0s autopkgtest [10:23:45]: starting date and time: 2024-12-02 10:23:45+0000
  0s autopkgtest [10:23:45]: git checkout: be626eda Fix armhf LXD image generation for plucky
  0s autopkgtest [10:23:45]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.78f9marh/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:h5py --apt-upgrade mcaller --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=h5py/3.11.0-8ubuntu3 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-29.secgroup --name adt-plucky-i386-mcaller-20241202-102344-juju-7f2275-prod-proposed-migration-environment-15-2cab2be3-5e70-42ad-942a-68c8ab1205f4 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
 53s autopkgtest [10:24:38]: testbed dpkg architecture: amd64
 53s autopkgtest [10:24:38]: testbed apt version: 2.9.14ubuntu1
 54s autopkgtest [10:24:39]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 54s autopkgtest [10:24:39]: testbed release detected to be: None
 54s autopkgtest [10:24:39]: updating testbed package index (apt update)
 55s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB]
 55s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
 55s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
 55s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
 55s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [74.5 kB]
 55s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [9708 B]
 55s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [903 kB]
 56s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.4 kB]
 56s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [94.1 kB]
 56s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [139 kB]
 56s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted i386 Packages [2572 B]
 56s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [40.6 kB]
 56s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [828 kB]
 56s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [325 kB]
 56s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [6924 B]
 56s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [22.7 kB]
 56s Fetched 2536 kB in 2s (1546 kB/s)
 57s Reading package lists...
 58s Reading package lists...
 58s Building dependency tree...
 58s Reading state information...
 58s Calculating upgrade...
 58s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 58s Reading package lists...
 59s Building dependency tree...
 59s Reading state information...
 59s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 59s autopkgtest [10:24:44]: upgrading testbed (apt dist-upgrade and autopurge)
 59s Reading package lists...
 59s Building dependency tree...
 59s Reading state information...
 59s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
 60s Starting 2 pkgProblemResolver with broken count: 0
 60s Done
 60s Entering ResolveByKeep
 60s 
 60s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 61s Reading package lists...
 61s Building dependency tree...
 61s Reading state information...
 61s Starting pkgProblemResolver with broken count: 0
 61s Starting 2 pkgProblemResolver with broken count: 0
 61s Done
 61s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 64s autopkgtest [10:24:49]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024
 64s autopkgtest [10:24:49]: @@@@@@@@@@@@@@@@@@@@ apt-source mcaller
 68s Get:1 http://ftpmaster.internal/ubuntu plucky/universe mcaller 1.0.3+git20210624.b415090-3 (dsc) [2372 B]
 68s Get:2 http://ftpmaster.internal/ubuntu plucky/universe mcaller 1.0.3+git20210624.b415090-3 (tar) [6613 kB]
 68s Get:3 http://ftpmaster.internal/ubuntu plucky/universe mcaller 1.0.3+git20210624.b415090-3 (diff) [7488 B]
 68s gpgv: Signature made Wed Apr 27 22:26:52 2022 UTC
 68s gpgv:                using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
 68s gpgv:                issuer "emollier@debian.org"
 68s gpgv: Can't check signature: No public key
 68s dpkg-source: warning: cannot verify inline signature for ./mcaller_1.0.3+git20210624.b415090-3.dsc: no acceptable signature found
 68s autopkgtest [10:24:53]: testing package mcaller version 1.0.3+git20210624.b415090-3
 69s autopkgtest [10:24:54]: build not needed
 70s autopkgtest [10:24:55]: test run-unit-test: preparing testbed
 70s Reading package lists...
 70s Building dependency tree...
 70s Reading state information...
 70s Starting pkgProblemResolver with broken count: 0
 70s Starting 2 pkgProblemResolver with broken count: 0
 70s Done
 71s The following NEW packages will be installed:
 71s   blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx
 71s   fonts-urw-base35 libaec0 libblas3 libcairo2 libdeflate0 libfontconfig1
 71s   libfontenc1 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
 71s   libhdf5-103-1t64 libhdf5-hl-100t64 libhts3t64 libhtscodecs2 libimagequant0
 71s   libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui liblapack3
 71s   liblbfgsb0 liblcms2-2 liblerc4 liblzf1 libopenjp2-7 libpixman-1-0
 71s   libqhull-r8.0 libraqm0 libsharpyuv0 libsz2 libtcl8.6 libtiff6 libtk8.6
 71s   libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2
 71s   libxrender1 libxslt1.1 libxss1 mcaller python-matplotlib-data
 71s   python3-appdirs python3-biopython python3-brotli python3-cairo
 71s   python3-contourpy python3-cycler python3-dateutil python3-decorator
 71s   python3-fonttools python3-freetype python3-fs python3-h5py
 71s   python3-h5py-serial python3-joblib python3-kiwisolver python3-lxml
 71s   python3-lz4 python3-matplotlib python3-mpmath python3-numpy
 71s   python3-packaging python3-pandas python3-pandas-lib python3-pil
 71s   python3-pil.imagetk python3-pysam python3-reportlab python3-rlpycairo
 71s   python3-scipy python3-seaborn python3-six python3-sklearn
 71s   python3-sklearn-lib python3-sympy python3-threadpoolctl python3-tk
 71s   python3-tz python3-ufolib2 python3-unicodedata2 python3.12-tk python3.13-tk
 71s   tk8.6-blt2.5 unicode-data w3c-sgml-lib x11-common xfonts-encodings
 71s   xfonts-utils
 71s 0 upgraded, 98 newly installed, 0 to remove and 0 not upgraded.
