0s autopkgtest [11:06:27]: starting date and time: 2024-11-13 11:06:27+0000
  0s autopkgtest [11:06:27]: git checkout: 0acbae0a WIP show VirtSubproc stderr in real-time
  0s autopkgtest [11:06:27]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.vwndfj4w/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade recan --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-46.secgroup --name adt-plucky-arm64-recan-20241113-110627-juju-7f2275-prod-proposed-migration-environment-2-6acb961b-d544-4bf5-8de9-be9105559441 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
113s autopkgtest [11:08:20]: testbed dpkg architecture: arm64
113s autopkgtest [11:08:20]: testbed apt version: 2.9.8
113s autopkgtest [11:08:20]: @@@@@@@@@@@@@@@@@@@@ test bed setup
114s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB]
115s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB]
115s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB]
115s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB]
115s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B]
115s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB]
115s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB]
115s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB]
115s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB]
115s Fetched 1794 kB in 1s (2070 kB/s)
115s Reading package lists...
118s Reading package lists...
119s Building dependency tree...
119s Reading state information...
119s Calculating upgrade...
120s The following NEW packages will be installed:
120s   python3.13-gdbm
120s The following packages will be upgraded:
120s   libpython3-stdlib python3 python3-gdbm python3-minimal
120s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
120s Need to get 101 kB of archives.
120s After this operation, 141 kB of additional disk space will be used.
120s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB]
120s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB]
120s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB]
120s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB]
120s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B]
120s Fetched 101 kB in 0s (291 kB/s)
121s (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 ... 79924 files and directories currently installed.)
121s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ...
121s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ...
121s Setting up python3-minimal (3.12.7-1) ...
121s (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 ... 79924 files and directories currently installed.)
121s Preparing to unpack .../python3_3.12.7-1_arm64.deb ...
121s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ...
121s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ...
121s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ...
121s Selecting previously unselected package python3.13-gdbm.
121s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ...
121s Unpacking python3.13-gdbm (3.13.0-2) ...
121s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ...
121s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ...
121s Setting up python3.13-gdbm (3.13.0-2) ...
121s Setting up libpython3-stdlib:arm64 (3.12.7-1) ...
121s Setting up python3 (3.12.7-1) ...
122s Setting up python3-gdbm:arm64 (3.12.7-1) ...
122s Processing triggers for man-db (2.12.1-3) ...
123s Reading package lists...
123s Building dependency tree...
123s Reading state information...
124s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
124s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease
124s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
125s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
125s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
126s Reading package lists...
126s Reading package lists...
126s Building dependency tree...
126s Reading state information...
127s Calculating upgrade...
127s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
127s Reading package lists...
128s Building dependency tree...
128s Reading state information...
128s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
132s autopkgtest [11:08:39]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024
132s autopkgtest [11:08:39]: @@@@@@@@@@@@@@@@@@@@ apt-source recan
134s Get:1 http://ftpmaster.internal/ubuntu plucky/universe recan 0.5+dfsg-1 (dsc) [2252 B]
134s Get:2 http://ftpmaster.internal/ubuntu plucky/universe recan 0.5+dfsg-1 (tar) [685 kB]
134s Get:3 http://ftpmaster.internal/ubuntu plucky/universe recan 0.5+dfsg-1 (diff) [4880 B]
134s gpgv: Signature made Sun Jun 25 20:50:17 2023 UTC
134s gpgv:                using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
134s gpgv:                issuer "emollier@debian.org"
134s gpgv: Can't check signature: No public key
134s dpkg-source: warning: cannot verify inline signature for ./recan_0.5+dfsg-1.dsc: no acceptable signature found
135s autopkgtest [11:08:42]: testing package recan version 0.5+dfsg-1
135s autopkgtest [11:08:42]: build not needed
136s autopkgtest [11:08:43]: test run-unit-test: preparing testbed
138s Reading package lists...
138s Building dependency tree...
138s Reading state information...
