0s autopkgtest [10:51:09]: starting date and time: 2025-11-04 10:51:09+0000 0s autopkgtest [10:51:09]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [10:51:09]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.dm0pkn32/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:pytest --apt-upgrade python-gffutils --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=pytest/8.4.2-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-4.secgroup --name adt-resolute-arm64-python-gffutils-20251104-105109-juju-7f2275-prod-proposed-migration-environment-2-cc02c8bf-e8b2-482f-abba-4065b2fa37df --image adt/ubuntu-resolute-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-arm64-python-gffutils-20251104-105109-juju-7f2275-prod-proposed-migration-environment-2-cc02c8bf-e8b2-482f-abba-4065b2fa37df from image adt/ubuntu-resolute-arm64-server-20251104.img (UUID 2e2491ad-9a1f-4837-a9e6-434abe3bdc09)... 66s autopkgtest [10:52:15]: testbed dpkg architecture: arm64 66s autopkgtest [10:52:15]: testbed apt version: 3.1.11 67s autopkgtest [10:52:16]: @@@@@@@@@@@@@@@@@@@@ test bed setup 67s autopkgtest [10:52:16]: testbed release detected to be: None 68s autopkgtest [10:52:17]: updating testbed package index (apt update) 68s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [87.8 kB] 69s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 69s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 69s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 69s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [23.7 kB] 69s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [79.5 kB] 69s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1009 kB] 70s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [9848 B] 70s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 Packages [125 kB] 70s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 c-n-f Metadata [2964 B] 70s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 Packages [107 kB] 70s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 c-n-f Metadata [324 B] 70s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 Packages [615 kB] 70s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 c-n-f Metadata [15.4 kB] 70s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 Packages [14.0 kB] 70s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 c-n-f Metadata [516 B] 71s Fetched 2091 kB in 2s (1102 kB/s) 72s Reading package lists... 74s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 74s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 74s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 74s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 75s Reading package lists... 75s Reading package lists... 76s Building dependency tree... 76s Reading state information... 76s Calculating upgrade... 77s The following packages will be upgraded: 77s base-passwd bash-completion iputils-tracepath liblz4-1 77s 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 77s Need to get 359 kB of archives. 77s After this operation, 10.2 kB of additional disk space will be used. 77s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 base-passwd arm64 3.6.8 [54.6 kB] 78s Get:2 http://ftpmaster.internal/ubuntu resolute/main arm64 liblz4-1 arm64 1.10.0-6 [75.5 kB] 78s Get:3 http://ftpmaster.internal/ubuntu resolute/main arm64 bash-completion all 1:2.16.0-8 [214 kB] 78s Get:4 http://ftpmaster.internal/ubuntu resolute/main arm64 iputils-tracepath arm64 3:20250605-1ubuntu1 [14.7 kB] 79s dpkg-preconfigure: unable to re-open stdin: No such file or directory 79s Fetched 359 kB in 1s (479 kB/s) 79s (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 ... 83477 files and directories currently installed.) 79s Preparing to unpack .../base-passwd_3.6.8_arm64.deb ... 79s Unpacking base-passwd (3.6.8) over (3.6.7) ... 80s Setting up base-passwd (3.6.8) ... 80s (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 ... 83477 files and directories currently installed.) 80s Preparing to unpack .../liblz4-1_1.10.0-6_arm64.deb ... 80s Unpacking liblz4-1:arm64 (1.10.0-6) over (1.10.0-4build1) ... 