 71s Need to get 111 MB of archives.
 71s After this operation, 557 MB of additional disk space will be used.
 71s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1085 kB]
 72s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
 72s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
 72s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB]
 72s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
 72s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB]
 72s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB]
 72s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB]
 74s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB]
 74s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB]
 74s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB]
 74s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB]
 74s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B]
 74s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.15-1 [862 kB]
 74s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7build1 [630 kB]
 74s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-7build1 [4840 B]
 74s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.2.1-1 [171 kB]
 74s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB]
 74s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-4 [332 kB]
 74s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB]
 74s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB]
 74s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B]
 74s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB]
 74s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB]
 74s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB]
 74s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB]
 74s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB]
 74s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB]
 74s Get:29 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B]
 74s Get:30 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4ubuntu3 [1280 kB]
 74s Get:31 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4ubuntu3 [56.6 kB]
 74s Get:32 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB]
 74s Get:33 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.20+ds-2 [501 kB]
 74s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB]
 74s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB]
 74s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
 74s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
 74s Get:38 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
 74s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-4 [3177 kB]
 74s Get:40 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB]
 74s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB]
 74s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB]
 74s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B]
 74s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB]
 74s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB]
 74s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB]
 74s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB]
 74s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB]
 74s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB]
 74s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB]
 74s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB]
 74s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu1 [169 kB]
 74s Get:53 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.3.2-5 [206 kB]
 74s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11ubuntu1 [5319 kB]
 75s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB]
 75s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5ubuntu1 [21.7 MB]
 75s Get:57 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB]
 75s Get:58 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-6build1 [6868 kB]
 76s Get:59 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn all 1.4.2+dfsg-6build1 [2257 kB]
 76s Get:60 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-h5py-serial amd64 3.11.0-8ubuntu3 [1689 kB]
 76s Get:61 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-h5py all 3.11.0-8ubuntu3 [7982 B]
 76s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.7-3 [116 kB]
 76s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-tk amd64 3.13.0-2 [106 kB]
 76s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.12.7-1 [9752 B]
 76s Get:65 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 10.4.0-1ubuntu2 [9568 B]
 76s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB]
 76s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu2 [580 kB]
 76s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2build1 [143 kB]
 76s Get:69 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB]
 76s Get:70 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B]
 76s Get:71 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB]
 76s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB]
 76s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4build1 [1719 kB]
 76s Get:74 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-3ubuntu1 [2928 kB]
 76s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-3 [80.2 kB]
 76s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.0-2build1 [271 kB]
 76s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B]
 76s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build3 [368 kB]
 76s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2024.1-2 [31.4 kB]
 76s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.16.0-7 [13.1 kB]
 76s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-appdirs all 1.4.4-4 [10.9 kB]
 76s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-4 [91.3 kB]
 76s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.0-1build1 [1834 kB]
 76s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.0.2+dfsg-1build5 [27.5 kB]
 76s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB]
 76s Get:86 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB]
 76s Get:87 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB]
 76s Get:88 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-unicodedata2 amd64 15.1.0+ds-1build2 [360 kB]
 76s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB]
 76s Get:90 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.55.0-3 [1759 kB]
 76s Get:91 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-2build1 [70.3 kB]
 76s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB]
 76s Get:93 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-3ubuntu1 [4691 kB]
 77s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-5ubuntu1 [8271 kB]
 77s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-5ubuntu1 [3112 kB]
 77s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-seaborn all 0.13.2-4 [225 kB]
 77s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pysam amd64 0.22.1+ds-2build1 [4446 kB]
 77s Get:98 http://ftpmaster.internal/ubuntu plucky/universe amd64 mcaller all 1.0.3+git20210624.b415090-3 [19.3 kB]
 78s Fetched 111 MB in 6s (17.4 MB/s)
 78s Selecting previously unselected package libtcl8.6:amd64.
 78s (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 ... 75952 files and directories currently installed.)
 78s Preparing to unpack .../00-libtcl8.6_8.6.15+dfsg-2_amd64.deb ...
 78s Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ...
 78s Selecting previously unselected package fonts-dejavu-mono.
 78s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ...
 78s Unpacking fonts-dejavu-mono (2.37-8) ...
 78s Selecting previously unselected package fonts-dejavu-core.
 78s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ...
 78s Unpacking fonts-dejavu-core (2.37-8) ...
 78s Selecting previously unselected package libfontenc1:amd64.
 78s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1build1_amd64.deb ...
 78s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ...
 78s Selecting previously unselected package x11-common.