138s Starting pkgProblemResolver with broken count: 0
139s Starting 2 pkgProblemResolver with broken count: 0
139s Done
139s The following additional packages will be installed:
139s   blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx
139s   fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1
139s   libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0
139s   libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui liblapack3 liblbfgsb0
139s   liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libpython3.13-minimal
139s   libpython3.13-stdlib libqhull-r8.0 libraqm0 libsharpyuv0 libtcl8.6 libtiff6
139s   libtk8.6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0
139s   libxft2 libxrender1 libxslt1.1 libxss1 python-matplotlib-data python3-all
139s   python3-appdirs python3-biopython python3-brotli python3-cairo
139s   python3-contourpy python3-cycler python3-dateutil python3-decorator
139s   python3-fastjsonschema python3-fonttools python3-freetype python3-fs
139s   python3-iniconfig python3-jupyter-core python3-kiwisolver python3-lxml
139s   python3-lz4 python3-matplotlib python3-mpmath python3-nbformat python3-numpy
139s   python3-packaging python3-pandas python3-pandas-lib python3-pil
139s   python3-pil.imagetk python3-platformdirs python3-plotly python3-pluggy
139s   python3-pytest python3-reportlab python3-rlpycairo python3-scipy python3-six
139s   python3-sympy python3-tenacity python3-tk python3-traitlets python3-tz
139s   python3-ufolib2 python3.12-tk python3.13 python3.13-minimal python3.13-tk
139s   recan sgml-base tk8.6-blt2.5 unicode-data w3c-sgml-lib x11-common
139s   xfonts-encodings xfonts-utils xml-core
139s Suggested packages:
139s   blt-demo fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre
139s   libjs-jquery-ui-docs liblcms2-utils tcl8.6 tk8.6 bwa clustalo clustalw
139s   dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons
139s   python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 raxml samtools
139s   t-coffee wise python-cycler-doc python-fastjsonschema-doc python3-pip
139s   python-lxml-doc cm-super-minimal dvipng ffmpeg fonts-staypuft ghostscript
139s   gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc
139s   python3-cairocffi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip
139s   python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc
139s   python3-gmpy2 gcc gfortran python-numpy-doc python3-dev python-pandas-doc
139s   python3-statsmodels python-pil-doc python3-ipykernel pdf-viewer
139s   python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm
139s   python-scipy-doc texlive-fonts-extra python-sympy-doc python-tenacity-doc
139s   tix python3-tk-dbg python-traitlets-doc python3.13-venv python3.13-doc
139s   binfmt-support sgml-base-doc debhelper
139s Recommended packages:
139s   javascript-common python-biopython-doc ncbi-blast+ python3-bs4
139s   python3-cssselect python3-html5lib python3-bottleneck python3-numexpr
139s   python3-odf python3-openpyxl python3-tables python3-olefile
139s   fonts-dejavu-extra g++ | c++-compiler isympy-common
139s The following NEW packages will be installed:
139s   autopkgtest-satdep blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono
139s   fonts-lyx fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1
139s   libfontenc1 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
139s   libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui
139s   liblapack3 liblbfgsb0 liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0
139s   libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0
139s   libsharpyuv0 libtcl8.6 libtiff6 libtk8.6 libwebp7 libwebpdemux2 libwebpmux3
139s   libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxslt1.1 libxss1
139s   python-matplotlib-data python3-all python3-appdirs python3-biopython
139s   python3-brotli python3-cairo python3-contourpy python3-cycler
139s   python3-dateutil python3-decorator python3-fastjsonschema python3-fonttools
139s   python3-freetype python3-fs python3-iniconfig python3-jupyter-core
139s   python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib
139s   python3-mpmath python3-nbformat python3-numpy python3-packaging
139s   python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk
139s   python3-platformdirs python3-plotly python3-pluggy python3-pytest
139s   python3-reportlab python3-rlpycairo python3-scipy python3-six python3-sympy
139s   python3-tenacity python3-tk python3-traitlets python3-tz python3-ufolib2
139s   python3.12-tk python3.13 python3.13-minimal python3.13-tk recan sgml-base
139s   tk8.6-blt2.5 unicode-data w3c-sgml-lib x11-common xfonts-encodings
139s   xfonts-utils xml-core
140s 0 upgraded, 100 newly installed, 0 to remove and 0 not upgraded.
140s Need to get 87.4 MB/87.4 MB of archives.
140s After this operation, 393 MB of additional disk space will be used.