80s Preparing to unpack .../bash-completion_1%3a2.16.0-8_all.deb ... 80s Unpacking bash-completion (1:2.16.0-8) over (1:2.16.0-7) ... 81s Preparing to unpack .../iputils-tracepath_3%3a20250605-1ubuntu1_arm64.deb ... 81s Unpacking iputils-tracepath (3:20250605-1ubuntu1) over (3:20240905-3ubuntu3) ... 81s Setting up liblz4-1:arm64 (1.10.0-6) ... 81s Setting up bash-completion (1:2.16.0-8) ... 81s Setting up iputils-tracepath (3:20250605-1ubuntu1) ... 81s Processing triggers for man-db (2.13.1-1) ... 83s Processing triggers for libc-bin (2.42-0ubuntu3) ... 83s autopkgtest [10:52:32]: upgrading testbed (apt dist-upgrade and autopurge) 84s Reading package lists... 84s Building dependency tree... 84s Reading state information... 84s Calculating upgrade... 85s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 85s Reading package lists... 85s Building dependency tree... 85s Reading state information... 86s Solving dependencies... 86s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 90s autopkgtest [10:52:39]: testbed running kernel: Linux 6.17.0-5-generic #5-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 22 09:50:31 UTC 2025 90s autopkgtest [10:52:39]: @@@@@@@@@@@@@@@@@@@@ apt-source python-gffutils 93s Get:1 http://ftpmaster.internal/ubuntu resolute/universe python-gffutils 0.13-3 (dsc) [2331 B] 93s Get:2 http://ftpmaster.internal/ubuntu resolute/universe python-gffutils 0.13-3 (tar) [1560 kB] 93s Get:3 http://ftpmaster.internal/ubuntu resolute/universe python-gffutils 0.13-3 (diff) [5460 B] 94s gpgv: Signature made Sat Aug 23 17:09:16 2025 UTC 94s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 94s gpgv: issuer "tchet@debian.org" 94s gpgv: Can't check signature: No public key 94s dpkg-source: warning: cannot verify inline signature for ./python-gffutils_0.13-3.dsc: no acceptable signature found 94s autopkgtest [10:52:43]: testing package python-gffutils version 0.13-3 94s autopkgtest [10:52:43]: build not needed 97s autopkgtest [10:52:46]: test run-unit-test: preparing testbed 97s Reading package lists... 98s Building dependency tree... 98s Reading state information... 98s Solving dependencies... 99s The following NEW packages will be installed: 99s fontconfig-config fonts-urw-base35 libblas3 libcairo2 libdeflate0 99s libfontconfig1 libfontenc1 libgfortran5 libgomp1 libgraphite2-3 99s libharfbuzz0b libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 99s liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 99s libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 99s libxrender1 python3-argcomplete python3-argh python3-biopython python3-cairo 99s python3-charset-normalizer python3-freetype python3-gffutils 99s python3-iniconfig python3-numpy python3-numpy-dev python3-packaging 99s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 99s python3-rlpycairo sgml-base w3c-sgml-lib x11-common xfonts-encodings 99s xfonts-utils xml-core 99s 0 upgraded, 52 newly installed, 0 to remove and 0 not upgraded. 99s Need to get 27.3 MB of archives. 99s After this operation, 94.4 MB of additional disk space will be used. 99s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1ubuntu1 [146 kB] 99s Get:2 http://ftpmaster.internal/ubuntu resolute/main arm64 libblas3 arm64 3.12.1-7 [181 kB] 99s Get:3 http://ftpmaster.internal/ubuntu resolute/main arm64 libgfortran5 arm64 15.2.0-7ubuntu1 [450 kB] 100s Get:4 http://ftpmaster.internal/ubuntu resolute/main arm64 liblapack3 arm64 3.12.1-7 [2300 kB] 101s Get:5 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-numpy arm64 1:2.2.4+ds-1ubuntu1 [3986 kB] 102s Get:6 http://ftpmaster.internal/ubuntu resolute/main arm64 libfontenc1 arm64 1:1.1.8-1build1 [13.9 kB] 102s Get:7 http://ftpmaster.internal/ubuntu resolute/main arm64 x11-common all 1:7.7+24ubuntu1 [22.4 kB] 102s Get:8 http://ftpmaster.internal/ubuntu resolute/main arm64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 102s Get:9 http://ftpmaster.internal/ubuntu resolute/main arm64 xfonts-utils arm64 1:7.7+7 [95.6 kB] 102s Get:10 http://ftpmaster.internal/ubuntu