 78s Preparing to unpack .../04-x11-common_1%3a7.7+23ubuntu3_all.deb ...
 78s Unpacking x11-common (1:7.7+23ubuntu3) ...
 78s Selecting previously unselected package xfonts-encodings.
 78s Preparing to unpack .../05-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ...
 78s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ...
 78s Selecting previously unselected package xfonts-utils.
 78s Preparing to unpack .../06-xfonts-utils_1%3a7.7+7_amd64.deb ...
 78s Unpacking xfonts-utils (1:7.7+7) ...
 78s Selecting previously unselected package fonts-urw-base35.
 78s Preparing to unpack .../07-fonts-urw-base35_20200910-8_all.deb ...
 78s Unpacking fonts-urw-base35 (20200910-8) ...
 78s Selecting previously unselected package fontconfig-config.
 78s Preparing to unpack .../08-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ...
 78s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ...
 78s Selecting previously unselected package libfontconfig1:amd64.
 78s Preparing to unpack .../09-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ...
 78s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ...
 78s Selecting previously unselected package libxrender1:amd64.
 78s Preparing to unpack .../10-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ...
 78s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ...
 78s Selecting previously unselected package libxft2:amd64.
 78s Preparing to unpack .../11-libxft2_2.3.6-1build1_amd64.deb ...
 78s Unpacking libxft2:amd64 (2.3.6-1build1) ...
 78s Selecting previously unselected package libxss1:amd64.
 78s Preparing to unpack .../12-libxss1_1%3a1.2.3-1build3_amd64.deb ...
 78s Unpacking libxss1:amd64 (1:1.2.3-1build3) ...
 78s Selecting previously unselected package libtk8.6:amd64.
 78s Preparing to unpack .../13-libtk8.6_8.6.15-1_amd64.deb ...
 78s Unpacking libtk8.6:amd64 (8.6.15-1) ...
 78s Selecting previously unselected package tk8.6-blt2.5.
 78s Preparing to unpack .../14-tk8.6-blt2.5_2.5.3+dfsg-7build1_amd64.deb ...
 78s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ...
 78s Selecting previously unselected package blt.
 78s Preparing to unpack .../15-blt_2.5.3+dfsg-7build1_amd64.deb ...
 78s Unpacking blt (2.5.3+dfsg-7build1) ...
 78s Selecting previously unselected package fonts-lyx.
 79s Preparing to unpack .../16-fonts-lyx_2.4.2.1-1_all.deb ...
 79s Unpacking fonts-lyx (2.4.2.1-1) ...
 79s Selecting previously unselected package libaec0:amd64.
 79s Preparing to unpack .../17-libaec0_1.1.3-1_amd64.deb ...
 79s Unpacking libaec0:amd64 (1.1.3-1) ...
 79s Selecting previously unselected package libblas3:amd64.
 79s Preparing to unpack .../18-libblas3_3.12.0-4_amd64.deb ...
 79s Unpacking libblas3:amd64 (3.12.0-4) ...
 79s Selecting previously unselected package libpixman-1-0:amd64.
 79s Preparing to unpack .../19-libpixman-1-0_0.44.0-3_amd64.deb ...
 79s Unpacking libpixman-1-0:amd64 (0.44.0-3) ...
 79s Selecting previously unselected package libxcb-render0:amd64.
 79s Preparing to unpack .../20-libxcb-render0_1.17.0-2_amd64.deb ...
 79s Unpacking libxcb-render0:amd64 (1.17.0-2) ...
 79s Selecting previously unselected package libxcb-shm0:amd64.
 79s Preparing to unpack .../21-libxcb-shm0_1.17.0-2_amd64.deb ...
 79s Unpacking libxcb-shm0:amd64 (1.17.0-2) ...
 79s Selecting previously unselected package libcairo2:amd64.
 79s Preparing to unpack .../22-libcairo2_1.18.2-2_amd64.deb ...
 79s Unpacking libcairo2:amd64 (1.18.2-2) ...
 79s Selecting previously unselected package libdeflate0:amd64.
 79s Preparing to unpack .../23-libdeflate0_1.22-1_amd64.deb ...
 79s Unpacking libdeflate0:amd64 (1.22-1) ...
 79s Selecting previously unselected package libgfortran5:amd64.
 79s Preparing to unpack .../24-libgfortran5_14.2.0-8ubuntu1_amd64.deb ...
 79s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ...
 79s Selecting previously unselected package libgomp1:amd64.
 79s Preparing to unpack .../25-libgomp1_14.2.0-8ubuntu1_amd64.deb ...
 79s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ...
 79s Selecting previously unselected package libgraphite2-3:amd64.
 79s Preparing to unpack .../26-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ...
 79s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ...
 79s Selecting previously unselected package libharfbuzz0b:amd64.
 79s Preparing to unpack .../27-libharfbuzz0b_10.0.1-1_amd64.deb ...
 79s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ...
 79s Selecting previously unselected package libsz2:amd64.
 79s Preparing to unpack .../28-libsz2_1.1.3-1_amd64.deb ...