140s Get:1 /tmp/autopkgtest.5qCpnq/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [724 B]
140s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB]
140s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB]
140s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 sgml-base all 1.31 [11.4 kB]
140s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [987 kB]
140s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
140s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
140s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontenc1 arm64 1:1.1.8-1build1 [13.9 kB]
140s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
140s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB]
140s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-utils arm64 1:7.7+7 [95.6 kB]
140s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-urw-base35 all 20200910-8 [11.0 MB]
141s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-1.1ubuntu2 [37.4 kB]
141s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-1.1ubuntu2 [142 kB]
141s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB]
141s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB]
141s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B]
141s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.15-1 [774 kB]
141s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-7build1 [618 kB]
141s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 blt arm64 2.5.3+dfsg-7build1 [4840 B]
141s Get:21 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-lyx all 2.4.2.1-1 [171 kB]
141s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB]
141s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB]
141s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB]
141s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B]
141s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB]
141s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.22-1 [46.2 kB]
141s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB]
141s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB]
141s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB]
141s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.0.1-1 [487 kB]
141s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB]
141s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu2 [163 kB]
141s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
141s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
141s Get:36 http://ftpmaster.internal/ubuntu plucky/universe arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
141s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB]
141s Get:38 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB]
141s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB]
141s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu2 [154 kB]
141s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB]
141s Get:42 http://ftpmaster.internal/ubuntu plucky/universe arm64 libqhull-r8.0 arm64 2020.2-6build1 [189 kB]
141s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 libraqm0 arm64 0.10.1-1build1 [14.7 kB]
141s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [16.3 kB]
141s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB]
141s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.4.0-0.1 [192 kB]
141s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB]
141s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpdemux2 arm64 1.4.0-0.1 [12.3 kB]
141s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpmux3 arm64 1.4.0-0.1 [25.1 kB]
141s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libxslt1.1 arm64 1.1.39-0exp1ubuntu1 [167 kB]
141s Get:51 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-matplotlib-data all 3.8.3-3 [2928 kB]
141s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB]
141s Get:53 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B]
141s Get:54 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-appdirs all 1.4.4-4 [10.9 kB]
141s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB]
141s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-tk arm64 3.12.7-3 [115 kB]
141s Get:57 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-tk arm64 3.13.0-2 [105 kB]
141s Get:58 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-tk arm64 3.12.7-1 [9752 B]
141s Get:59 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pil.imagetk arm64 10.4.0-1ubuntu1 [9504 B]
141s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 libopenjp2-7 arm64 2.5.0-2ubuntu1 [182 kB]
141s Get:61 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pil arm64 10.4.0-1ubuntu1 [456 kB]
141s Get:62 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-cairo arm64 1.26.1-2 [121 kB]
141s Get:63 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-freetype all 2.5.1-1 [92.3 kB]
141s Get:64 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-rlpycairo all 0.3.0-3 [9130 B]
141s Get:65 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-reportlab all 4.2.5-1 [1107 kB]
141s Get:66 http://ftpmaster.internal/ubuntu plucky/main arm64 xml-core all 0.19 [20.3 kB]
141s Get:67 http://ftpmaster.internal/ubuntu plucky/universe arm64 w3c-sgml-lib all 1.3-3 [280 kB]
141s Get:68 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-biopython arm64 1.84+dfsg-4 [1689 kB]
141s Get:69 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-brotli arm64 1.1.0-2build2 [340 kB]
141s Get:70 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-contourpy arm64 1.3.0-2 [179 kB]
141s Get:71 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cycler all 0.12.1-1 [9716 B]
141s Get:72 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-six all 1.16.0-7 [13.1 kB]
141s Get:73 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-dateutil all 2.9.0-2 [80.3 kB]
141s Get:74 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB]
142s Get:75 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fastjsonschema all 2.20.0-1 [20.1 kB]
142s Get:76 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.13.1-5 [16.3 MB]
142s Get:77 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB]
142s Get:78 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mpmath all 1.3.0-1 [425 kB]
142s Get:79 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sympy all 1.13.3-1 [4228 kB]
142s Get:80 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tz all 2024.1-2 [31.4 kB]
142s Get:81 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fs all 2.4.16-4 [91.3 kB]
142s Get:82 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-lxml arm64 5.3.0-1 [1205 kB]
142s Get:83 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-lz4 arm64 4.0.2+dfsg-1build4 [26.7 kB]
142s Get:84 http://ftpmaster.internal/ubuntu plucky/universe arm64 unicode-data all 15.1.0-1 [8878 kB]
142s Get:85 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fonttools arm64 4.46.0-1build2 [1398 kB]
142s Get:86 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B]
142s Get:87 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-platformdirs all 4.3.6-1 [16.8 kB]
142s Get:88 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB]
142s Get:89 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-jupyter-core all 5.7.2-4 [28.0 kB]
142s Get:90 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-kiwisolver arm64 1.4.7-2 [50.4 kB]
142s Get:91 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB]
142s Get:92 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-matplotlib arm64 3.8.3-3 [4515 kB]
143s Get:93 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-nbformat all 5.9.1-1 [41.2 kB]
143s Get:94 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas-lib arm64 2.2.3+dfsg-5 [4422 kB]
143s Get:95 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas all 2.2.3+dfsg-5 [3112 kB]
143s Get:96 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tenacity all 8.5.0-0ubuntu1 [17.0 kB]
143s Get:97 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-plotly all 5.20.0+dfsg-1 [2766 kB]
143s Get:98 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB]
143s Get:99 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.3-1 [251 kB]
143s Get:100 http://ftpmaster.internal/ubuntu plucky/universe arm64 recan all 0.5+dfsg-1 [18.1 kB]
144s Fetched 87.4 MB in 3s (25.4 MB/s)
144s Selecting previously unselected package libpython3.13-minimal:arm64.
