0s autopkgtest [00:58:15]: starting date and time: 2025-10-19 00:58:15+0000 0s autopkgtest [00:58:15]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [00:58:15]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.g5ugvwfn/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults --apt-upgrade kineticstools --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python3-defaults/3.13.7-2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu4-ram16-disk100-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@sto01-2.secgroup --name adt-resolute-amd64-kineticstools-20251019-005814-juju-7f2275-prod-proposed-migration-environment-20-136114ab-887d-44ec-98e6-a112cd862319 --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 3s Creating nova instance adt-resolute-amd64-kineticstools-20251019-005814-juju-7f2275-prod-proposed-migration-environment-20-136114ab-887d-44ec-98e6-a112cd862319 from image adt/ubuntu-resolute-amd64-server-20251018.img (UUID dd697a48-b6cc-4a02-84bf-0f9f2fad5f89)... 26s autopkgtest [00:58:41]: testbed dpkg architecture: amd64 26s autopkgtest [00:58:41]: testbed apt version: 3.1.6ubuntu2 26s autopkgtest [00:58:41]: @@@@@@@@@@@@@@@@@@@@ test bed setup 26s autopkgtest [00:58:41]: testbed release detected to be: None 27s autopkgtest [00:58:42]: updating testbed package index (apt update) 27s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [83.3 kB] 27s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 27s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 27s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 28s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [17.1 kB] 28s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [56.0 kB] 28s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [5028 B] 28s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [405 kB] 28s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [116 kB] 28s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [66.7 kB] 28s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted i386 Packages [3208 B] 28s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 Packages [28.0 kB] 28s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [122 kB] 28s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [314 kB] 28s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [5456 B] 28s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [13.5 kB] 28s Fetched 1235 kB in 1s (1634 kB/s) 29s Reading package lists... 29s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 29s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 29s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 29s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 30s Reading package lists... 30s Reading package lists... 30s Building dependency tree... 30s Reading state information... 30s Calculating upgrade... 30s The following packages will be upgraded: 30s apt gir1.2-girepository-2.0 libapt-pkg7.0 libgirepository-1.0-1 30s libpython3-stdlib python3 python3-minimal 30s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 30s Need to get 2751 kB of archives. 30s After this operation, 2048 B of additional disk space will be used. 30s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3-minimal amd64 3.13.7-2 [27.8 kB] 30s Get:2 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3 amd64 3.13.7-2 [23.9 kB] 30s Get:3 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 libpython3-stdlib amd64 3.13.7-2 [10.6 kB] 30s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 libapt-pkg7.0 amd64 3.1.8ubuntu1 [1140 kB] 30s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 apt amd64 3.1.8ubuntu1 [1438 kB] 30s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libgirepository-1.0-1 amd64 1.86.0-6 [85.9 kB] 30s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-girepository-2.0 amd64 1.86.0-6 [25.3 kB] 31s dpkg-preconfigure: unable to re-open stdin: No such file or directory 31s Fetched 2751 kB in 0s (6780 kB/s) 31s (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 ... 78439 files and directories currently installed.) 31s Preparing to unpack .../python3-minimal_3.13.7-2_amd64.deb ... 31s Unpacking python3-minimal (3.13.7-2) over (3.13.7-1) ... 31s Setting up python3-minimal (3.13.7-2) ... 31s (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 ... 78439 files and directories currently installed.) 31s Preparing to unpack .../0-python3_3.13.7-2_amd64.deb ... 31s running python pre-rtupdate hooks for python3.13... 31s Unpacking python3 (3.13.7-2) over (3.13.7-1) ... 31s Preparing to unpack .../1-libpython3-stdlib_3.13.7-2_amd64.deb ... 