 79s Unpacking libsz2:amd64 (1.1.3-1) ...
 79s Selecting previously unselected package libhdf5-103-1t64:amd64.
 79s Preparing to unpack .../29-libhdf5-103-1t64_1.10.10+repack-4ubuntu3_amd64.deb ...
 79s Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ...
 79s Selecting previously unselected package libhdf5-hl-100t64:amd64.
 79s Preparing to unpack .../30-libhdf5-hl-100t64_1.10.10+repack-4ubuntu3_amd64.deb ...
 79s Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ...
 79s Selecting previously unselected package libhtscodecs2:amd64.
 79s Preparing to unpack .../31-libhtscodecs2_1.6.1-1_amd64.deb ...
 79s Unpacking libhtscodecs2:amd64 (1.6.1-1) ...
 79s Selecting previously unselected package libhts3t64:amd64.
 79s Preparing to unpack .../32-libhts3t64_1.20+ds-2_amd64.deb ...
 79s Unpacking libhts3t64:amd64 (1.20+ds-2) ...
 79s Selecting previously unselected package libimagequant0:amd64.
 79s Preparing to unpack .../33-libimagequant0_2.18.0-1build1_amd64.deb ...
 79s Unpacking libimagequant0:amd64 (2.18.0-1build1) ...
 79s Selecting previously unselected package libjpeg-turbo8:amd64.
 79s Preparing to unpack .../34-libjpeg-turbo8_2.1.5-3ubuntu2_amd64.deb ...
 79s Unpacking libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ...
 79s Selecting previously unselected package libjpeg8:amd64.
 79s Preparing to unpack .../35-libjpeg8_8c-2ubuntu11_amd64.deb ...
 79s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ...
 79s Selecting previously unselected package libjs-jquery.
 79s Preparing to unpack .../36-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ...
 79s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
 79s Selecting previously unselected package libjs-jquery-ui.
 79s Preparing to unpack .../37-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ...
 79s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ...
 79s Selecting previously unselected package liblapack3:amd64.
 79s Preparing to unpack .../38-liblapack3_3.12.0-4_amd64.deb ...
 79s Unpacking liblapack3:amd64 (3.12.0-4) ...
 79s Selecting previously unselected package liblbfgsb0:amd64.
 79s Preparing to unpack .../39-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ...
 79s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ...
 79s Selecting previously unselected package liblcms2-2:amd64.
 79s Preparing to unpack .../40-liblcms2-2_2.16-2_amd64.deb ...
 79s Unpacking liblcms2-2:amd64 (2.16-2) ...
 79s Selecting previously unselected package liblerc4:amd64.
 79s Preparing to unpack .../41-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ...
 79s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ...
 79s Selecting previously unselected package liblzf1:amd64.
 79s Preparing to unpack .../42-liblzf1_3.6-4_amd64.deb ...
 79s Unpacking liblzf1:amd64 (3.6-4) ...
 79s Selecting previously unselected package libqhull-r8.0:amd64.
 79s Preparing to unpack .../43-libqhull-r8.0_2020.2-6build1_amd64.deb ...
 79s Unpacking libqhull-r8.0:amd64 (2020.2-6build1) ...
 79s Selecting previously unselected package libraqm0:amd64.
 79s Preparing to unpack .../44-libraqm0_0.10.1-1build1_amd64.deb ...
 79s Unpacking libraqm0:amd64 (0.10.1-1build1) ...
 79s Selecting previously unselected package libsharpyuv0:amd64.
 79s Preparing to unpack .../45-libsharpyuv0_1.4.0-0.1_amd64.deb ...
 79s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ...
 79s Selecting previously unselected package libjbig0:amd64.
 79s Preparing to unpack .../46-libjbig0_2.1-6.1ubuntu2_amd64.deb ...
 79s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ...
 79s Selecting previously unselected package libwebp7:amd64.
 79s Preparing to unpack .../47-libwebp7_1.4.0-0.1_amd64.deb ...
 79s Unpacking libwebp7:amd64 (1.4.0-0.1) ...
 79s Selecting previously unselected package libtiff6:amd64.
 79s Preparing to unpack .../48-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ...
 79s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ...
 79s Selecting previously unselected package libwebpdemux2:amd64.
 79s Preparing to unpack .../49-libwebpdemux2_1.4.0-0.1_amd64.deb ...
 79s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ...
 79s Selecting previously unselected package libwebpmux3:amd64.
 79s Preparing to unpack .../50-libwebpmux3_1.4.0-0.1_amd64.deb ...
 79s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ...
 79s Selecting previously unselected package libxslt1.1:amd64.
 79s Preparing to unpack .../51-libxslt1.1_1.1.39-0exp1ubuntu1_amd64.deb ...
 79s Unpacking libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ...
 79s Selecting previously unselected package python3-joblib.
 79s Preparing to unpack .../52-python3-joblib_1.3.2-5_all.deb ...
 79s Unpacking python3-joblib (1.3.2-5) ...
 80s Selecting previously unselected package python3-numpy.
 80s Preparing to unpack .../53-python3-numpy_1%3a1.26.4+ds-11ubuntu1_amd64.deb ...