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144s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_arm64.deb ...
144s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ...
144s Selecting previously unselected package python3.13-minimal.
144s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_arm64.deb ...
144s Unpacking python3.13-minimal (3.13.0-2) ...
144s Selecting previously unselected package sgml-base.
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144s Unpacking sgml-base (1.31) ...
144s Selecting previously unselected package libtcl8.6:arm64.
144s Preparing to unpack .../03-libtcl8.6_8.6.15+dfsg-2_arm64.deb ...
144s Unpacking libtcl8.6:arm64 (8.6.15+dfsg-2) ...
144s Selecting previously unselected package fonts-dejavu-mono.
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144s Selecting previously unselected package fonts-dejavu-core.
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144s Selecting previously unselected package libfontenc1:arm64.
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144s Unpacking libfontenc1:arm64 (1:1.1.8-1build1) ...
144s Selecting previously unselected package x11-common.
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144s Selecting previously unselected package xfonts-encodings.
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144s Selecting previously unselected package xfonts-utils.
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144s Selecting previously unselected package fonts-urw-base35.
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145s Unpacking fonts-urw-base35 (20200910-8) ...
145s Selecting previously unselected package fontconfig-config.
145s Preparing to unpack .../11-fontconfig-config_2.15.0-1.1ubuntu2_arm64.deb ...
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145s Selecting previously unselected package libfontconfig1:arm64.
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145s Selecting previously unselected package libxrender1:arm64.
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145s Selecting previously unselected package libxft2:arm64.
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145s Selecting previously unselected package libxss1:arm64.
145s Preparing to unpack .../15-libxss1_1%3a1.2.3-1build3_arm64.deb ...
145s Unpacking libxss1:arm64 (1:1.2.3-1build3) ...
145s Selecting previously unselected package libtk8.6:arm64.
145s Preparing to unpack .../16-libtk8.6_8.6.15-1_arm64.deb ...
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145s Selecting previously unselected package tk8.6-blt2.5.
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145s Selecting previously unselected package blt.
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145s Selecting previously unselected package fonts-lyx.
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145s Selecting previously unselected package libblas3:arm64.
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145s Unpacking libblas3:arm64 (3.12.0-3build2) ...
145s Selecting previously unselected package libpixman-1-0:arm64.
146s Preparing to unpack .../21-libpixman-1-0_0.44.0-3_arm64.deb ...
146s Unpacking libpixman-1-0:arm64 (0.44.0-3) ...
146s Selecting previously unselected package libxcb-render0:arm64.
146s Preparing to unpack .../22-libxcb-render0_1.17.0-2_arm64.deb ...
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146s Selecting previously unselected package libxcb-shm0:arm64.
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146s Selecting previously unselected package libcairo2:arm64.
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146s Unpacking libcairo2:arm64 (1.18.2-2) ...
146s Selecting previously unselected package libdeflate0:arm64.
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146s Selecting previously unselected package libgfortran5:arm64.
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146s Selecting previously unselected package libgomp1:arm64.
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146s Unpacking libgomp1:arm64 (14.2.0-8ubuntu1) ...
146s Selecting previously unselected package libgraphite2-3:arm64.