31s Unpacking libpython3-stdlib:amd64 (3.13.7-2) over (3.13.7-1) ... 31s Preparing to unpack .../2-libapt-pkg7.0_3.1.8ubuntu1_amd64.deb ... 31s Unpacking libapt-pkg7.0:amd64 (3.1.8ubuntu1) over (3.1.6ubuntu2) ... 31s Preparing to unpack .../3-apt_3.1.8ubuntu1_amd64.deb ... 31s Unpacking apt (3.1.8ubuntu1) over (3.1.6ubuntu2) ... 31s Preparing to unpack .../4-libgirepository-1.0-1_1.86.0-6_amd64.deb ... 31s Unpacking libgirepository-1.0-1:amd64 (1.86.0-6) over (1.84.0-1) ... 31s Preparing to unpack .../5-gir1.2-girepository-2.0_1.86.0-6_amd64.deb ... 31s Unpacking gir1.2-girepository-2.0:amd64 (1.86.0-6) over (1.84.0-1) ... 31s Setting up libgirepository-1.0-1:amd64 (1.86.0-6) ... 31s Setting up libapt-pkg7.0:amd64 (3.1.8ubuntu1) ... 31s Setting up libpython3-stdlib:amd64 (3.13.7-2) ... 31s Setting up apt (3.1.8ubuntu1) ... 31s Setting up python3 (3.13.7-2) ... 32s running python rtupdate hooks for python3.13... 32s running python post-rtupdate hooks for python3.13... 32s Setting up gir1.2-girepository-2.0:amd64 (1.86.0-6) ... 32s Processing triggers for man-db (2.13.1-1) ... 32s Processing triggers for libc-bin (2.42-0ubuntu3) ... 33s autopkgtest [00:58:48]: upgrading testbed (apt dist-upgrade and autopurge) 33s Reading package lists... 33s Building dependency tree... 33s Reading state information... 33s Calculating upgrade... 33s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 34s Reading package lists... 34s Building dependency tree... 34s Reading state information... 34s Solving dependencies... 34s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 34s autopkgtest [00:58:49]: rebooting testbed after setup commands that affected boot 48s autopkgtest [00:59:03]: testbed running kernel: Linux 6.17.0-5-generic #5-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 22 10:00:33 UTC 2025 50s autopkgtest [00:59:05]: @@@@@@@@@@@@@@@@@@@@ apt-source kineticstools 54s Get:1 http://ftpmaster.internal/ubuntu resolute/universe kineticstools 0.6.1+git20220223.1326a4d+dfsg-6 (dsc) [2783 B] 54s Get:2 http://ftpmaster.internal/ubuntu resolute/universe kineticstools 0.6.1+git20220223.1326a4d+dfsg-6 (tar) [21.8 MB] 54s Get:3 http://ftpmaster.internal/ubuntu resolute/universe kineticstools 0.6.1+git20220223.1326a4d+dfsg-6 (diff) [11.1 kB] 54s gpgv: Signature made Sun Feb 9 11:20:52 2025 UTC 54s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 54s gpgv: issuer "tchet@debian.org" 54s gpgv: Can't check signature: No public key 54s dpkg-source: warning: cannot verify inline signature for ./kineticstools_0.6.1+git20220223.1326a4d+dfsg-6.dsc: no acceptable signature found 55s autopkgtest [00:59:10]: testing package kineticstools version 0.6.1+git20220223.1326a4d+dfsg-6 55s autopkgtest [00:59:10]: build not needed 57s autopkgtest [00:59:12]: test command1: preparing testbed 58s Reading package lists... 58s Building dependency tree... 58s Reading state information... 58s Solving dependencies... 58s The following NEW packages will be installed: 58s fontconfig-config fonts-urw-base35 hdf5-tools kineticstools 58s kineticstools-data libaec0 libbigwig0t64 libblas3 libcairo2 libdeflate0 58s libfontconfig1 libfontenc1 libgfortran5 libgomp1 libgraphite2-3 58s libharfbuzz0b libhdf5-310 libhdf5-hl-310 libhts3t64 libhtscodecs2 58s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery 58s libjs-jquery-hotkeys libjs-jquery-isonscreen libjs-jquery-metadata 58s libjs-jquery-tablesorter libjs-jquery-throttle-debounce liblapack3 58s liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libsz2 58s libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 58s libxrender1 python3-avro python3-biopython python3-cairo 58s python3-charset-normalizer python3-coverage python3-cram python3-decorator 58s python3-execnet python3-freetype python3-iniconfig python3-iso8601 58s python3-kineticstools python3-numpy python3-numpy-dev python3-packaging 58s python3-pbcommand python3-pbcore python3-pil python3-pluggy python3-pybigwig 58s python3-pysam python3-pytest python3-pytest-cov python3-pytest-xdist 58s python3-pytz python3-reportlab python3-rlpycairo python3-scipy python3-tz 58s sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 58s 0 upgraded, 80 newly installed, 0 to remove and 0 not upgraded. 58s Need to get 78.1 MB of archives. 