 80s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ...
 80s Selecting previously unselected package python3-decorator.
 80s Preparing to unpack .../54-python3-decorator_5.1.1-5_all.deb ...
 80s Unpacking python3-decorator (5.1.1-5) ...
 80s Selecting previously unselected package python3-scipy.
 80s Preparing to unpack .../55-python3-scipy_1.13.1-5ubuntu1_amd64.deb ...
 80s Unpacking python3-scipy (1.13.1-5ubuntu1) ...
 80s Selecting previously unselected package python3-threadpoolctl.
 80s Preparing to unpack .../56-python3-threadpoolctl_3.1.0-1_all.deb ...
 80s Unpacking python3-threadpoolctl (3.1.0-1) ...
 80s Selecting previously unselected package python3-sklearn-lib:amd64.
 80s Preparing to unpack .../57-python3-sklearn-lib_1.4.2+dfsg-6build1_amd64.deb ...
 80s Unpacking python3-sklearn-lib:amd64 (1.4.2+dfsg-6build1) ...
 81s Selecting previously unselected package python3-sklearn.
 81s Preparing to unpack .../58-python3-sklearn_1.4.2+dfsg-6build1_all.deb ...
 81s Unpacking python3-sklearn (1.4.2+dfsg-6build1) ...
 81s Selecting previously unselected package python3-h5py-serial.
 81s Preparing to unpack .../59-python3-h5py-serial_3.11.0-8ubuntu3_amd64.deb ...
 81s Unpacking python3-h5py-serial (3.11.0-8ubuntu3) ...
 81s Selecting previously unselected package python3-h5py.
 81s Preparing to unpack .../60-python3-h5py_3.11.0-8ubuntu3_all.deb ...
 81s Unpacking python3-h5py (3.11.0-8ubuntu3) ...
 81s Selecting previously unselected package python3.12-tk.
 81s Preparing to unpack .../61-python3.12-tk_3.12.7-3_amd64.deb ...
 81s Unpacking python3.12-tk (3.12.7-3) ...
 81s Selecting previously unselected package python3.13-tk.
 81s Preparing to unpack .../62-python3.13-tk_3.13.0-2_amd64.deb ...
 81s Unpacking python3.13-tk (3.13.0-2) ...
 81s Selecting previously unselected package python3-tk:amd64.
 81s Preparing to unpack .../63-python3-tk_3.12.7-1_amd64.deb ...
 81s Unpacking python3-tk:amd64 (3.12.7-1) ...
 81s Selecting previously unselected package python3-pil.imagetk:amd64.
 81s Preparing to unpack .../64-python3-pil.imagetk_10.4.0-1ubuntu2_amd64.deb ...
 81s Unpacking python3-pil.imagetk:amd64 (10.4.0-1ubuntu2) ...
 81s Selecting previously unselected package libopenjp2-7:amd64.
 81s Preparing to unpack .../65-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ...
 81s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ...
 81s Selecting previously unselected package python3-pil:amd64.
 81s Preparing to unpack .../66-python3-pil_10.4.0-1ubuntu2_amd64.deb ...
 81s Unpacking python3-pil:amd64 (10.4.0-1ubuntu2) ...
 81s Selecting previously unselected package python3-cairo.
 81s Preparing to unpack .../67-python3-cairo_1.26.1-2build1_amd64.deb ...
 81s Unpacking python3-cairo (1.26.1-2build1) ...
 81s Selecting previously unselected package python3-freetype.
 81s Preparing to unpack .../68-python3-freetype_2.5.1-1_all.deb ...
 81s Unpacking python3-freetype (2.5.1-1) ...
 81s Selecting previously unselected package python3-rlpycairo.
 81s Preparing to unpack .../69-python3-rlpycairo_0.3.0-3_all.deb ...
 81s Unpacking python3-rlpycairo (0.3.0-3) ...
 81s Selecting previously unselected package python3-reportlab.
 81s Preparing to unpack .../70-python3-reportlab_4.2.5-1_all.deb ...
 81s Unpacking python3-reportlab (4.2.5-1) ...
 81s Selecting previously unselected package w3c-sgml-lib.
 81s Preparing to unpack .../71-w3c-sgml-lib_1.3-3_all.deb ...
 81s Unpacking w3c-sgml-lib (1.3-3) ...
 81s Selecting previously unselected package python3-biopython.
 81s Preparing to unpack .../72-python3-biopython_1.84+dfsg-4build1_amd64.deb ...
 81s Unpacking python3-biopython (1.84+dfsg-4build1) ...
 81s Selecting previously unselected package python-matplotlib-data.
 81s Preparing to unpack .../73-python-matplotlib-data_3.8.3-3ubuntu1_all.deb ...
 81s Unpacking python-matplotlib-data (3.8.3-3ubuntu1) ...
 81s Selecting previously unselected package python3-dateutil.
 81s Preparing to unpack .../74-python3-dateutil_2.9.0-3_all.deb ...
 81s Unpacking python3-dateutil (2.9.0-3) ...