resolute/main arm64 fonts-urw-base35 all 20200910-8 [11.0 MB] 104s Get:11 http://ftpmaster.internal/ubuntu resolute/main arm64 fontconfig-config arm64 2.15.0-2.3ubuntu1 [38.1 kB] 104s Get:12 http://ftpmaster.internal/ubuntu resolute/main arm64 libfontconfig1 arm64 2.15.0-2.3ubuntu1 [144 kB] 104s Get:13 http://ftpmaster.internal/ubuntu resolute/main arm64 libpixman-1-0 arm64 0.46.4-1 [204 kB] 104s Get:14 http://ftpmaster.internal/ubuntu resolute/main arm64 libxcb-render0 arm64 1.17.0-2build1 [18.1 kB] 104s Get:15 http://ftpmaster.internal/ubuntu resolute/main arm64 libxcb-shm0 arm64 1.17.0-2build1 [6234 B] 104s Get:16 http://ftpmaster.internal/ubuntu resolute/main arm64 libxrender1 arm64 1:0.9.12-1 [19.5 kB] 104s Get:17 http://ftpmaster.internal/ubuntu resolute/main arm64 libcairo2 arm64 1.18.4-1build1 [592 kB] 104s Get:18 http://ftpmaster.internal/ubuntu resolute/main arm64 libdeflate0 arm64 1.23-2 [46.4 kB] 104s Get:19 http://ftpmaster.internal/ubuntu resolute/main arm64 libgomp1 arm64 15.2.0-7ubuntu1 [147 kB] 104s Get:20 http://ftpmaster.internal/ubuntu resolute/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB] 104s Get:21 http://ftpmaster.internal/ubuntu resolute/main arm64 libharfbuzz0b arm64 12.1.0-1 [523 kB] 104s Get:22 http://ftpmaster.internal/ubuntu resolute/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB] 104s Get:23 http://ftpmaster.internal/ubuntu resolute/main arm64 libjpeg-turbo8 arm64 2.1.5-4ubuntu2 [165 kB] 104s Get:24 http://ftpmaster.internal/ubuntu resolute/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 104s Get:25 http://ftpmaster.internal/ubuntu resolute/main arm64 liblcms2-2 arm64 2.16-2 [170 kB] 104s Get:26 http://ftpmaster.internal/ubuntu resolute/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB] 104s Get:27 http://ftpmaster.internal/ubuntu resolute/main arm64 libraqm0 arm64 0.10.3-1 [15.0 kB] 104s Get:28 http://ftpmaster.internal/ubuntu resolute/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [16.9 kB] 104s Get:29 http://ftpmaster.internal/ubuntu resolute/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB] 104s Get:30 http://ftpmaster.internal/ubuntu resolute/main arm64 libwebp7 arm64 1.5.0-0.1 [194 kB] 104s Get:31 http://ftpmaster.internal/ubuntu resolute/main arm64 libtiff6 arm64 4.7.0-3ubuntu3 [196 kB] 104s Get:32 http://ftpmaster.internal/ubuntu resolute/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [12.5 kB] 104s Get:33 http://ftpmaster.internal/ubuntu resolute/main arm64 libwebpmux3 arm64 1.5.0-0.1 [25.4 kB] 104s Get:34 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-argcomplete all 3.6.2-1 [35.8 kB] 104s Get:35 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-charset-normalizer arm64 3.4.2-1 [125 kB] 104s Get:36 http://ftpmaster.internal/ubuntu resolute/main arm64 libopenjp2-7 arm64 2.5.3-2.1 [179 kB] 104s Get:37 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-pil arm64 11.3.0-1ubuntu2 [492 kB] 104s Get:38 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-cairo arm64 1.27.0-2build1 [141 kB] 104s Get:39 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-freetype all 2.5.1-2 [92.2 kB] 104s Get:40 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-rlpycairo all 0.3.0-4 [9332 B] 104s Get:41 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-reportlab all 4.4.4-2 [1147 kB] 104s Get:42 http://ftpmaster.internal/ubuntu resolute/main arm64 sgml-base all 1.31+nmu1 [11.0 kB] 104s Get:43 http://ftpmaster.internal/ubuntu resolute/main arm64 xml-core all 0.19 [20.3 kB] 104s Get:44 http://ftpmaster.internal/ubuntu resolute/universe arm64 w3c-sgml-lib all 1.3-3 [280 kB] 104s Get:45 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-biopython arm64 1.85+dfsg-4 [1710 kB] 104s Get:46 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-argh all 0.31.3-1 [27.0 kB] 104s Get:47 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-packaging all 25.0-1 [52.8 kB] 104s Get:48 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-pyfaidx all 0.8.1.3-2 [29.7 kB] 104s Get:49 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-gffutils all 0.13-3 [1080 kB] 104s Get:50 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-iniconfig all 2.1.0-1 [6840 B] 104s Get:51 http://ftpmaster.internal/ubuntu resolute/universe arm64 python3-pluggy all 1.6.0-1 [21.0 kB] 104s Get:52 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 python3-pytest all 8.4.2-1 [268 kB] 105s Fetched 27.3 MB in 6s (4923 kB/s) 105s Selecting previously unselected package python3-numpy-dev:arm64. 