58s After this operation, 243 MB of additional disk space will be used. 58s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy-dev amd64 1:2.2.4+ds-1ubuntu1 [147 kB] 58s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-6build1 [263 kB] 58s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 15.2.0-5ubuntu1 [939 kB] 58s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-6build1 [2762 kB] 58s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy amd64 1:2.2.4+ds-1ubuntu1 [5377 kB] 58s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 58s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB] 58s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 58s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 59s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 59s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.15.0-2.3ubuntu1 [38.0 kB] 59s Get:12 http://ftpmaster.internal/ubuntu resolute/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 59s Get:13 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 59s Get:14 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-310 amd64 1.14.5+repack-3build1 [1411 kB] 59s Get:15 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-hl-310 amd64 1.14.5+repack-3build1 [59.8 kB] 59s Get:16 http://ftpmaster.internal/ubuntu resolute/universe amd64 hdf5-tools amd64 1.14.5+repack-3build1 [386 kB] 59s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-iso8601 all 2.1.0-2 [9136 B] 59s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-pytz all 2025.2-3 [163 kB] 59s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-tz all 2025.2-3 [1866 B] 59s Get:20 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-avro all 1.12.0+dfsg-1 [75.3 kB] 59s Get:21 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pbcommand all 2.1.1+git20231020.28d1635-1 [104 kB] 59s Get:22 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-charset-normalizer amd64 3.4.2-1 [129 kB] 59s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 15.2.0-5ubuntu1 [151 kB] 59s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 59s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu2 [152 kB] 59s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 59s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 59s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libopenjp2-7 amd64 2.5.3-2.1 [188 kB] 59s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 59s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 59s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libraqm0 amd64 0.10.3-1 [15.4 kB] 59s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2 [49.9 kB] 59s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 59s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 59s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 59s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 59s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB] 59s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB] 59s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB] 59s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-pil amd64 11.3.0-1ubuntu1 [496 kB] 59s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.15.0-2.3ubuntu1 [141 kB] 59s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 59s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2build1 [17.4 kB] 59s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2build1 [6120 B] 59s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB] 59s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-1build1 [611 kB] 59s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-cairo amd64 1.27.0-2 [124 kB] 59s Get:48 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 59s Get:49 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 59s Get:50 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-reportlab all 4.4.2-1 [1145 kB] 59s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 sgml-base all 1.31+nmu1 [11.0 kB] 59s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 xml-core all 0.19 [20.3 kB] 59s Get:53 http://ftpmaster.internal/ubuntu resolute/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 59s Get:54 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-biopython amd64 1.85+dfsg-4 [1719 kB] 59s Get:55 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhtscodecs2 amd64 1.6.1-2 [132 kB] 59s Get:56 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhts3t64 amd64 1.21+ds-1 [514 kB] 59s Get:57 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pysam amd64 0.23.0+ds-1build1 [3966 kB] 59s Get:58 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pbcore all 2.1.2+dfsg-11 [2837 kB] 59s Get:59 http://ftpmaster.internal/ubuntu resolute/universe amd64 libbigwig0t64 amd64 0.4.7+dfsg-3.1build2 [30.2 kB] 59s Get:60 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pybigwig