 81s Selecting previously unselected package python3-contourpy.
 81s Preparing to unpack .../75-python3-contourpy_1.3.0-2build1_amd64.deb ...
 81s Unpacking python3-contourpy (1.3.0-2build1) ...
 81s Selecting previously unselected package python3-cycler.
 81s Preparing to unpack .../76-python3-cycler_0.12.1-1_all.deb ...
 81s Unpacking python3-cycler (0.12.1-1) ...
 81s Selecting previously unselected package python3-brotli.
 81s Preparing to unpack .../77-python3-brotli_1.1.0-2build3_amd64.deb ...
 81s Unpacking python3-brotli (1.1.0-2build3) ...
 82s Selecting previously unselected package python3-tz.
 82s Preparing to unpack .../78-python3-tz_2024.1-2_all.deb ...
 82s Unpacking python3-tz (2024.1-2) ...
 82s Selecting previously unselected package python3-six.
 82s Preparing to unpack .../79-python3-six_1.16.0-7_all.deb ...
 82s Unpacking python3-six (1.16.0-7) ...
 82s Selecting previously unselected package python3-appdirs.
 82s Preparing to unpack .../80-python3-appdirs_1.4.4-4_all.deb ...
 82s Unpacking python3-appdirs (1.4.4-4) ...
 82s Selecting previously unselected package python3-fs.
 82s Preparing to unpack .../81-python3-fs_2.4.16-4_all.deb ...
 82s Unpacking python3-fs (2.4.16-4) ...
 82s Selecting previously unselected package python3-lxml:amd64.
 82s Preparing to unpack .../82-python3-lxml_5.3.0-1build1_amd64.deb ...
 82s Unpacking python3-lxml:amd64 (5.3.0-1build1) ...
 82s Selecting previously unselected package python3-lz4.
 82s Preparing to unpack .../83-python3-lz4_4.0.2+dfsg-1build5_amd64.deb ...
 82s Unpacking python3-lz4 (4.0.2+dfsg-1build5) ...
 82s Selecting previously unselected package python3-mpmath.
 82s Preparing to unpack .../84-python3-mpmath_1.3.0-1_all.deb ...
 82s Unpacking python3-mpmath (1.3.0-1) ...
 82s Selecting previously unselected package python3-sympy.
 82s Preparing to unpack .../85-python3-sympy_1.13.3-1_all.deb ...
 82s Unpacking python3-sympy (1.13.3-1) ...
 82s Selecting previously unselected package python3-ufolib2.
 82s Preparing to unpack .../86-python3-ufolib2_0.16.1+dfsg1-1_all.deb ...
 82s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ...
 82s Selecting previously unselected package python3-unicodedata2.
 82s Preparing to unpack .../87-python3-unicodedata2_15.1.0+ds-1build2_amd64.deb ...
 82s Unpacking python3-unicodedata2 (15.1.0+ds-1build2) ...
 82s Selecting previously unselected package unicode-data.
 82s Preparing to unpack .../88-unicode-data_15.1.0-1_all.deb ...
 82s Unpacking unicode-data (15.1.0-1) ...
 82s Selecting previously unselected package python3-fonttools.
 82s Preparing to unpack .../89-python3-fonttools_4.55.0-3_amd64.deb ...
 82s Unpacking python3-fonttools (4.55.0-3) ...
 82s Selecting previously unselected package python3-kiwisolver.
 82s Preparing to unpack .../90-python3-kiwisolver_1.4.7-2build1_amd64.deb ...
 82s Unpacking python3-kiwisolver (1.4.7-2build1) ...
 82s Selecting previously unselected package python3-packaging.
 82s Preparing to unpack .../91-python3-packaging_24.2-1_all.deb ...
 82s Unpacking python3-packaging (24.2-1) ...
 82s Selecting previously unselected package python3-matplotlib.
 82s Preparing to unpack .../92-python3-matplotlib_3.8.3-3ubuntu1_amd64.deb ...
 82s Unpacking python3-matplotlib (3.8.3-3ubuntu1) ...
 83s Selecting previously unselected package python3-pandas-lib:amd64.
 83s Preparing to unpack .../93-python3-pandas-lib_2.2.3+dfsg-5ubuntu1_amd64.deb ...
 83s Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-5ubuntu1) ...
 83s Selecting previously unselected package python3-pandas.
 83s Preparing to unpack .../94-python3-pandas_2.2.3+dfsg-5ubuntu1_all.deb ...
 83s Unpacking python3-pandas (2.2.3+dfsg-5ubuntu1) ...
 83s Selecting previously unselected package python3-seaborn.
 83s Preparing to unpack .../95-python3-seaborn_0.13.2-4_all.deb ...
 83s Unpacking python3-seaborn (0.13.2-4) ...
 83s Selecting previously unselected package python3-pysam.
 83s Preparing to unpack .../96-python3-pysam_0.22.1+ds-2build1_amd64.deb ...
 83s Unpacking python3-pysam (0.22.1+ds-2build1) ...
 83s Selecting previously unselected package mcaller.