146s Preparing to unpack .../28-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ...
146s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
146s Selecting previously unselected package libharfbuzz0b:arm64.
146s Preparing to unpack .../29-libharfbuzz0b_10.0.1-1_arm64.deb ...
146s Unpacking libharfbuzz0b:arm64 (10.0.1-1) ...
146s Selecting previously unselected package libimagequant0:arm64.
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146s Selecting previously unselected package libjpeg-turbo8:arm64.
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146s Selecting previously unselected package libjpeg8:arm64.
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146s Selecting previously unselected package libjs-jquery.
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146s Selecting previously unselected package liblapack3:arm64.
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146s Selecting previously unselected package liblcms2-2:arm64.
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146s Selecting previously unselected package liblerc4:arm64.
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146s Unpacking liblerc4:arm64 (4.0.0+ds-4ubuntu2) ...
146s Selecting previously unselected package libpython3.13-stdlib:arm64.
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147s Selecting previously unselected package libsharpyuv0:arm64.
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147s Selecting previously unselected package libjbig0:arm64.
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147s Selecting previously unselected package libwebp7:arm64.
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147s Selecting previously unselected package libtiff6:arm64.
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147s Selecting previously unselected package libwebpdemux2:arm64.
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147s Selecting previously unselected package libxslt1.1:arm64.
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147s Selecting previously unselected package python-matplotlib-data.
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147s Selecting previously unselected package python3.13.
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147s Unpacking python3.13 (3.13.0-2) ...
147s Selecting previously unselected package python3-all.
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147s Selecting previously unselected package python3-appdirs.
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147s Unpacking python3-appdirs (1.4.4-4) ...
147s Selecting previously unselected package python3-numpy.
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147s Unpacking python3-numpy (1:1.26.4+ds-11build1) ...
147s Selecting previously unselected package python3.12-tk.
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148s Selecting previously unselected package python3.13-tk.
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148s Selecting previously unselected package python3-tk:arm64.
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148s Unpacking python3-tk:arm64 (3.12.7-1) ...
148s Selecting previously unselected package python3-pil.imagetk:arm64.
148s Preparing to unpack .../57-python3-pil.imagetk_10.4.0-1ubuntu1_arm64.deb ...
148s Unpacking python3-pil.imagetk:arm64 (10.4.0-1ubuntu1) ...
148s Selecting previously unselected package libopenjp2-7:arm64.
148s Preparing to unpack .../58-libopenjp2-7_2.5.0-2ubuntu1_arm64.deb ...
148s Unpacking libopenjp2-7:arm64 (2.5.0-2ubuntu1) ...
148s Selecting previously unselected package python3-pil:arm64.
148s Preparing to unpack .../59-python3-pil_10.4.0-1ubuntu1_arm64.deb ...
148s Unpacking python3-pil:arm64 (10.4.0-1ubuntu1) ...
148s Selecting previously unselected package python3-cairo.
148s Preparing to unpack .../60-python3-cairo_1.26.1-2_arm64.deb ...
148s Unpacking python3-cairo (1.26.1-2) ...
148s Selecting previously unselected package python3-freetype.
148s Preparing to unpack .../61-python3-freetype_2.5.1-1_all.deb ...
148s Unpacking python3-freetype (2.5.1-1) ...
148s Selecting previously unselected package python3-rlpycairo.
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148s Unpacking python3-rlpycairo (0.3.0-3) ...
148s Selecting previously unselected package python3-reportlab.
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148s Unpacking python3-reportlab (4.2.5-1) ...
148s Selecting previously unselected package xml-core.
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148s Unpacking xml-core (0.19) ...
148s Selecting previously unselected package w3c-sgml-lib.
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148s Unpacking w3c-sgml-lib (1.3-3) ...
148s Selecting previously unselected package python3-biopython.
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148s Unpacking python3-biopython (1.84+dfsg-4) ...
148s Selecting previously unselected package python3-brotli.
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148s Unpacking python3-brotli (1.1.0-2build2) ...
148s Selecting previously unselected package python3-contourpy.
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148s Unpacking python3-contourpy (1.3.0-2) ...
148s Selecting previously unselected package python3-cycler.
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148s Unpacking python3-cycler (0.12.1-1) ...
148s Selecting previously unselected package python3-six.
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148s Unpacking python3-six (1.16.0-7) ...
148s Selecting previously unselected package python3-dateutil.