105s (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 ... 83477 files and directories currently installed.) 105s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.4+ds-1ubuntu1_arm64.deb ... 105s Unpacking python3-numpy-dev:arm64 (1:2.2.4+ds-1ubuntu1) ... 105s Selecting previously unselected package libblas3:arm64. 105s Preparing to unpack .../01-libblas3_3.12.1-7_arm64.deb ... 105s Unpacking libblas3:arm64 (3.12.1-7) ... 105s Selecting previously unselected package libgfortran5:arm64. 105s Preparing to unpack .../02-libgfortran5_15.2.0-7ubuntu1_arm64.deb ... 105s Unpacking libgfortran5:arm64 (15.2.0-7ubuntu1) ... 105s Selecting previously unselected package liblapack3:arm64. 105s Preparing to unpack .../03-liblapack3_3.12.1-7_arm64.deb ... 105s Unpacking liblapack3:arm64 (3.12.1-7) ... 106s Selecting previously unselected package python3-numpy. 106s Preparing to unpack .../04-python3-numpy_1%3a2.2.4+ds-1ubuntu1_arm64.deb ... 106s Unpacking python3-numpy (1:2.2.4+ds-1ubuntu1) ... 106s Selecting previously unselected package libfontenc1:arm64. 106s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_arm64.deb ... 106s Unpacking libfontenc1:arm64 (1:1.1.8-1build1) ... 106s Selecting previously unselected package x11-common. 106s Preparing to unpack .../06-x11-common_1%3a7.7+24ubuntu1_all.deb ... 106s Unpacking x11-common (1:7.7+24ubuntu1) ... 106s Selecting previously unselected package xfonts-encodings. 106s Preparing to unpack .../07-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 106s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 106s Selecting previously unselected package xfonts-utils. 106s Preparing to unpack .../08-xfonts-utils_1%3a7.7+7_arm64.deb ... 106s Unpacking xfonts-utils (1:7.7+7) ... 106s Selecting previously unselected package fonts-urw-base35. 106s Preparing to unpack .../09-fonts-urw-base35_20200910-8_all.deb ... 106s Unpacking fonts-urw-base35 (20200910-8) ... 107s Selecting previously unselected package fontconfig-config. 107s Preparing to unpack .../10-fontconfig-config_2.15.0-2.3ubuntu1_arm64.deb ... 107s Unpacking fontconfig-config (2.15.0-2.3ubuntu1) ... 107s Selecting previously unselected package libfontconfig1:arm64. 107s Preparing to unpack .../11-libfontconfig1_2.15.0-2.3ubuntu1_arm64.deb ... 107s Unpacking libfontconfig1:arm64 (2.15.0-2.3ubuntu1) ... 107s Selecting previously unselected package libpixman-1-0:arm64. 107s Preparing to unpack .../12-libpixman-1-0_0.46.4-1_arm64.deb ... 107s Unpacking libpixman-1-0:arm64 (0.46.4-1) ... 107s Selecting previously unselected package libxcb-render0:arm64. 107s Preparing to unpack .../13-libxcb-render0_1.17.0-2build1_arm64.deb ... 107s Unpacking libxcb-render0:arm64 (1.17.0-2build1) ... 107s Selecting previously unselected package libxcb-shm0:arm64. 107s Preparing to unpack .../14-libxcb-shm0_1.17.0-2build1_arm64.deb ... 107s Unpacking libxcb-shm0:arm64 (1.17.0-2build1) ... 107s Selecting previously unselected package libxrender1:arm64. 107s Preparing to unpack .../15-libxrender1_1%3a0.9.12-1_arm64.deb ... 107s Unpacking libxrender1:arm64 (1:0.9.12-1) ... 108s Selecting previously unselected package libcairo2:arm64. 108s Preparing to unpack .../16-libcairo2_1.18.4-1build1_arm64.deb ... 108s Unpacking libcairo2:arm64 (1.18.4-1build1) ... 108s Selecting previously unselected package libdeflate0:arm64. 108s Preparing to unpack .../17-libdeflate0_1.23-2_arm64.deb ... 108s Unpacking libdeflate0:arm64 (1.23-2) ... 108s Selecting previously unselected package libgomp1:arm64. 108s Preparing to unpack .../18-libgomp1_15.2.0-7ubuntu1_arm64.deb ... 