 83s Preparing to unpack .../97-mcaller_1.0.3+git20210624.b415090-3_all.deb ...
 83s Unpacking mcaller (1.0.3+git20210624.b415090-3) ...
 83s Setting up libhtscodecs2:amd64 (1.6.1-1) ...
 83s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ...
 83s Setting up liblcms2-2:amd64 (2.16-2) ...
 83s Setting up libpixman-1-0:amd64 (0.44.0-3) ...
 83s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ...
 83s Setting up w3c-sgml-lib (1.3-3) ...
107s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu1) ...
107s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ...
107s Setting up python3-joblib (1.3.2-5) ...
107s Setting up python3-lz4 (4.0.2+dfsg-1build5) ...
107s Setting up libxcb-render0:amd64 (1.17.0-2) ...
107s Setting up python3-unicodedata2 (15.1.0+ds-1build2) ...
107s Setting up fonts-lyx (2.4.2.1-1) ...
107s Setting up python3-threadpoolctl (3.1.0-1) ...
107s Setting up x11-common (1:7.7+23ubuntu3) ...
107s Setting up libdeflate0:amd64 (1.22-1) ...
107s Setting up libqhull-r8.0:amd64 (2020.2-6build1) ...
107s Setting up libxcb-shm0:amd64 (1.17.0-2) ...
107s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ...
107s Setting up python3-freetype (2.5.1-1) ...
107s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ...
107s Setting up libaec0:amd64 (1.1.3-1) ...
107s Setting up python3-tz (2024.1-2) ...
107s Setting up unicode-data (15.1.0-1) ...
107s Setting up python3-six (1.16.0-7) ...
108s Setting up python3-decorator (5.1.1-5) ...
108s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ...
108s Setting up libblas3:amd64 (3.12.0-4) ...
108s 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
108s Setting up python3-packaging (24.2-1) ...
108s Setting up python3-brotli (1.1.0-2build3) ...
108s Setting up liblzf1:amd64 (3.6-4) ...
108s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ...
108s Setting up python3-cycler (0.12.1-1) ...
108s Setting up libimagequant0:amd64 (2.18.0-1build1) ...
108s Setting up fonts-dejavu-mono (2.37-8) ...
108s Setting up python3-kiwisolver (1.4.7-2build1) ...
108s Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ...
108s Setting up fonts-dejavu-core (2.37-8) ...
108s Setting up libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ...
108s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ...
108s Setting up libwebp7:amd64 (1.4.0-0.1) ...
108s Setting up libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ...
108s Setting up libhts3t64:amd64 (1.20+ds-2) ...
108s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ...
108s Setting up libharfbuzz0b:amd64 (10.0.1-1) ...
108s Setting up python3-dateutil (2.9.0-3) ...
108s Setting up libxss1:amd64 (1:1.2.3-1build3) ...
108s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
108s Setting up python3-mpmath (1.3.0-1) ...
109s Setting up python-matplotlib-data (3.8.3-3ubuntu1) ...
109s Setting up libwebpmux3:amd64 (1.4.0-0.1) ...
109s Setting up python3-appdirs (1.4.4-4) ...
109s Setting up libsz2:amd64 (1.1.3-1) ...
109s Setting up libjpeg8:amd64 (8c-2ubuntu11) ...
109s Setting up python3-sympy (1.13.3-1) ...
115s Setting up liblapack3:amd64 (3.12.0-4) ...
115s 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
115s Setting up python3-pysam (0.22.1+ds-2build1) ...
115s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ...
115s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ...
115s Setting up xfonts-utils (1:7.7+7) ...
115s Setting up python3-fs (2.4.16-4) ...
115s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
115s Setting up libraqm0:amd64 (0.10.1-1build1) ...
115s Setting up python3-numpy (1:1.26.4+ds-11ubuntu1) ...
117s Setting up python3-lxml:amd64 (5.3.0-1build1) ...
117s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ...
117s Setting up python3-contourpy (1.3.0-2build1) ...
117s Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ...
117s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ...
117s Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ...
117s Setting up python3-scipy (1.13.1-5ubuntu1) ...
120s Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-5ubuntu1) ...
120s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-6build1) ...
120s Setting up python3-h5py-serial (3.11.0-8ubuntu3) ...
120s Setting up fonts-urw-base35 (20200910-8) ...
120s Setting up python3-pil:amd64 (10.4.0-1ubuntu2) ...
121s Setting up python3-pandas (2.2.3+dfsg-5ubuntu1) ...
124s Setting up python3-h5py (3.11.0-8ubuntu3) ...
125s Setting up python3-sklearn (1.4.2+dfsg-6build1) ...
126s Setting up python3-fonttools (4.55.0-3) ...
127s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ...
127s Processing triggers for sgml-base (1.31) ...
127s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ...
127s Setting up libxft2:amd64 (2.3.6-1build1) ...
127s Setting up libtk8.6:amd64 (8.6.15-1) ...
127s Processing triggers for libc-bin (2.40-1ubuntu3) ...
127s Setting up python3.12-tk (3.12.7-3) ...
