0s autopkgtest [13:02:55]: starting date and time: 2024-11-13 13:02:55+0000 0s autopkgtest [13:02:55]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [13:02:55]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.21lh4_55/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 python-treetime --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-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-s390x-32.secgroup --name adt-plucky-s390x-python-treetime-20241113-130254-juju-7f2275-prod-proposed-migration-environment-15-bc265453-f7f6-4c23-8aa5-e0eff3cb5b0b --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-s390x -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/ 106s autopkgtest [13:04:41]: testbed dpkg architecture: s390x 106s autopkgtest [13:04:41]: testbed apt version: 2.9.8 106s autopkgtest [13:04:41]: @@@@@@@@@@@@@@@@@@@@ test bed setup 107s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 108s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 108s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [104 kB] 108s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [967 kB] 108s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.5 kB] 108s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [107 kB] 108s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [641 kB] 108s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [17.4 kB] 108s Fetched 1934 kB in 1s (2185 kB/s) 108s Reading package lists... 110s Reading package lists... 110s Building dependency tree... 110s Reading state information... 110s Calculating upgrade... 111s The following NEW packages will be installed: 111s python3.13-gdbm 111s The following packages will be upgraded: 111s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 111s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 111s Need to get 252 kB of archives. 111s After this operation, 98.3 kB of additional disk space will be used. 111s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-minimal s390x 3.12.7-1 [27.4 kB] 111s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3 s390x 3.12.7-1 [24.0 kB] 111s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libpython3-stdlib s390x 3.12.7-1 [10.0 kB] 111s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-gdbm s390x 3.13.0-2 [31.0 kB] 111s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-gdbm s390x 3.12.7-1 [8642 B] 111s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libgpgme11t64 s390x 1.23.2-5ubuntu4 [151 kB] 111s Fetched 252 kB in 0s (609 kB/s) 111s (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 ... 55510 files and directories currently installed.) 111s Preparing to unpack .../python3-minimal_3.12.7-1_s390x.deb ... 111s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 111s Setting up python3-minimal (3.12.7-1) ... 112s (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 ... 55510 files and directories currently installed.) 112s Preparing to unpack .../python3_3.12.7-1_s390x.deb ... 112s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 112s Preparing to unpack .../libpython3-stdlib_3.12.7-1_s390x.deb ... 112s Unpacking libpython3-stdlib:s390x (3.12.7-1) over (3.12.6-0ubuntu1) ... 112s Selecting previously unselected package python3.13-gdbm. 112s Preparing to unpack .../python3.13-gdbm_3.13.0-2_s390x.deb ... 112s Unpacking python3.13-gdbm (3.13.0-2) ... 112s Preparing to unpack .../python3-gdbm_3.12.7-1_s390x.deb ... 112s Unpacking python3-gdbm:s390x (3.12.7-1) over (3.12.6-1ubuntu1) ... 112s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_s390x.deb ... 112s Unpacking libgpgme11t64:s390x (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 112s Setting up libgpgme11t64:s390x (1.23.2-5ubuntu4) ... 112s Setting up python3.13-gdbm (3.13.0-2) ... 112s Setting up libpython3-stdlib:s390x (3.12.7-1) ... 112s Setting up python3 (3.12.7-1) ... 112s Setting up python3-gdbm:s390x (3.12.7-1) ... 112s Processing triggers for man-db (2.12.1-3) ... 112s Processing triggers for libc-bin (2.40-1ubuntu3) ... 112s Reading package lists... 113s Building dependency tree... 113s Reading state information... 113s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 113s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 113s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 113s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 114s Reading package lists... 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s Calculating upgrade... 114s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 114s Reading package lists... 115s Building dependency tree... 115s Reading state information... 