108s Unpacking libgomp1:arm64 (15.2.0-7ubuntu1) ... 108s Selecting previously unselected package libgraphite2-3:arm64. 108s Preparing to unpack .../19-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ... 108s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 108s Selecting previously unselected package libharfbuzz0b:arm64. 108s Preparing to unpack .../20-libharfbuzz0b_12.1.0-1_arm64.deb ... 108s Unpacking libharfbuzz0b:arm64 (12.1.0-1) ... 108s Selecting previously unselected package libimagequant0:arm64. 108s Preparing to unpack .../21-libimagequant0_2.18.0-1build1_arm64.deb ... 108s Unpacking libimagequant0:arm64 (2.18.0-1build1) ... 108s Selecting previously unselected package libjpeg-turbo8:arm64. 108s Preparing to unpack .../22-libjpeg-turbo8_2.1.5-4ubuntu2_arm64.deb ... 108s Unpacking libjpeg-turbo8:arm64 (2.1.5-4ubuntu2) ... 108s Selecting previously unselected package libjpeg8:arm64. 108s Preparing to unpack .../23-libjpeg8_8c-2ubuntu11_arm64.deb ... 108s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ... 108s Selecting previously unselected package liblcms2-2:arm64. 108s Preparing to unpack .../24-liblcms2-2_2.16-2_arm64.deb ... 108s Unpacking liblcms2-2:arm64 (2.16-2) ... 108s Selecting previously unselected package liblerc4:arm64. 108s Preparing to unpack .../25-liblerc4_4.0.0+ds-5ubuntu1_arm64.deb ... 108s Unpacking liblerc4:arm64 (4.0.0+ds-5ubuntu1) ... 108s Selecting previously unselected package libraqm0:arm64. 108s Preparing to unpack .../26-libraqm0_0.10.3-1_arm64.deb ... 108s Unpacking libraqm0:arm64 (0.10.3-1) ... 108s Selecting previously unselected package libsharpyuv0:arm64. 108s Preparing to unpack .../27-libsharpyuv0_1.5.0-0.1_arm64.deb ... 108s Unpacking libsharpyuv0:arm64 (1.5.0-0.1) ... 108s Selecting previously unselected package libjbig0:arm64. 108s Preparing to unpack .../28-libjbig0_2.1-6.1ubuntu2_arm64.deb ... 108s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ... 108s Selecting previously unselected package libwebp7:arm64. 108s Preparing to unpack .../29-libwebp7_1.5.0-0.1_arm64.deb ... 108s Unpacking libwebp7:arm64 (1.5.0-0.1) ... 108s Selecting previously unselected package libtiff6:arm64. 108s Preparing to unpack .../30-libtiff6_4.7.0-3ubuntu3_arm64.deb ... 108s Unpacking libtiff6:arm64 (4.7.0-3ubuntu3) ... 108s Selecting previously unselected package libwebpdemux2:arm64. 108s Preparing to unpack .../31-libwebpdemux2_1.5.0-0.1_arm64.deb ... 108s Unpacking libwebpdemux2:arm64 (1.5.0-0.1) ... 108s Selecting previously unselected package libwebpmux3:arm64. 108s Preparing to unpack .../32-libwebpmux3_1.5.0-0.1_arm64.deb ... 108s Unpacking libwebpmux3:arm64 (1.5.0-0.1) ... 108s Selecting previously unselected package python3-argcomplete. 108s Preparing to unpack .../33-python3-argcomplete_3.6.2-1_all.deb ... 108s Unpacking python3-argcomplete (3.6.2-1) ... 109s Selecting previously unselected package 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Setting up libfontenc1:arm64 (1:1.1.8-1build1) ... 111s Setting up libblas3:arm64 (3.12.1-7) ... 111s 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 111s Setting up python3-packaging (25.0-1) ... 111s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 111s Setting up libimagequant0:arm64 (2.18.0-1build1) ... 111s Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1ubuntu1) ... 111s Setting up libjpeg-turbo8:arm64 (2.1.5-4ubuntu2) ... 111s Setting up libgfortran5:arm64 (15.2.0-7ubuntu1) ... 111s Setting up python3-pluggy (1.6.0-1) ... 111s Setting up libwebp7:arm64 (1.5.0-0.1) ... 111s Setting up libopenjp2-7:arm64 (2.5.3-2.1) ... 111s Setting up libharfbuzz0b:arm64 (12.1.0-1) ... 111s Setting up sgml-base (1.31+nmu1) ... 111s Setting up python3-argcomplete (3.6.2-1) ... 111s Setting up libwebpmux3:arm64 (1.5.0-0.1) ... 111s Setting up libjpeg8:arm64 (8c-2ubuntu11) ... 111s Setting up python3-pyfaidx (0.8.1.3-2) ... 111s Setting up liblapack3:arm64 (3.12.1-7) ... 112s 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 112s Setting up python3-pytest (8.4.2-1) ... 