127s Processing triggers for man-db (2.13.0-1) ...
128s Setting up libcairo2:amd64 (1.18.2-2) ...
128s Setting up python3.13-tk (3.13.0-2) ...
128s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ...
128s Setting up python3-cairo (1.26.1-2build1) ...
129s Setting up blt (2.5.3+dfsg-7build1) ...
129s Setting up python3-tk:amd64 (3.12.7-1) ...
129s Setting up python3-pil.imagetk:amd64 (10.4.0-1ubuntu2) ...
129s Setting up python3-rlpycairo (0.3.0-3) ...
129s Setting up python3-reportlab (4.2.5-1) ...
130s Setting up python3-biopython (1.84+dfsg-4build1) ...
131s Setting up python3-matplotlib (3.8.3-3ubuntu1) ...
132s Setting up python3-seaborn (0.13.2-4) ...
132s Setting up mcaller (1.0.3+git20210624.b415090-3) ...
132s Processing triggers for libc-bin (2.40-1ubuntu3) ...
133s autopkgtest [10:25:58]: test run-unit-test: [-----------------------
134s testdata/
134s 1 contigs
134s 1 threads
134s thread finished processing...:
134s 35 observations
134s 35 positions
134s 0 regions with multiple methylated bases
134s 0 observations with skips included
134s 8 observations with too many skips
134s Finished extracting signals
135s testdata/
135s 1 contigs
135s 1 threads
135s thread finished processing...:
135s 9 observations
135s 9 positions
135s 0 regions with multiple methylated bases
135s 0 observations with skips included
135s 2 observations with too many skips
135s Finished extracting signals
136s testdata/
136s 1 contigs
136s 4 threads
136s thread finished processing...:
136s 9 observations
136s 9 positions
136s 0 regions with multiple methylated bases
136s 0 observations with skips included
136s 4 observations with too many skips
136s Error: could not find sequence for reference contig li
136s thread finished processing...:
136s 16 observations
136s 16 positions
136s 0 regions with multiple methylated bases
136s 0 observations with skips included
136s 6 observations with too many skips
136s thread finished processing...:
136s 28 observations
136s 28 positions
136s 0 regions with multiple methylated bases
136s 0 observations with skips included
136s 6 observations with too many skips
136s thread finished processing...:
136s 44 observations
136s 44 positions
136s 1 regions with multiple methylated bases
136s 0 observations with skips included
136s 10 observations with too many skips
137s Finished extracting signals
137s Merging files...
137s Training...
137s ['A', 'A', 'A', 'A', 'A', 'A', 'A', 'A', 'A', 'A']
137s [[-0.18999999999999992, -1.6799999999999997, -2.3, 0.56, -1.41, 1.48, 7.055265349382997], [-1.1300000000000001, -1.67, -1.1, -0.5774999999999999, 0.42, 1.0225, 7.055265349382997], [0.0050000000000000044, -0.29500000000000004, -0.54, 3.96, 1.47, 0.06499999999999995, 7.055265349382997], [3.255, 3.925, 0.03999999999999998, -0.15599999999999997, -1.01, 1.3533333333333333, 7.055265349382997], [-0.07999999999999996, -1.3666666666666665, 0.84, -0.5449999999999999, -3.22, -1.53, 7.055265349382997], [-1.74, -2.56, -2.0774999999999997, 1.84, -0.09999999999999998, -0.3, 7.055265349382997], [1.92, 2.75, 1.59, 1.6433333333333333, 1.59, 1.27, 7.055265349382997], [-2.15, 1.8849999999999998, 2.58, -0.36, 4.26, -2.4625, 7.055265349382997], [1.485, 4.095000000000001, -1.12, -0.91, -0.62, 1.17, 7.055265349382997], [1.095, 0.78, -2.38, 1.47, -1.7149999999999999, -0.8283333333333335, 7.055265349382997]]
137s ['GGATTMTTTCA', 'CTGGAMAAAGC', 'GGGCCMTTACC', 'GGTGGMTGAAT', 'GGTTAMCGCGT', 'TGTGGMGAAAC', 'AGAACMCTTTC', 'AGGCCMTTCAA', 'AATCAMAAGAA', 'TACTTMCCGCA']
137s NN general model scores: 0.875,0.375,0.25,1.0,0.875
137s Cross validation accuracy: 0.68 (+/- 0.60)
137s Finished training
137s PASS
137s autopkgtest [10:26:02]: test run-unit-test: -----------------------]
138s autopkgtest [10:26:03]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
138s run-unit-test        PASS
139s autopkgtest [10:26:04]: @@@@@@@@@@@@@@@@@@@@ summary
139s run-unit-test        PASS
151s nova [W] Skipping flock for amd64
151s Creating nova instance adt-plucky-i386-mcaller-20241202-102344-juju-7f2275-prod-proposed-migration-environment-15-2cab2be3-5e70-42ad-942a-68c8ab1205f4 from image adt/ubuntu-plucky-amd64-server-20241202.img (UUID e2dd381a-9f8d-4c68-9282-8ccd9f59e142)...