115s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 117s autopkgtest [13:04:52]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 12:49:35 UTC 2024 117s autopkgtest [13:04:52]: @@@@@@@@@@@@@@@@@@@@ apt-source python-treetime 119s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (dsc) [2611 B] 119s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (tar) [5117 kB] 119s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (tar) [1291 kB] 119s Get:4 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (diff) [8028 B] 119s gpgv: Signature made Sat Nov 9 21:31:47 2024 UTC 120s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 120s gpgv: issuer "emollier@debian.org" 120s gpgv: Can't check signature: No public key 120s dpkg-source: warning: cannot verify inline signature for ./python-treetime_0.11.4-1.dsc: no acceptable signature found 120s autopkgtest [13:04:55]: testing package python-treetime version 0.11.4-1 120s autopkgtest [13:04:55]: build not needed 122s autopkgtest [13:04:57]: test run-unit-test: preparing testbed 124s Reading package lists... 124s Building dependency tree... 124s Reading state information... 124s Starting pkgProblemResolver with broken count: 0 124s Starting 2 pkgProblemResolver with broken count: 0 124s Done 124s The following additional packages will be installed: 124s blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx 124s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 124s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 124s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui 124s liblapack3 liblbfgsb0 liblcms2-2 libopenjp2-7 libpixman-1-0 libqhull-r8.0 124s libraqm0 libsharpyuv0 libtcl8.6 libtiff6 libtk8.6 libwebp7 libwebpdemux2 124s libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxslt1.1 124s libxss1 python-matplotlib-data python3-appdirs python3-biopython 124s python3-brotli python3-cairo python3-contourpy python3-cycler 124s python3-dateutil python3-decorator python3-fonttools python3-freetype 124s python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 124s python3-mpmath python3-numpy python3-packaging python3-pandas 124s python3-pandas-lib python3-pil python3-pil.imagetk python3-reportlab 124s python3-rlpycairo python3-scipy python3-six python3-sympy python3-tk 124s python3-treetime python3-tz python3-ufolib2 python3-unicodedata2 124s python3.12-tk python3.13-tk sgml-base tk8.6-blt2.5 unicode-data w3c-sgml-lib 124s x11-common xfonts-encodings xfonts-utils xml-core 124s Suggested packages: 124s blt-demo fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre 124s libjs-jquery-ui-docs liblcms2-utils tcl8.6 tk8.6 bwa clustalo clustalw 124s dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons 124s python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 raxml samtools 124s t-coffee wise python-cycler-doc python-lxml-doc cm-super-minimal dvipng 124s ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 124s librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi-cairo 124s python3-gobject python3-pyqt5 python3-sip python3-tornado 124s texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gcc 124s gfortran python-numpy-doc python3-dev python3-pytest python-pandas-doc 124s python3-statsmodels python-pil-doc pdf-viewer python3-egenix-mxtexttools 124s python-reportlab-doc rl-accel rl-renderpm python-scipy-doc 124s texlive-fonts-extra python-sympy-doc tix python3-tk-dbg sgml-base-doc 124s debhelper 124s Recommended packages: 124s javascript-common python-biopython-doc ncbi-blast+ python3-bs4 124s python3-cssselect python3-html5lib python3-bottleneck python3-numexpr 124s python3-odf python3-openpyxl python3-tables python3-olefile 124s fonts-dejavu-extra g++ | c++-compiler isympy-common 124s The following NEW packages will be installed: 124s autopkgtest-satdep blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono 124s fonts-lyx fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 124s libfontenc1 libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 124s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui 124s liblapack3 liblbfgsb0 liblcms2-2 libopenjp2-7 libpixman-1-0 libqhull-r8.0 124s libraqm0 libsharpyuv0 libtcl8.6 libtiff6 libtk8.6 libwebp7 libwebpdemux2 124s libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxslt1.1 124s libxss1 python-matplotlib-data python3-appdirs python3-biopython 124s python3-brotli python3-cairo python3-contourpy python3-cycler 124s python3-dateutil python3-decorator python3-fonttools python3-freetype 124s python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 124s python3-mpmath python3-numpy python3-packaging python3-pandas 124s python3-pandas-lib python3-pil python3-pil.imagetk python3-reportlab 124s python3-rlpycairo python3-scipy python3-six python3-sympy python3-tk 124s python3-treetime python3-tz python3-ufolib2 python3-unicodedata2 124s python3.12-tk python3.13-tk sgml-base tk8.6-blt2.5 unicode-data w3c-sgml-lib 124s x11-common xfonts-encodings xfonts-utils xml-core 124s 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. 124s Need to get 83.8 MB/83.8 MB of archives. 