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148s Unpacking python3-dateutil (2.9.0-2) ...
149s Selecting previously unselected package python3-decorator.
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149s Unpacking python3-decorator (5.1.1-5) ...
149s Selecting previously unselected package python3-fastjsonschema.
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149s Unpacking python3-fastjsonschema (2.20.0-1) ...
149s Selecting previously unselected package python3-scipy.
149s Preparing to unpack .../74-python3-scipy_1.13.1-5_arm64.deb ...
149s Unpacking python3-scipy (1.13.1-5) ...
149s Selecting previously unselected package python3-ufolib2.
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149s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ...
149s Selecting previously unselected package python3-mpmath.
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149s Unpacking python3-mpmath (1.3.0-1) ...
149s Selecting previously unselected package python3-sympy.
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150s Selecting previously unselected package python3-lxml:arm64.
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150s Unpacking python3-lxml:arm64 (5.3.0-1) ...
150s Selecting previously unselected package python3-lz4.
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150s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ...
150s Selecting previously unselected package unicode-data.
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150s Unpacking unicode-data (15.1.0-1) ...
150s Selecting previously unselected package python3-fonttools.
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150s Unpacking python3-fonttools (4.46.0-1build2) ...
150s Selecting previously unselected package python3-iniconfig.
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150s Unpacking python3-iniconfig (1.1.1-2) ...
150s Selecting previously unselected package python3-platformdirs.
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150s Unpacking python3-platformdirs (4.3.6-1) ...
150s Selecting previously unselected package python3-traitlets.
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150s Unpacking python3-traitlets (5.14.3+really5.14.3-1) ...
150s Selecting previously unselected package python3-jupyter-core.
150s Preparing to unpack .../87-python3-jupyter-core_5.7.2-4_all.deb ...
150s Unpacking python3-jupyter-core (5.7.2-4) ...
150s Selecting previously unselected package python3-kiwisolver.
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150s Unpacking python3-kiwisolver (1.4.7-2) ...
150s Selecting previously unselected package python3-packaging.
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150s Unpacking python3-packaging (24.1-1) ...
150s Selecting previously unselected package python3-matplotlib.
150s Preparing to unpack .../90-python3-matplotlib_3.8.3-3_arm64.deb ...
150s Unpacking python3-matplotlib (3.8.3-3) ...
151s Selecting previously unselected package python3-nbformat.
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151s Selecting previously unselected package python3-pandas-lib:arm64.
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151s Unpacking python3-pandas (2.2.3+dfsg-5) ...
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152s Unpacking python3-pluggy (1.5.0-1) ...
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153s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
153s Setting up liblcms2-2:arm64 (2.16-2) ...
153s Setting up python3-iniconfig (1.1.1-2) ...
153s Setting up libpixman-1-0:arm64 (0.44.0-3) ...
153s Setting up libsharpyuv0:arm64 (1.4.0-0.1) ...
153s Setting up liblerc4:arm64 (4.0.0+ds-4ubuntu2) ...
153s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ...
153s Setting up python3-lz4 (4.0.2+dfsg-1build4) ...
153s Setting up libxcb-render0:arm64 (1.17.0-2) ...
153s Setting up fonts-lyx (2.4.2.1-1) ...
153s Setting up python3-tenacity (8.5.0-0ubuntu1) ...
154s Setting up x11-common (1:7.7+23ubuntu3) ...
154s Setting up libdeflate0:arm64 (1.22-1) ...
154s Setting up libqhull-r8.0:arm64 (2020.2-6build1) ...
154s Setting up libxcb-shm0:arm64 (1.17.0-2) ...
154s Setting up libgomp1:arm64 (14.2.0-8ubuntu1) ...
154s Setting up python3-freetype (2.5.1-1) ...
154s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ...
154s Setting up python3-platformdirs (4.3.6-1) ...
155s Setting up python3-tz (2024.1-2) ...
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155s Setting up libpython3.13-minimal:arm64 (3.13.0-2) ...
155s Setting up python3-decorator (5.1.1-5) ...
155s Setting up libfontenc1:arm64 (1:1.1.8-1build1) ...
155s Setting up libblas3:arm64 (3.12.0-3build2) ...
155s 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
155s Setting up python3-packaging (24.1-1) ...
156s Setting up python3-brotli (1.1.0-2build2) ...
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156s Setting up python3-pluggy (1.5.0-1) ...