amd64 0.3.23+dfsg-1build3 [41.1 kB] 59s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-decorator all 5.2.1-2 [28.1 kB] 59s Get:62 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-scipy amd64 1.15.3-1 [16.6 MB] 60s Get:63 http://ftpmaster.internal/ubuntu resolute/universe amd64 kineticstools-data all 0.6.1+git20220223.1326a4d+dfsg-6 [21.7 MB] 60s Get:64 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-kineticstools amd64 0.6.1+git20220223.1326a4d+dfsg-6 [47.7 kB] 60s Get:65 http://ftpmaster.internal/ubuntu resolute/universe amd64 kineticstools all 0.6.1+git20220223.1326a4d+dfsg-6 [12.9 kB] 60s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 60s Get:67 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-metadata all 12-4 [6582 B] 60s Get:68 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-4 [192 kB] 60s Get:69 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-throttle-debounce all 1.1+dfsg.1-2 [12.5 kB] 60s Get:70 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-coverage amd64 7.8.2+dfsg1-1 [157 kB] 60s Get:71 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-cram all 0.7-6 [17.8 kB] 60s Get:72 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-execnet all 2.1.1-1 [33.4 kB] 60s Get:73 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 60s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-packaging all 25.0-1 [52.8 kB] 60s Get:75 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 60s Get:76 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytest all 8.3.5-2 [252 kB] 60s Get:77 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-hotkeys all 0.2.0-1 [13.3 kB] 60s Get:78 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-isonscreen all 1.2.0-1.1 [3244 B] 60s Get:79 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytest-cov all 5.0.0-1 [21.3 kB] 60s Get:80 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytest-xdist all 3.6.1-1 [33.8 kB] 60s Fetched 78.1 MB in 2s (34.4 MB/s) 60s Selecting previously unselected package python3-numpy-dev:amd64. 61s (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 ... 78439 files and directories currently installed.) 61s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.4+ds-1ubuntu1_amd64.deb ... 61s Unpacking python3-numpy-dev:amd64 (1:2.2.4+ds-1ubuntu1) ... 61s Selecting previously unselected package libblas3:amd64. 61s Preparing to unpack .../01-libblas3_3.12.1-6build1_amd64.deb ... 61s Unpacking libblas3:amd64 (3.12.1-6build1) ... 61s Selecting previously unselected package libgfortran5:amd64. 61s Preparing to unpack .../02-libgfortran5_15.2.0-5ubuntu1_amd64.deb ... 61s Unpacking libgfortran5:amd64 (15.2.0-5ubuntu1) ... 61s Selecting previously unselected package liblapack3:amd64. 61s Preparing to unpack .../03-liblapack3_3.12.1-6build1_amd64.deb ... 61s Unpacking liblapack3:amd64 (3.12.1-6build1) ... 61s Selecting previously unselected package python3-numpy. 61s Preparing to unpack .../04-python3-numpy_1%3a2.2.4+ds-1ubuntu1_amd64.deb ... 61s Unpacking python3-numpy (1:2.2.4+ds-1ubuntu1) ... 61s Selecting previously unselected package libfontenc1:amd64. 61s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 61s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 61s Selecting previously unselected package x11-common. 61s Preparing to unpack .../06-x11-common_1%3a7.7+24ubuntu1_all.deb ... 61s Unpacking x11-common (1:7.7+24ubuntu1) ... 61s Selecting previously unselected package xfonts-encodings. 61s Preparing to unpack .../07-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 61s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 61s Selecting previously unselected package xfonts-utils. 61s Preparing to unpack .../08-xfonts-utils_1%3a7.7+7_amd64.deb ... 61s Unpacking xfonts-utils (1:7.7+7) ... 61s Selecting previously unselected package fonts-urw-base35. 61s Preparing to unpack .../09-fonts-urw-base35_20200910-8_all.deb ... 61s Unpacking fonts-urw-base35 (20200910-8) ... 61s Selecting previously unselected package fontconfig-config. 61s Preparing to unpack .../10-fontconfig-config_2.15.0-2.3ubuntu1_amd64.deb ... 61s Unpacking fontconfig-config (2.15.0-2.3ubuntu1) ... 61s Selecting previously unselected package libaec0:amd64. 61s Preparing to unpack .../11-libaec0_1.1.3-1_amd64.deb ... 61s Unpacking libaec0:amd64 (1.1.3-1) ... 61s Selecting previously unselected package libsz2:amd64. 61s Preparing to unpack .../12-libsz2_1.1.3-1_amd64.deb ... 61s Unpacking libsz2:amd64 (1.1.3-1) ... 61s Selecting previously unselected package libhdf5-310:amd64. 