124s After this operation, 329 MB of additional disk space will be used. 124s Get:1 /tmp/autopkgtest.ePzQPP/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [724 B] 124s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 124s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x libtcl8.6 s390x 8.6.15+dfsg-2 [1034 kB] 125s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 125s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 125s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 125s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 125s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 125s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 125s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 125s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 126s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 126s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 126s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 126s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libxft2 s390x 2.3.6-1build1 [49.6 kB] 126s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libxss1 s390x 1:1.2.3-1build3 [7396 B] 126s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libtk8.6 s390x 8.6.15-1 [828 kB] 126s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x tk8.6-blt2.5 s390x 2.5.3+dfsg-7build1 [662 kB] 126s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x blt s390x 2.5.3+dfsg-7build1 [4840 B] 126s Get:20 http://ftpmaster.internal/ubuntu plucky/universe s390x fonts-lyx all 2.4.2.1-1 [171 kB] 126s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 126s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB] 126s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 126s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 126s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 126s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.22-1 [46.1 kB] 126s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 126s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-8ubuntu1 [151 kB] 126s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 126s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.0.1-1 [536 kB] 126s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 126s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 126s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 126s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 126s Get:35 http://ftpmaster.internal/ubuntu plucky/universe s390x libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 126s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 126s Get:37 http://ftpmaster.internal/ubuntu plucky/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1build1 [32.4 kB] 126s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.16-2 [175 kB] 126s Get:39 http://ftpmaster.internal/ubuntu plucky/universe s390x libqhull-r8.0 s390x 2020.2-6build1 [199 kB] 126s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 126s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 126s Get:42 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 126s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 126s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 126s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 126s Get:46 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 126s Get:47 http://ftpmaster.internal/ubuntu plucky/main s390x libxslt1.1 s390x 1.1.39-0exp1ubuntu1 [169 kB] 126s Get:48 http://ftpmaster.internal/ubuntu plucky/universe s390x python-matplotlib-data all 3.8.3-3 [2928 kB] 126s Get:49 http://ftpmaster.internal/ubuntu plucky/main s390x python3-appdirs all 1.4.4-4 [10.9 kB] 126s Get:50 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 126s Get:51 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-tk s390x 3.12.7-3 [117 kB] 126s Get:52 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-tk s390x 3.13.0-2 [107 kB] 126s Get:53 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-tk s390x 3.12.7-1 [9750 B] 126s Get:54 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pil.imagetk s390x 10.4.0-1ubuntu1 [9314 B] 126s Get:55 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 126s Get:56 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 126s Get:57 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 126s Get:58 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.5.1-1 [92.3 kB] 126s Get:59 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 126s Get:60 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.5-1 [1107 kB] 126s Get:61 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 126s Get:62 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 126s Get:63 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython s390x 1.84+dfsg-4 [1721 kB] 126s Get:64 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-brotli s390x 1.1.0-2build2 [376 kB] 126s Get:65 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-contourpy s390x 1.3.0-2 [195 kB] 127s Get:66 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-cycler all 0.12.1-1 [9716 B] 127s Get:67 http://ftpmaster.internal/ubuntu plucky/main s390x python3-six all 1.16.0-7 [13.1 kB] 127s Get:68 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dateutil all 2.9.0-2 [80.3 kB] 127s Get:69 http://ftpmaster.internal/ubuntu plucky/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 127s Get:70 