157s Setting up libwebp7:arm64 (1.4.0-0.1) ...
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157s Setting up python3-traitlets (5.14.3+really5.14.3-1) ...
157s Setting up libxslt1.1:arm64 (1.1.39-0exp1ubuntu1) ...
157s Setting up libopenjp2-7:arm64 (2.5.0-2ubuntu1) ...
157s Setting up python3.13-minimal (3.13.0-2) ...
158s Setting up libharfbuzz0b:arm64 (10.0.1-1) ...
158s Setting up python3-dateutil (2.9.0-2) ...
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159s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
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160s Setting up python3-sympy (1.13.3-1) ...
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177s Setting up python3-pytest (8.3.3-1) ...
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178s Setting up python3-all (3.12.7-1) ...
178s Setting up python3-nbformat (5.9.1-1) ...
178s Setting up xfonts-utils (1:7.7+7) ...
178s Setting up python3-fs (2.4.16-4) ...
179s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
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179s Setting up python3-plotly (5.20.0+dfsg-1) ...
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218s Setting up python3-cairo (1.26.1-2) ...
218s Setting up blt (2.5.3+dfsg-7build1) ...
218s Setting up python3-tk:arm64 (3.12.7-1) ...
218s Setting up python3-pil.imagetk:arm64 (10.4.0-1ubuntu1) ...
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220s Setting up python3-fonttools (4.46.0-1build2) ...
222s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ...
223s Setting up python3-matplotlib (3.8.3-3) ...
226s Processing triggers for libc-bin (2.40-1ubuntu3) ...
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226s Processing triggers for man-db (2.12.1-3) ...
227s Processing triggers for sgml-base (1.31) ...
227s Setting up w3c-sgml-lib (1.3-3) ...
255s Setting up python3-biopython (1.84+dfsg-4) ...
258s Setting up recan (0.5+dfsg-1) ...
258s Setting up autopkgtest-satdep (0) ...
264s (Reading database ... 105515 files and directories currently installed.)
264s Removing autopkgtest-satdep (0) ...
265s autopkgtest [11:10:52]: test run-unit-test: [-----------------------
265s /tmp/autopkgtest.5qCpnq/build.Uww/src/test /tmp/autopkgtest.5qCpnq/build.Uww/src
265s Testing with python3.13 in /tmp/autopkgtest.5qCpnq/build.Uww/src/test:
266s ============================= test session starts ==============================
266s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0
266s rootdir: /tmp/autopkgtest.5qCpnq/build.Uww/src
266s plugins: typeguard-4.4.1
266s collected 0 items / 1 error
266s 
266s ==================================== ERRORS ====================================
266s ________________________ ERROR collecting test/test.py _________________________
266s ImportError while importing test module '/tmp/autopkgtest.5qCpnq/build.Uww/src/test/test.py'.
266s Hint: make sure your test modules/packages have valid Python names.
266s Traceback:
266s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
266s     return _bootstrap._gcd_import(name[level:], package, level)
266s test.py:5: in <module>
266s     from Bio import AlignIO
266s /usr/lib/python3/dist-packages/Bio/AlignIO/__init__.py:141: in <module>
266s     from Bio.Align import MultipleSeqAlignment
266s /usr/lib/python3/dist-packages/Bio/Align/__init__.py:32: in <module>
266s     raise MissingPythonDependencyError(
266s E   Bio.MissingPythonDependencyError: Please install NumPy if you want to use Bio.Align. See http://www.numpy.org/
266s =========================== short test summary info ============================
266s ERROR test.py
266s !!!!!!!!!!!!!!!!!!!! Interrupted: 1 error during collection !!!!!!!!!!!!!!!!!!!!
266s =============================== 1 error in 0.20s ===============================
266s autopkgtest [11:10:53]: test run-unit-test: -----------------------]
267s autopkgtest [11:10:54]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
267s run-unit-test        FAIL non-zero exit status 2
267s autopkgtest [11:10:54]: @@@@@@@@@@@@@@@@@@@@ summary
267s run-unit-test        FAIL non-zero exit status 2
282s virt: nova [W] Skipping flock in bos03-arm64
282s virt: Creating nova instance adt-plucky-arm64-recan-20241113-110627-juju-7f2275-prod-proposed-migration-environment-2-6acb961b-d544-4bf5-8de9-be9105559441 from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)...