditiona...) [ 93%] 181s tests/test_sequence_class.py::test_negate PASSED [ 94%] 181s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 181s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 181s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 181s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 181s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 181s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 181s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 181s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 181s 181s ================= 124 passed, 10 skipped, 2 xfailed in 11.17s ================== 181s autopkgtest [17:58:47]: test run-unit-test: -----------------------] 182s autopkgtest [17:58:48]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 182s run-unit-test PASS 182s autopkgtest [17:58:48]: test autodep8-python3: preparing testbed 253s autopkgtest [17:59:59]: testbed dpkg architecture: arm64 254s autopkgtest [18:00:00]: testbed apt version: 2.9.8 254s autopkgtest [18:00:00]: @@@@@@@@@@@@@@@@@@@@ test bed setup 255s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 255s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [2775 kB] 255s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [183 kB] 255s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [44.0 kB] 255s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 255s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [241 kB] 255s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 255s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [2023 kB] 255s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [36.5 kB] 256s Fetched 5433 kB in 1s (4102 kB/s) 256s Reading package lists... 259s Reading package lists... 259s Building dependency tree... 259s Reading state information... 261s Calculating upgrade... 262s The following packages will be upgraded: 262s libevdev2 libftdi1-2 libinih1 nano python3-lazr.uri 262s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 262s Need to get 374 kB of archives. 262s After this operation, 17.4 kB of additional disk space will be used. 262s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 libevdev2 arm64 1.13.3+dfsg-1 [36.0 kB] 262s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 nano arm64 8.2-1 [289 kB] 262s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libftdi1-2 arm64 1.5-7 [28.4 kB] 262s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libinih1 arm64 58-1ubuntu1 [7412 B] 262s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-lazr.uri all 1.0.6-4 [13.6 kB] 263s Fetched 374 kB in 0s (887 kB/s) 263s (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 ... 79705 files and directories currently installed.) 263s Preparing to unpack .../libevdev2_1.13.3+dfsg-1_arm64.deb ... 263s Unpacking libevdev2:arm64 (1.13.3+dfsg-1) over (1.13.2+dfsg-1) ... 263s Preparing to unpack .../archives/nano_8.2-1_arm64.deb ... 263s Unpacking nano (8.2-1) over (8.1-1) ... 263s Preparing to unpack .../libftdi1-2_1.5-7_arm64.deb ... 263s Unpacking libftdi1-2:arm64 (1.5-7) over (1.5-6build5) ... 263s Preparing to unpack .../libinih1_58-1ubuntu1_arm64.deb ... 263s Unpacking libinih1:arm64 (58-1ubuntu1) over (55-1ubuntu2) ... 263s Preparing to unpack .../python3-lazr.uri_1.0.6-4_all.deb ... 264s Unpacking python3-lazr.uri (1.0.6-4) over (1.0.6-3) ... 264s Setting up libinih1:arm64 (58-1ubuntu1) ... 264s Setting up python3-lazr.uri (1.0.6-4) ... 264s Setting up libftdi1-2:arm64 (1.5-7) ... 264s Setting up nano (8.2-1) ... 264s Setting up libevdev2:arm64 (1.13.3+dfsg-1) ... 264s Processing triggers for man-db (2.12.1-3) ... 265s Processing triggers for install-info (7.1.1-1) ... 265s Processing triggers for libc-bin (2.40-1ubuntu3) ... 265s Reading package lists... 266s Building dependency tree... 266s Reading state information... 268s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 268s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 268s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 268s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 268s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 270s Reading package lists... 