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-scipy s390x 1.13.1-5 [17.5 MB] 127s Get:71 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 127s Get:72 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-mpmath all 1.3.0-1 [425 kB] 127s Get:73 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-sympy all 1.13.3-1 [4228 kB] 127s Get:74 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tz all 2024.1-2 [31.4 kB] 127s Get:75 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fs all 2.4.16-4 [91.3 kB] 127s Get:76 http://ftpmaster.internal/ubuntu plucky/main s390x python3-lxml s390x 5.3.0-1 [1314 kB] 127s Get:77 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-lz4 s390x 4.0.2+dfsg-1build4 [26.4 kB] 127s Get:78 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-unicodedata2 s390x 15.1.0+ds-1build1 [367 kB] 127s Get:79 http://ftpmaster.internal/ubuntu plucky/universe s390x unicode-data all 15.1.0-1 [8878 kB] 127s Get:80 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fonttools s390x 4.46.0-1build2 [1453 kB] 127s Get:81 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-kiwisolver s390x 1.4.7-2 [54.9 kB] 127s Get:82 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 127s Get:83 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-matplotlib s390x 3.8.3-3 [4554 kB] 127s Get:84 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas-lib s390x 2.2.3+dfsg-5 [4938 kB] 128s Get:85 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas all 2.2.3+dfsg-5 [3112 kB] 128s Get:86 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-treetime all 0.11.4-1 [941 kB] 128s Fetched 83.8 MB in 4s (23.8 MB/s) 128s Selecting previously unselected package sgml-base. 128s (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 ... 55517 files and directories currently installed.) 128s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 128s Unpacking sgml-base (1.31) ... 128s Selecting previously unselected package libtcl8.6:s390x. 128s Preparing to unpack .../01-libtcl8.6_8.6.15+dfsg-2_s390x.deb ... 128s Unpacking libtcl8.6:s390x (8.6.15+dfsg-2) ... 128s Selecting previously unselected package libfreetype6:s390x. 128s Preparing to unpack .../02-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 128s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 128s Selecting previously unselected package fonts-dejavu-mono. 128s Preparing to unpack .../03-fonts-dejavu-mono_2.37-8_all.deb ... 128s Unpacking fonts-dejavu-mono (2.37-8) ... 128s Selecting previously unselected package fonts-dejavu-core. 128s Preparing to unpack .../04-fonts-dejavu-core_2.37-8_all.deb ... 128s Unpacking fonts-dejavu-core (2.37-8) ... 128s Selecting previously unselected package libfontenc1:s390x. 128s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 128s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 128s Selecting previously unselected package x11-common. 128s Preparing to unpack .../06-x11-common_1%3a7.7+23ubuntu3_all.deb ... 128s Unpacking x11-common (1:7.7+23ubuntu3) ... 128s Selecting previously unselected package xfonts-encodings. 128s Preparing to unpack .../07-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 128s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 128s Selecting previously unselected package xfonts-utils. 128s Preparing to unpack .../08-xfonts-utils_1%3a7.7+7_s390x.deb ... 128s Unpacking xfonts-utils (1:7.7+7) ... 128s Selecting previously unselected package fonts-urw-base35. 128s Preparing to unpack .../09-fonts-urw-base35_20200910-8_all.deb ... 128s Unpacking fonts-urw-base35 (20200910-8) ... 128s Selecting previously unselected package fontconfig-config. 128s Preparing to unpack .../10-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 129s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 129s Selecting previously unselected package libfontconfig1:s390x. 129s Preparing to unpack .../11-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 129s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 129s Selecting previously unselected package libxrender1:s390x. 129s Preparing to unpack .../12-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 129s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 129s Selecting previously unselected package libxft2:s390x. 129s Preparing to unpack .../13-libxft2_2.3.6-1build1_s390x.deb ... 129s Unpacking libxft2:s390x (2.3.6-1build1) ... 129s Selecting previously unselected package libxss1:s390x. 129s Preparing to unpack .../14-libxss1_1%3a1.2.3-1build3_s390x.deb ... 129s Unpacking libxss1:s390x (1:1.2.3-1build3) ... 129s Selecting previously unselected package libtk8.6:s390x. 129s Preparing to unpack .../15-libtk8.6_8.6.15-1_s390x.deb ... 129s Unpacking libtk8.6:s390x (8.6.15-1) ... 129s Selecting previously unselected package tk8.6-blt2.5. 129s Preparing to unpack .../16-tk8.6-blt2.5_2.5.3+dfsg-7build1_s390x.deb ... 129s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 129s Selecting previously unselected package blt. 129s Preparing to unpack .../17-blt_2.5.3+dfsg-7build1_s390x.deb ... 