112s Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... 112s Setting up xfonts-utils (1:7.7+7) ... 112s Setting up libraqm0:arm64 (0.10.3-1) ... 112s Setting up python3-numpy (1:2.2.4+ds-1ubuntu1) ... 114s Setting up libtiff6:arm64 (4.7.0-3ubuntu3) ... 114s Setting up xml-core (0.19) ... 114s Setting up fonts-urw-base35 (20200910-8) ... 114s Setting up python3-pil:arm64 (11.3.0-1ubuntu2) ... 115s Setting up fontconfig-config (2.15.0-2.3ubuntu1) ... 115s Setting up libfontconfig1:arm64 (2.15.0-2.3ubuntu1) ... 115s Setting up libcairo2:arm64 (1.18.4-1build1) ... 115s Setting up python3-cairo (1.27.0-2build1) ... 115s Setting up python3-rlpycairo (0.3.0-4) ... 115s Setting up python3-reportlab (4.4.4-2) ... 116s Processing triggers for libc-bin (2.42-0ubuntu3) ... 116s Processing triggers for man-db (2.13.1-1) ... 117s Processing triggers for sgml-base (1.31+nmu1) ... 117s Setting up w3c-sgml-lib (1.3-3) ... 148s Setting up python3-biopython (1.85+dfsg-4) ... 149s Setting up python3-gffutils (0.13-3) ... 150s autopkgtest [10:53:39]: test run-unit-test: [----------------------- 150s + pkg=python-gffutils 150s + [ /tmp/autopkgtest.9CdJ6m/autopkgtest_tmp = ] 150s + cd /tmp/autopkgtest.9CdJ6m/autopkgtest_tmp 150s + export HOME=/tmp/autopkgtest.9CdJ6m/autopkgtest_tmp 150s + cp -r /usr/lib/python3/dist-packages/gffutils/test ./ 150s + pytest --doctest-modules -m not slow test 151s ============================= test session starts ============================== 151s platform linux -- Python 3.13.9, pytest-8.4.2, pluggy-1.6.0 151s rootdir: /tmp/autopkgtest.9CdJ6m/autopkgtest_tmp 151s plugins: typeguard-4.4.2 151s collected 110 items 151s 151s test/feature_test.py ........... [ 10%] 151s test/helpers_test.py .. [ 11%] 151s test/parser_test.py .................. [ 28%] 152s test/test_1.py ......................s........... [ 59%] 152s test/test_biopython_integration.py . [ 60%] 153s test/test_cli.py . [ 60%] 153s test/test_issues.py ........................ [ 82%] 153s test/test_iterators.py .... [ 86%] 153s test/test_merge.py ......... [ 94%] 154s test/test_merge_all.py ...... [100%] 154s 154s =============================== warnings summary =============================== 154s test/performance_evaluation.py:190 154s /tmp/autopkgtest.9CdJ6m/autopkgtest_tmp/test/performance_evaluation.py:190: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html 154s @pytest.mark.slow 154s 154s test/performance_evaluation.py:208 154s /tmp/autopkgtest.9CdJ6m/autopkgtest_tmp/test/performance_evaluation.py:208: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html 154s @pytest.mark.slow 154s 154s test/parser_test.py::test_parser_from_string 154s /usr/lib/python3/dist-packages/_pytest/python.py:161: PytestReturnNotNoneWarning: Test functions should return None, but test/parser_test.py::test_parser_from_string returned . 154s Did you mean to use `assert` instead of `return`? 154s See https://docs.pytest.org/en/stable/how-to/assert.html#return-not-none for more information. 154s warnings.warn( 154s 154s test/parser_test.py::test_inconsistent_dialect 154s test/test_1.py::test_disable_infer 154s test/test_issues.py::test_pr_172 154s /usr/lib/python3/dist-packages/gffutils/create.py:770: UserWarning: It appears you have a gene feature in your GTF file. You may want to use the `disable_infer_genes=True` option to speed up database creation 154s warnings.warn( 154s 154s test/test_1.py::test_disable_infer 154s /usr/lib/python3/dist-packages/gffutils/create.py:763: UserWarning: It appears you have a transcript feature in your GTF file. You may want to use the `disable_infer_transcripts=True` option to speed up database creation 154s warnings.warn( 154s 154s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 154s ================== 109 passed, 1 skipped, 7 warnings in 2.82s ================== 154s autopkgtest [10:53:43]: test run-unit-test: -----------------------] 155s autopkgtest [10:53:44]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 155s run-unit-test PASS 155s autopkgtest [10:53:44]: @@@@@@@@@@@@@@@@@@@@ summary 155s run-unit-test PASS