270s Reading package lists... 271s Building dependency tree... 271s Reading state information... 272s Calculating upgrade... 273s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 273s Reading package lists... 274s Building dependency tree... 274s Reading state information... 276s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 280s Reading package lists... 280s Building dependency tree... 280s Reading state information... 281s Starting pkgProblemResolver with broken count: 0 281s Starting 2 pkgProblemResolver with broken count: 0 281s Done 283s The following additional packages will be installed: 283s python3-all python3-importlib-metadata python3-packaging python3-pyfaidx 283s Recommended packages: 283s python3-biopython 283s The following NEW packages will be installed: 283s autopkgtest-satdep python3-all python3-importlib-metadata python3-packaging 283s python3-pyfaidx 283s 0 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. 283s Need to get 92.1 kB/92.8 kB of archives. 283s After this operation, 410 kB of additional disk space will be used. 283s Get:1 /tmp/autopkgtest.ppbD4i/2-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [716 B] 283s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-all arm64 3.12.6-0ubuntu1 [886 B] 283s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-importlib-metadata all 8.2.0-2 [20.3 kB] 283s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB] 283s Get:5 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyfaidx all 0.8.1.2-1 [29.6 kB] 284s Fetched 92.1 kB in 0s (252 kB/s) 284s Selecting previously unselected package python3-all. 284s (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 ... 79705 files and directories currently installed.) 284s Preparing to unpack .../python3-all_3.12.6-0ubuntu1_arm64.deb ... 284s Unpacking python3-all (3.12.6-0ubuntu1) ... 284s Selecting previously unselected package python3-importlib-metadata. 284s Preparing to unpack .../python3-importlib-metadata_8.2.0-2_all.deb ... 284s Unpacking python3-importlib-metadata (8.2.0-2) ... 284s Selecting previously unselected package python3-packaging. 284s Preparing to unpack .../python3-packaging_24.1-1_all.deb ... 284s Unpacking python3-packaging (24.1-1) ... 284s Selecting previously unselected package python3-pyfaidx. 284s Preparing to unpack .../python3-pyfaidx_0.8.1.2-1_all.deb ... 284s Unpacking python3-pyfaidx (0.8.1.2-1) ... 284s Selecting previously unselected package autopkgtest-satdep. 284s Preparing to unpack .../2-autopkgtest-satdep.deb ... 284s Unpacking autopkgtest-satdep (0) ... 284s Setting up python3-importlib-metadata (8.2.0-2) ... 284s Setting up python3-all (3.12.6-0ubuntu1) ... 284s Setting up python3-packaging (24.1-1) ... 285s Setting up python3-pyfaidx (0.8.1.2-1) ... 285s Setting up autopkgtest-satdep (0) ... 285s Processing triggers for man-db (2.12.1-3) ... 291s (Reading database ... 79766 files and directories currently installed.) 291s Removing autopkgtest-satdep (0) ... 294s autopkgtest [18:00:40]: 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 294s autopkgtest [18:00:40]: test autodep8-python3: [----------------------- 294s Testing with python3.12: 294s 295s autopkgtest [18:00:41]: test autodep8-python3: -----------------------] 295s autopkgtest [18:00:41]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 295s autodep8-python3 PASS (superficial) 296s autopkgtest [18:00:42]: @@@@@@@@@@@@@@@@@@@@ summary 296s run-unit-test PASS 296s autodep8-python3 PASS (superficial) 309s nova [W] Skipping flock in bos03-arm64 309s Creating nova instance adt-plucky-arm64-python-pyfaidx-20241101-175546-juju-7f2275-prod-proposed-migration-environment-14-ec419165-c19b-4d56-b90a-74b31adc9e29 from image adt/ubuntu-plucky-arm64-server-20241101.img (UUID 520a937f-514a-4e80-b76b-163a8c247e3e)... 309s nova [W] Skipping flock in bos03-arm64 309s Creating nova instance adt-plucky-arm64-python-pyfaidx-20241101-175546-juju-7f2275-prod-proposed-migration-environment-14-ec419165-c19b-4d56-b90a-74b31adc9e29 from image adt/ubuntu-plucky-arm64-server-20241101.img (UUID 520a937f-514a-4e80-b76b-163a8c247e3e)...