129s Unpacking blt (2.5.3+dfsg-7build1) ... 129s Selecting previously unselected package fonts-lyx. 129s Preparing to unpack .../18-fonts-lyx_2.4.2.1-1_all.deb ... 129s Unpacking fonts-lyx (2.4.2.1-1) ... 129s Selecting previously unselected package libblas3:s390x. 129s Preparing to unpack .../19-libblas3_3.12.0-3build2_s390x.deb ... 129s Unpacking libblas3:s390x (3.12.0-3build2) ... 129s Selecting previously unselected package libpixman-1-0:s390x. 129s Preparing to unpack .../20-libpixman-1-0_0.44.0-3_s390x.deb ... 129s Unpacking libpixman-1-0:s390x (0.44.0-3) ... 129s Selecting previously unselected package libxcb-render0:s390x. 129s Preparing to unpack .../21-libxcb-render0_1.17.0-2_s390x.deb ... 129s Unpacking libxcb-render0:s390x (1.17.0-2) ... 129s Selecting previously unselected package libxcb-shm0:s390x. 129s Preparing to unpack .../22-libxcb-shm0_1.17.0-2_s390x.deb ... 129s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 129s Selecting previously unselected package libcairo2:s390x. 129s Preparing to unpack .../23-libcairo2_1.18.2-2_s390x.deb ... 129s Unpacking libcairo2:s390x (1.18.2-2) ... 129s Selecting previously unselected package libdeflate0:s390x. 129s Preparing to unpack .../24-libdeflate0_1.22-1_s390x.deb ... 129s Unpacking libdeflate0:s390x (1.22-1) ... 129s Selecting previously unselected package libgfortran5:s390x. 129s Preparing to unpack .../25-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 129s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 129s Selecting previously unselected package libgomp1:s390x. 129s Preparing to unpack .../26-libgomp1_14.2.0-8ubuntu1_s390x.deb ... 129s Unpacking libgomp1:s390x (14.2.0-8ubuntu1) ... 129s Selecting previously unselected package libgraphite2-3:s390x. 129s Preparing to unpack .../27-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 129s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 129s Selecting previously unselected package libharfbuzz0b:s390x. 129s Preparing to unpack .../28-libharfbuzz0b_10.0.1-1_s390x.deb ... 129s Unpacking libharfbuzz0b:s390x (10.0.1-1) ... 129s Selecting previously unselected package libimagequant0:s390x. 129s Preparing to unpack .../29-libimagequant0_2.18.0-1build1_s390x.deb ... 129s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 129s Selecting previously unselected package libjpeg-turbo8:s390x. 129s Preparing to unpack .../30-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 129s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 129s Selecting previously unselected package libjpeg8:s390x. 129s Preparing to unpack .../31-libjpeg8_8c-2ubuntu11_s390x.deb ... 129s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 129s Selecting previously unselected package libjs-jquery. 129s Preparing to unpack .../32-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 129s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 129s Selecting previously unselected package libjs-jquery-ui. 129s Preparing to unpack .../33-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 129s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 129s Selecting previously unselected package liblapack3:s390x. 129s Preparing to unpack .../34-liblapack3_3.12.0-3build2_s390x.deb ... 129s Unpacking liblapack3:s390x (3.12.0-3build2) ... 129s Selecting previously unselected package liblbfgsb0:s390x. 129s Preparing to unpack .../35-liblbfgsb0_3.0+dfsg.4-1build1_s390x.deb ... 129s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 129s Selecting previously unselected package liblcms2-2:s390x. 129s Preparing to unpack .../36-liblcms2-2_2.16-2_s390x.deb ... 129s Unpacking liblcms2-2:s390x (2.16-2) ... 129s Selecting previously unselected package libqhull-r8.0:s390x. 129s Preparing to unpack .../37-libqhull-r8.0_2020.2-6build1_s390x.deb ... 129s Unpacking libqhull-r8.0:s390x (2020.2-6build1) ... 129s Selecting previously unselected package libraqm0:s390x. 129s Preparing to unpack .../38-libraqm0_0.10.1-1build1_s390x.deb ... 129s Unpacking libraqm0:s390x (0.10.1-1build1) ... 129s Selecting previously unselected package libsharpyuv0:s390x. 129s Preparing to unpack .../39-libsharpyuv0_1.4.0-0.1_s390x.deb ... 129s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libjbig0:s390x. 129s Preparing to unpack .../40-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 129s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 129s Selecting previously unselected package libwebp7:s390x. 129s Preparing to unpack .../41-libwebp7_1.4.0-0.1_s390x.deb ... 129s Unpacking libwebp7:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libtiff6:s390x. 129s Preparing to unpack .../42-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 129s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 129s Selecting previously unselected package libwebpdemux2:s390x. 129s Preparing to unpack .../43-libwebpdemux2_1.4.0-0.1_s390x.deb ... 129s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libwebpmux3:s390x. 129s Preparing to unpack .../44-libwebpmux3_1.4.0-0.1_s390x.deb ... 