61s Preparing to unpack .../13-libhdf5-310_1.14.5+repack-3build1_amd64.deb ... 61s Unpacking libhdf5-310:amd64 (1.14.5+repack-3build1) ... 61s Selecting previously unselected package libhdf5-hl-310:amd64. 61s Preparing to unpack .../14-libhdf5-hl-310_1.14.5+repack-3build1_amd64.deb ... 61s Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-3build1) ... 61s Selecting previously unselected package hdf5-tools. 61s Preparing to unpack .../15-hdf5-tools_1.14.5+repack-3build1_amd64.deb ... 61s Unpacking hdf5-tools (1.14.5+repack-3build1) ... 61s Selecting previously unselected package python3-iso8601. 61s Preparing to unpack .../16-python3-iso8601_2.1.0-2_all.deb ... 61s Unpacking python3-iso8601 (2.1.0-2) ... 61s Selecting previously unselected package python3-pytz. 61s Preparing to unpack .../17-python3-pytz_2025.2-3_all.deb ... 61s Unpacking python3-pytz (2025.2-3) ... 61s Selecting previously unselected package python3-tz. 61s Preparing to unpack .../18-python3-tz_2025.2-3_all.deb ... 61s Unpacking python3-tz (2025.2-3) ... 61s Selecting previously unselected package python3-avro. 61s Preparing to unpack .../19-python3-avro_1.12.0+dfsg-1_all.deb ... 61s Unpacking python3-avro (1.12.0+dfsg-1) ... 61s Selecting previously unselected package python3-pbcommand. 61s Preparing to unpack .../20-python3-pbcommand_2.1.1+git20231020.28d1635-1_all.deb ... 61s Unpacking python3-pbcommand (2.1.1+git20231020.28d1635-1) ... 61s Selecting previously unselected package python3-charset-normalizer. 61s Preparing to unpack .../21-python3-charset-normalizer_3.4.2-1_amd64.deb ... 61s Unpacking python3-charset-normalizer (3.4.2-1) ... 61s Selecting previously unselected package libgomp1:amd64. 61s Preparing to unpack .../22-libgomp1_15.2.0-5ubuntu1_amd64.deb ... 61s Unpacking libgomp1:amd64 (15.2.0-5ubuntu1) ... 61s Selecting previously unselected package libimagequant0:amd64. 61s Preparing to unpack .../23-libimagequant0_2.18.0-1build1_amd64.deb ... 61s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 61s Selecting previously unselected package libjpeg-turbo8:amd64. 61s Preparing to unpack .../24-libjpeg-turbo8_2.1.5-4ubuntu2_amd64.deb ... 61s Unpacking libjpeg-turbo8:amd64 (2.1.5-4ubuntu2) ... 61s Selecting previously unselected package libjpeg8:amd64. 61s Preparing to unpack .../25-libjpeg8_8c-2ubuntu11_amd64.deb ... 61s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 61s Selecting previously unselected package liblcms2-2:amd64. 61s Preparing to unpack .../26-liblcms2-2_2.16-2_amd64.deb ... 61s Unpacking liblcms2-2:amd64 (2.16-2) ... 61s Selecting previously unselected package libopenjp2-7:amd64. 61s Preparing to unpack .../27-libopenjp2-7_2.5.3-2.1_amd64.deb ... 61s Unpacking libopenjp2-7:amd64 (2.5.3-2.1) ... 61s Selecting previously unselected package libgraphite2-3:amd64. 61s Preparing to unpack .../28-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 61s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 61s Selecting previously unselected package libharfbuzz0b:amd64. 61s 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Selecting previously unselected package libwebp7:amd64. 61s Preparing to unpack .../35-libwebp7_1.5.0-0.1_amd64.deb ... 61s Unpacking libwebp7:amd64 (1.5.0-0.1) ... 61s Selecting previously unselected package libtiff6:amd64. 61s Preparing to unpack .../36-libtiff6_4.7.0-3ubuntu3_amd64.deb ... 61s Unpacking libtiff6:amd64 (4.7.0-3ubuntu3) ... 61s Selecting previously unselected package libwebpdemux2:amd64. 61s Preparing to unpack .../37-libwebpdemux2_1.5.0-0.1_amd64.deb ... 61s Unpacking libwebpdemux2:amd64 (1.5.0-0.1) ... 61s Selecting previously unselected package libwebpmux3:amd64. 61s Preparing to unpack .../38-libwebpmux3_1.5.0-0.1_amd64.deb ... 61s Unpacking libwebpmux3:amd64 (1.5.0-0.1) ... 61s Selecting previously unselected package python3-pil:amd64. 61s Preparing to unpack .../39-python3-pil_11.3.0-1ubuntu1_amd64.deb ... 61s Unpacking python3-pil:amd64 (11.3.0-1ubuntu1) ... 61s Selecting previously unselected package libfontconfig1:amd64. 61s Preparing to unpack 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Unpacking libcairo2:amd64 (1.18.4-1build1) ... 61s Selecting previously unselected package python3-cairo. 61s Preparing to unpack .../46-python3-cairo_1.27.0-2_amd64.deb ... 61s Unpacking python3-cairo (1.27.0-2) ... 61s Selecting previously unselected package python3-freetype. 61s Preparing to unpack .../47-python3-freetype_2.5.1-1_all.deb ... 61s Unpacking python3-freetype (2.5.1-1) ... 61s Selecting previously unselected package python3-rlpycairo. 