129s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 129s Selecting previously unselected package libxslt1.1:s390x. 129s Preparing to unpack .../45-libxslt1.1_1.1.39-0exp1ubuntu1_s390x.deb ... 129s Unpacking libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 129s Selecting previously unselected package python-matplotlib-data. 129s Preparing to unpack .../46-python-matplotlib-data_3.8.3-3_all.deb ... 129s Unpacking python-matplotlib-data (3.8.3-3) ... 129s Selecting previously unselected package python3-appdirs. 129s Preparing to unpack .../47-python3-appdirs_1.4.4-4_all.deb ... 129s Unpacking python3-appdirs (1.4.4-4) ... 129s Selecting previously unselected package python3-numpy. 129s Preparing to unpack .../48-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 129s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 129s Selecting previously unselected package python3.12-tk. 129s Preparing to unpack .../49-python3.12-tk_3.12.7-3_s390x.deb ... 129s Unpacking python3.12-tk (3.12.7-3) ... 129s Selecting previously unselected package python3.13-tk. 129s Preparing to unpack .../50-python3.13-tk_3.13.0-2_s390x.deb ... 129s Unpacking python3.13-tk (3.13.0-2) ... 129s Selecting previously unselected package python3-tk:s390x. 129s Preparing to unpack .../51-python3-tk_3.12.7-1_s390x.deb ... 129s Unpacking python3-tk:s390x (3.12.7-1) ... 129s Selecting previously unselected package python3-pil.imagetk:s390x. 129s Preparing to unpack .../52-python3-pil.imagetk_10.4.0-1ubuntu1_s390x.deb ... 129s Unpacking python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 129s Selecting previously unselected package libopenjp2-7:s390x. 129s Preparing to unpack .../53-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 129s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 129s Selecting previously unselected package python3-pil:s390x. 129s Preparing to unpack .../54-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 129s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 129s Selecting previously unselected package python3-cairo. 129s Preparing to unpack .../55-python3-cairo_1.26.1-2_s390x.deb ... 129s Unpacking python3-cairo (1.26.1-2) ... 129s Selecting previously unselected package python3-freetype. 129s Preparing to unpack .../56-python3-freetype_2.5.1-1_all.deb ... 129s Unpacking python3-freetype (2.5.1-1) ... 129s Selecting previously unselected package python3-rlpycairo. 129s Preparing to unpack .../57-python3-rlpycairo_0.3.0-3_all.deb ... 129s Unpacking python3-rlpycairo (0.3.0-3) ... 129s Selecting previously unselected package python3-reportlab. 129s Preparing to unpack .../58-python3-reportlab_4.2.5-1_all.deb ... 129s Unpacking python3-reportlab (4.2.5-1) ... 129s Selecting previously unselected package xml-core. 129s Preparing to unpack .../59-xml-core_0.19_all.deb ... 129s Unpacking xml-core (0.19) ... 129s Selecting previously unselected package w3c-sgml-lib. 129s Preparing to unpack .../60-w3c-sgml-lib_1.3-3_all.deb ... 129s Unpacking w3c-sgml-lib (1.3-3) ... 129s Selecting previously unselected package python3-biopython. 129s Preparing to unpack .../61-python3-biopython_1.84+dfsg-4_s390x.deb ... 129s Unpacking python3-biopython (1.84+dfsg-4) ... 129s Selecting previously unselected package python3-brotli. 130s Preparing to unpack .../62-python3-brotli_1.1.0-2build2_s390x.deb ... 130s Unpacking python3-brotli (1.1.0-2build2) ... 130s Selecting previously unselected package python3-contourpy. 130s Preparing to unpack .../63-python3-contourpy_1.3.0-2_s390x.deb ... 130s Unpacking python3-contourpy (1.3.0-2) ... 130s Selecting previously unselected package python3-cycler. 130s Preparing to unpack .../64-python3-cycler_0.12.1-1_all.deb ... 130s Unpacking python3-cycler (0.12.1-1) ... 130s Selecting previously unselected package python3-six. 130s Preparing to unpack .../65-python3-six_1.16.0-7_all.deb ... 130s Unpacking python3-six (1.16.0-7) ... 130s Selecting previously unselected package python3-dateutil. 130s Preparing to unpack .../66-python3-dateutil_2.9.0-2_all.deb ... 130s Unpacking python3-dateutil (2.9.0-2) ... 130s Selecting previously unselected package python3-decorator. 130s Preparing to unpack .../67-python3-decorator_5.1.1-5_all.deb ... 130s Unpacking python3-decorator (5.1.1-5) ... 130s Selecting previously unselected package python3-scipy. 130s Preparing to unpack .../68-python3-scipy_1.13.1-5_s390x.deb ... 130s Unpacking python3-scipy (1.13.1-5) ... 130s Selecting previously unselected package python3-ufolib2. 130s Preparing to unpack .../69-python3-ufolib2_0.16.1+dfsg1-1_all.deb ... 130s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ... 130s Selecting previously unselected package python3-mpmath. 130s Preparing to unpack .../70-python3-mpmath_1.3.0-1_all.deb ... 130s Unpacking python3-mpmath (1.3.0-1) ... 130s Selecting previously unselected package python3-sympy. 130s Preparing to unpack .../71-python3-sympy_1.13.3-1_all.deb ... 130s Unpacking python3-sympy (1.13.3-1) ... 130s Selecting previously unselected package python3-tz. 130s Preparing to unpack .../72-python3-tz_2024.1-2_all.deb ... 130s Unpacking python3-tz (2024.1-2) ... 130s Selecting previously unselected package python3-fs. 130s Preparing to unpack .../73-python3-fs_2.4.16-4_all.deb ... 130s Unpacking python3-fs (2.4.16-4) ... 130s Selecting previously unselected package python3-lxml:s390x. 130s Preparing to unpack .../74-python3-lxml_5.3.0-1_s390x.deb ... 130s Unpacking python3-lxml:s390x (5.3.0-1) ... 130s Selecting previously unselected package python3-lz4. 130s Preparing to unpack .../75-python3-lz4_4.0.2+dfsg-1build4_s390x.deb ... 130s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ... 130s Selecting previously unselected package python3-unicodedata2. 130s Preparing to unpack .../76-python3-unicodedata2_15.1.0+ds-1build1_s390x.deb ... 130s Unpacking python3-unicodedata2 (15.1.0+ds-1build1) ... 130s Selecting previously unselected package unicode-data. 130s Preparing to unpack .../77-unicode-data_15.1.0-1_all.deb ... 130s Unpacking unicode-data (15.1.0-1) ... 130s Selecting previously unselected package python3-fonttools. 130s Preparing to unpack .../78-python3-fonttools_4.46.0-1build2_s390x.deb ... 130s Unpacking python3-fonttools (4.46.0-1build2) ... 130s Selecting previously unselected package python3-kiwisolver. 130s Preparing to unpack .../79-python3-kiwisolver_1.4.7-2_s390x.deb ... 130s Unpacking python3-kiwisolver (1.4.7-2) ... 130s Selecting previously unselected package python3-packaging. 130s Preparing to unpack .../80-python3-packaging_24.1-1_all.deb ... 130s Unpacking python3-packaging (24.1-1) ... 130s Selecting previously unselected package python3-matplotlib. 130s Preparing to unpack .../81-python3-matplotlib_3.8.3-3_s390x.deb ... 130s Unpacking python3-matplotlib (3.8.3-3) ... 131s Selecting previously unselected package python3-pandas-lib:s390x. 131s Preparing to unpack .../82-python3-pandas-lib_2.2.3+dfsg-5_s390x.deb ... 131s Unpacking python3-pandas-lib:s390x (2.2.3+dfsg-5) ... 131s Selecting previously unselected package python3-pandas. 131s Preparing to unpack .../83-python3-pandas_2.2.3+dfsg-5_all.deb ... 131s Unpacking python3-pandas (2.2.3+dfsg-5) ... 131s Selecting previously unselected package python3-treetime. 131s Preparing to unpack .../84-python3-treetime_0.11.4-1_all.deb ... 131s Unpacking python3-treetime (0.11.4-1) ... 131s Selecting previously unselected package autopkgtest-satdep. 131s Preparing to unpack .../85-1-autopkgtest-satdep.deb ... 131s Unpacking autopkgtest-satdep (0) ... 131s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 131s Setting up liblcms2-2:s390x (2.16-2) ... 131s Setting up libpixman-1-0:s390x (0.44.0-3) ... 131s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 131s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 131s Setting up python3-lz4 (4.0.2+dfsg-1build4) ... 131s Setting up libxcb-render0:s390x (1.17.0-2) ... 131s Setting up python3-unicodedata2 (15.1.0+ds-1build1) ... 131s Setting up fonts-lyx (2.4.2.1-1) ... 131s Setting up x11-common (1:7.7+23ubuntu3) ... 131s Setting up libdeflate0:s390x (1.22-1) ... 131s Setting up libqhull-r8.0:s390x (2020.2-6build1) ... 131s Setting up libxcb-shm0:s390x (1.17.0-2) ... 131s Setting up libgomp1:s390x (14.2.0-8ubuntu1) ... 131s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 131s Setting up python3-tz (2024.1-2) ... 131s Setting up unicode-data (15.1.0-1) ... 131s Setting up python3-six (1.16.0-7) ... 131s Setting up python3-decorator (5.1.1-5) ... 131s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 131s Setting up libblas3:s390x (3.12.0-3build2) ... 131s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 131s Setting up python3-packaging (24.1-1) ... 132s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 132s Setting up python3-brotli (1.1.0-2build2) ... 132s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 132s Setting up python3-cycler (0.12.1-1) ... 132s Setting up libimagequant0:s390x (2.18.0-1build1) ... 132s Setting up fonts-dejavu-mono (2.37-8) ... 132s Setting up python3-kiwisolver (1.4.7-2) ... 132s Setting up libtcl8.6:s390x (8.6.15+dfsg-2) ... 132s Setting up fonts-dejavu-core (2.37-8) ... 132s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 132s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 132s Setting up libwebp7:s390x (1.4.0-0.1) ... 132s Setting up libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 132s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 132s Setting up libharfbuzz0b:s390x (10.0.1-1) ... 132s Setting up python3-dateutil (2.9.0-2) ... 132s Setting up sgml-base (1.31) ... 132s Setting up libxss1:s390x (1:1.2.3-1build3) ... 132s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 132s Setting up python3-mpmath (1.3.0-1) ... 132s Setting up python-matplotlib-data (3.8.3-3) ... 132s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 132s Setting up python3-appdirs (1.4.4-4) ... 