62s Preparing to unpack .../48-python3-rlpycairo_0.3.0-3_all.deb ... 62s Unpacking python3-rlpycairo (0.3.0-3) ... 62s Selecting previously unselected package python3-reportlab. 62s Preparing to unpack .../49-python3-reportlab_4.4.2-1_all.deb ... 62s Unpacking python3-reportlab (4.4.2-1) ... 62s Selecting previously unselected package sgml-base. 62s Preparing to unpack .../50-sgml-base_1.31+nmu1_all.deb ... 62s Unpacking sgml-base (1.31+nmu1) ... 62s Selecting previously unselected package xml-core. 62s Preparing to unpack .../51-xml-core_0.19_all.deb ... 62s Unpacking xml-core (0.19) ... 62s Selecting previously unselected package w3c-sgml-lib. 62s Preparing to unpack .../52-w3c-sgml-lib_1.3-3_all.deb ... 62s Unpacking w3c-sgml-lib (1.3-3) ... 62s Selecting previously unselected package python3-biopython. 62s Preparing to unpack .../53-python3-biopython_1.85+dfsg-4_amd64.deb ... 62s Unpacking python3-biopython (1.85+dfsg-4) ... 62s Selecting previously unselected package libhtscodecs2:amd64. 62s Preparing to unpack .../54-libhtscodecs2_1.6.1-2_amd64.deb ... 62s Unpacking libhtscodecs2:amd64 (1.6.1-2) ... 62s Selecting previously unselected package libhts3t64:amd64. 62s Preparing to unpack .../55-libhts3t64_1.21+ds-1_amd64.deb ... 62s Unpacking libhts3t64:amd64 (1.21+ds-1) ... 62s Selecting previously unselected package python3-pysam. 62s Preparing to unpack .../56-python3-pysam_0.23.0+ds-1build1_amd64.deb ... 62s Unpacking python3-pysam (0.23.0+ds-1build1) ... 62s Selecting previously unselected package python3-pbcore. 62s Preparing to unpack .../57-python3-pbcore_2.1.2+dfsg-11_all.deb ... 62s Unpacking python3-pbcore (2.1.2+dfsg-11) ... 62s Selecting previously unselected package libbigwig0t64:amd64. 62s Preparing to unpack .../58-libbigwig0t64_0.4.7+dfsg-3.1build2_amd64.deb ... 62s Unpacking libbigwig0t64:amd64 (0.4.7+dfsg-3.1build2) ... 62s Selecting previously unselected package python3-pybigwig. 62s Preparing to unpack .../59-python3-pybigwig_0.3.23+dfsg-1build3_amd64.deb ... 62s Unpacking python3-pybigwig (0.3.23+dfsg-1build3) ... 62s Selecting previously unselected package python3-decorator. 62s Preparing to unpack .../60-python3-decorator_5.2.1-2_all.deb ... 62s Unpacking python3-decorator (5.2.1-2) ... 62s Selecting previously unselected package python3-scipy. 62s Preparing to unpack .../61-python3-scipy_1.15.3-1_amd64.deb ... 62s Unpacking python3-scipy (1.15.3-1) ... 62s Selecting previously unselected package kineticstools-data. 62s Preparing to unpack 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unselected package libjs-jquery-tablesorter. 62s Preparing to unpack .../67-libjs-jquery-tablesorter_1%3a2.31.3+dfsg1-4_all.deb ... 62s Unpacking libjs-jquery-tablesorter (1:2.31.3+dfsg1-4) ... 62s Selecting previously unselected package libjs-jquery-throttle-debounce. 62s Preparing to unpack .../68-libjs-jquery-throttle-debounce_1.1+dfsg.1-2_all.deb ... 62s Unpacking libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... 62s Selecting previously unselected package python3-coverage. 62s Preparing to unpack .../69-python3-coverage_7.8.2+dfsg1-1_amd64.deb ... 62s Unpacking python3-coverage (7.8.2+dfsg1-1) ... 62s Selecting previously unselected package python3-cram. 62s Preparing to unpack .../70-python3-cram_0.7-6_all.deb ... 62s Unpacking python3-cram (0.7-6) ... 62s Selecting previously unselected package python3-execnet. 62s Preparing to unpack .../71-python3-execnet_2.1.1-1_all.deb ... 62s Unpacking python3-execnet (2.1.1-1) ... 62s Selecting previously unselected package python3-iniconfig. 62s Preparing to unpack .../72-python3-iniconfig_1.1.1-2_all.deb ... 62s Unpacking python3-iniconfig (1.1.1-2) ... 62s Selecting previously unselected package python3-packaging. 62s Preparing to unpack .../73-python3-packaging_25.0-1_all.deb ... 62s Unpacking python3-packaging (25.0-1) ... 62s Selecting previously unselected package python3-pluggy. 62s Preparing to unpack .../74-python3-pluggy_1.5.0-1_all.deb ... 62s Unpacking python3-pluggy (1.5.0-1) ... 62s Selecting previously unselected package python3-pytest. 62s Preparing to unpack .../75-python3-pytest_8.3.5-2_all.deb ... 62s Unpacking python3-pytest (8.3.5-2) ... 62s Selecting previously unselected package libjs-jquery-hotkeys. 62s Preparing to unpack .../76-libjs-jquery-hotkeys_0.2.0-1_all.deb ... 62s Unpacking libjs-jquery-hotkeys (0.2.0-1) ... 62s Selecting previously unselected package libjs-jquery-isonscreen. 62s Preparing to unpack .../77-libjs-jquery-isonscreen_1.2.0-1.1_all.deb ... 62s Unpacking libjs-jquery-isonscreen (1.2.0-1.1) ... 62s Selecting previously unselected package python3-pytest-cov. 62s Preparing to unpack .../78-python3-pytest-cov_5.0.0-1_all.deb ... 62s Unpacking python3-pytest-cov (5.0.0-1) ... 62s Selecting previously unselected package python3-pytest-xdist. 62s Preparing to unpack .../79-python3-pytest-xdist_3.6.1-1_all.deb ... 62s Unpacking python3-pytest-xdist (3.6.1-1) ... 62s Setting up libhtscodecs2:amd64 (1.6.1-2) ... 62s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 62s Setting up liblcms2-2:amd64 (2.16-2) ... 62s Setting up python3-iniconfig (1.1.1-2) ... 62s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 62s Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... 62s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 62s Setting up libxrender1:amd64 (1:0.9.12-1) ... 62s Setting up libxcb-render0:amd64 (1.17.0-2build1) ... 62s Setting up python3-charset-normalizer (3.4.2-1) ... 62s Setting up x11-common (1:7.7+24ubuntu1) ... 63s Setting up libdeflate0:amd64 (1.23-2) ... 63s Setting up python3-coverage (7.8.2+dfsg1-1) ... 63s Setting up python3-pytz (2025.2-3) ... 63s Setting up libxcb-shm0:amd64 (1.17.0-2build1) ... 63s Setting up kineticstools-data (0.6.1+git20220223.1326a4d+dfsg-6) ... 63s Setting up libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... 63s Setting up libgomp1:amd64 (15.2.0-5ubuntu1) ... 63s Setting up python3-freetype (2.5.1-1) ... 63s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 63s Setting up libaec0:amd64 (1.1.3-1) ... 63s Setting up python3-tz (2025.2-3) ... 63s Setting up python3-decorator (5.2.1-2) ... 63s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 63s Setting up libblas3:amd64 (3.12.1-6build1) ... 63s 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 63s Setting up python3-packaging (25.0-1) ... 63s Setting up python3-iso8601 (2.1.0-2) ... 63s Setting up python3-avro (1.12.0+dfsg-1) ... 63s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 63s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 63s Setting up python3-numpy-dev:amd64 (1:2.2.4+ds-1ubuntu1) ... 63s Setting up libjpeg-turbo8:amd64 (2.1.5-4ubuntu2) ... 63s Setting up libgfortran5:amd64 (15.2.0-5ubuntu1) ... 63s Setting up python3-pluggy (1.5.0-1) ... 63s Setting up libwebp7:amd64 (1.5.0-0.1) ... 63s Setting up python3-cram (0.7-6) ... 63s Setting up libhts3t64:amd64 (1.21+ds-1) ... 63s Setting up libopenjp2-7:amd64 (2.5.3-2.1) ... 63s Setting up libharfbuzz0b:amd64 (10.2.0-1) ... 63s Setting up libbigwig0t64:amd64 (0.4.7+dfsg-3.1build2) ... 63s Setting up sgml-base (1.31+nmu1) ... 63s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 63s Setting up libjs-jquery-hotkeys (0.2.0-1) ... 63s Setting up python3-execnet (2.1.1-1) ... 63s Setting up libwebpmux3:amd64 (1.5.0-0.1) ... 63s Setting up libsz2:amd64 (1.1.3-1) ... 63s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 63s Setting up liblapack3:amd64 (3.12.1-6build1) ... 63s 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 63s Setting up python3-pysam (0.23.0+ds-1build1) ... 64s Setting up python3-pytest (8.3.5-2) ... 64s Setting up libwebpdemux2:amd64 (1.5.0-0.1) ... 64s Setting up xfonts-utils (1:7.7+7) ... 64s Setting up libjs-jquery-metadata (12-4) ... 64s Setting up libraqm0:amd64 (0.10.3-1) ... 64s Setting up libjs-jquery-isonscreen (1.2.0-1.1) ... 64s Setting up python3-numpy (1:2.2.4+ds-1ubuntu1) ... 65s Setting up python3-pybigwig (0.3.23+dfsg-1build3) ... 65s Setting up libjs-jquery-tablesorter (1:2.31.3+dfsg1-4) ... 65s Setting up libhdf5-310:amd64 (1.14.5+repack-3build1) ... 65s Setting up libtiff6:amd64 (4.7.0-3ubuntu3) ... 65s Setting up xml-core (0.19) ... 65s Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3build1) ... 65s Setting up python3-scipy (1.15.3-1) ... 67s Setting up python3-pytest-xdist (3.6.1-1) ... 67s Setting up python3-pytest-cov (5.0.0-1) ... 67s Setting up fonts-urw-base35 (20200910-8) ... 67s Setting up hdf5-tools (1.14.5+repack-3build1) ... 67s Setting up python3-pil:amd64 (11.3.0-1ubuntu1) ... 67s Setting up python3-pbcommand (2.1.1+git20231020.28d1635-1) ... 67s Setting up fontconfig-config (2.15.0-2.3ubuntu1) ... 67s Setting up libfontconfig1:amd64 (2.15.0-2.3ubuntu1) ... 67s Setting up libcairo2:amd64 (1.18.4-1build1) ... 67s Setting up python3-cairo (1.27.0-2) ... 68s Setting up python3-rlpycairo (0.3.0-3) ... 68s Setting up python3-reportlab (4.4.2-1) ... 68s Processing triggers for libc-bin (2.42-0ubuntu3) ... 68s Processing triggers for man-db (2.13.1-1) ... 69s Processing triggers for sgml-base (1.31+nmu1) ... 69s Setting up w3c-sgml-lib (1.3-3) ... 84s Setting up python3-biopython (1.85+dfsg-4) ... 85s Setting up python3-pbcore (2.1.2+dfsg-11) ... 85s Setting up python3-kineticstools (0.6.1+git20220223.1326a4d+dfsg-6) ... 85s Setting up kineticstools (0.6.1+git20220223.1326a4d+dfsg-6) ... 87s autopkgtest [00:59:41]: test command1: cp -r Makefile test $AUTOPKGTEST_TMP/ && cd $AUTOPKGTEST_TMP && ln -s /usr/share/kineticstools kineticsTools && make -k py-tests 87s autopkgtest [00:59:41]: test command1: [----------------------- 87s # pytest --cov=kineticsTools # does not quite work since we run in test/ dir. 87s /tmp/autopkgtest.ROODth/autopkgtest_tmp/test/test_ReferenceUtils.py:17: PytestUnknownMarkWarning: Unknown pytest.mark.internal_data - 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 87s @pytest.mark.internal_data 87s /tmp/autopkgtest.ROODth/autopkgtest_tmp/test/test_gather_bigwig.py:50: PytestUnknownMarkWarning: Unknown pytest.mark.pybigwig - 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 87s @pytest.mark.pybigwig 87s /tmp/autopkgtest.ROODth/autopkgtest_tmp/test/test_integration.py:29: PytestUnknownMarkWarning: Unknown pytest.mark.internal_data - 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 87s @pytest.mark.internal_data 87s /tmp/autopkgtest.ROODth/autopkgtest_tmp/test/test_ipdModel.py:13: PytestUnknownMarkWarning: Unknown pytest.mark.internal_data - 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 87s @pytest.mark.internal_data 87s /tmp/autopkgtest.ROODth/autopkgtest_tmp/test/test_outputs.py:21: PytestUnknownMarkWarning: Unknown pytest.mark.internal_data - 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 87s @pytest.mark.internal_data 87s /tmp/autopkgtest.ROODth/autopkgtest_tmp/test/test_summarize_modifications.py:12: PytestUnknownMarkWarning: Unknown pytest.mark.internal_data - 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 87s @pytest.mark.internal_data 87s cd test/; pytest-3 -s -v -p no:warnings --durations=20 --junitxml=../nosetests.xml test_*.py 87s ============================= test session starts ============================== 87s platform linux -- Python 3.13.7, pytest-8.3.5, pluggy-1.5.0 -- /usr/bin/python3 87s cachedir: .pytest_cache 87s rootdir: /tmp/autopkgtest.ROODth/autopkgtest_tmp/test 87s plugins: cov-5.0.0, typeguard-4.4.2, xdist-3.6.1 87s collecting ... collected 19 items 87s 87s test_ReferenceUtils.py::TestReferenceUtils::test_bam SKIPPED (need a...) 87s test_ReferenceUtils.py::TestReferenceUtils::test_dataset SKIPPED (ne...) 87s test_ReferenceUtils.py::TestReferenceUtils::test_parseReferenceWindow SKIPPED 87s test_ReferenceUtils.py::TestReferenceUtils::test_createReferenceWindows SKIPPED 87s test_ReferenceUtils.py::TestReferenceUtils::test_enumerateChunks SKIPPED 87s test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig PASSED 87s test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli PASSED 87s test_integration.py::TestKineticsTools::test_help PASSED 87s test_integration.py::TestKineticsTools::test_ecoli_first_50k SKIPPED 87s test_ipdModel.py::TestIpdModel::test_refLength SKIPPED (need access ...) 87s test_ipdModel.py::TestIpdModel::test_snippetFunc SKIPPED (need acces...) 87s test_ipdModel.py::TestIpdModel::test_getReferenceWindow SKIPPED (nee...) 87s test_loader.py::test_basic PASSED 87s test_loader.py::test_path PASSED 87s test_loader.py::test_path_with_prefixed_chem PASSED 87s test_loader.py::test_getResourcePathSpec PASSED 87s test_outputs.py::TestOutputs::test_csv_output SKIPPED (need access t...) 87s test_outputs.py::TestOutputs::test_bigwig SKIPPED (missing bw_file, ...) 87s test_summarize_modifications.py::TestSummarizeModifications::test_integration SKIPPED 87s 87s -- generated xml file: /tmp/autopkgtest.ROODth/autopkgtest_tmp/nosetests.xml --- 87s ============================= slowest 20 durations ============================= 87s 0.37s call test_integration.py::TestKineticsTools::test_help 87s 0.10s call test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig_cli 87s 0.02s setup test_gather_bigwig.py::TestGatherBigwig::test_gather_bigwig 87s 87s (17 durations < 0.005s hidden. Use -vv to show these durations.) 87s ======================== 7 passed, 12 skipped in 0.61s ========================= 87s autopkgtest [00:59:42]: test command1: -----------------------] 88s command1 PASS 88s autopkgtest [00:59:43]: test command1: - - - - - - - - - - results - - - - - - - - - - 88s autopkgtest [00:59:43]: @@@@@@@@@@@@@@@@@@@@ summary 88s command1 PASS