133s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 133s Setting up python3-sympy (1.13.3-1) ... 139s Setting up liblapack3:s390x (3.12.0-3build2) ... 139s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 139s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 139s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 139s Setting up python3-freetype (2.5.1-1) ... 140s Setting up xfonts-utils (1:7.7+7) ... 140s Setting up python3-fs (2.4.16-4) ... 140s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 140s Setting up libraqm0:s390x (0.10.1-1build1) ... 140s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 142s Setting up python3-lxml:s390x (5.3.0-1) ... 142s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 142s Setting up xml-core (0.19) ... 142s Setting up python3-contourpy (1.3.0-2) ... 142s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 142s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 142s Setting up libxft2:s390x (2.3.6-1build1) ... 142s Setting up python3-scipy (1.13.1-5) ... 146s Setting up libtk8.6:s390x (8.6.15-1) ... 146s Setting up python3-pandas-lib:s390x (2.2.3+dfsg-5) ... 146s Setting up python3.12-tk (3.12.7-3) ... 146s Setting up fonts-urw-base35 (20200910-8) ... 146s Setting up libcairo2:s390x (1.18.2-2) ... 146s Setting up python3.13-tk (3.13.0-2) ... 146s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 147s Setting up python3-pandas (2.2.3+dfsg-5) ... 154s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 154s Setting up python3-cairo (1.26.1-2) ... 154s Setting up blt (2.5.3+dfsg-7build1) ... 154s Setting up python3-tk:s390x (3.12.7-1) ... 154s Setting up python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 154s Setting up python3-rlpycairo (0.3.0-3) ... 154s Setting up python3-reportlab (4.2.5-1) ... 155s Setting up python3-fonttools (4.46.0-1build2) ... 156s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 156s Setting up python3-matplotlib (3.8.3-3) ... 157s Processing triggers for libc-bin (2.40-1ubuntu3) ... 157s Processing triggers for man-db (2.12.1-3) ... 158s Processing triggers for sgml-base (1.31) ... 158s Setting up w3c-sgml-lib (1.3-3) ... 180s Setting up python3-biopython (1.84+dfsg-4) ... 182s Setting up python3-treetime (0.11.4-1) ... 182s Setting up autopkgtest-satdep (0) ... 185s (Reading database ... 66273 files and directories currently installed.) 185s Removing autopkgtest-satdep (0) ... 185s autopkgtest [13:06:00]: test run-unit-test: [----------------------- 186s 186s 0.00 -TreeAnc: set-up 186s read alignment from file h3n2_na/h3n2_na_20.fasta with 19 sequences of length 1407 186s read tree from file h3n2_na/h3n2_na_20.nwk with 19 leaves 186s 186s inferring ancestral sequences... 186s ...done. 186s 186s The TOTAL tree length is 1.311e-01 and 183 mutations were observed. 186s Of these 183 mutations, 186s - 148 occur 1 times 186s - 16 occur 2 times 186s - 1 occur 3 times 186s 186s Of the 1407 positions in the genome, 186s - 1237 were hit 0 times (expected 1235.40) 186s - 124 were hit 1 times (expected 160.68) 186s - 25 were hit 2 times (expected 10.45) 186s - 3 were hit 3 times (expected 0.45) 186s 186s log-likelihood difference to Poisson distribution with same mean: -1.226e+01 186s 186s 186s The ten most homoplasic mutations are: 186s mut multiplicity 186s G27A 3 186s A88G 2 186s A267G 2 186s G451R 2 186s G629A 2 186s C763T 2 186s G780A 2 186s C825T 2 186s C891A 2 186s C906T 2 187s homoplasy_scanning ok 187s 187s 0.00 -TreeAnc: set-up 187s 187s Inferred sequence evolution model (saved as 2024-11-13_ancestral/sequence_evolution_model.txt): 187s Substitution rate (mu): 1.0 187s 187s Equilibrium frequencies (pi_i): 187s A: 0.3062 187s C: 0.1925 187s G: 0.2336 187s T: 0.2577 187s -: 0.01 187s 187s Symmetrized rates from j->i (W_ij): 187s A C G T - 187s A 0 0.8311 2.7926 0.4496 1.0287 187s C 0.8311 0 0.577 2.8797 1.0535 187s G 2.7926 0.577 0 0.612 1.0437 187s T 0.4496 2.8797 0.612 0 1.0394 187s - 1.0287 1.0535 1.0437 1.0394 0 187s 187s Actual rates from j->i (Q_ij): 187s A C G T - 187s A 0 0.2545 0.8551 0.1377 0.315 187s C 0.16 0 0.1111 0.5543 0.2028 187s G 0.6523 0.1348 0 0.143 0.2438 187s T 0.1159 0.7421 0.1577 0 0.2678 187s - 0.0103 0.0106 0.0105 0.0104 0 187s 187s 187s --- alignment including ancestral nodes saved as 187s 2024-11-13_ancestral/ancestral_sequences.fasta 187s 187s --- tree saved in nexus format as 187s 2024-11-13_ancestral/annotated_tree.nexus 187s 187s --- tree saved in auspice json format as 187s 2024-11-13_ancestral/auspice_tree.json 187s 187s ancestral_reconstruction ok 188s 188s 0.00 -TreeAnc: set-up 188s 188s Attempting to parse dates... 188s Using column 'name' as name. This needs match the taxon names in the tree!! 188s Using column 'date' as date. 188s 188s 0.00 TreeTime.reroot: with method or node: least-squares 188s 188s 0.00 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 188s 188s 0.02 TreeTime.reroot: with method or node: least-squares 188s 188s 0.02 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 188s 188s 0.04 TreeTime.reroot: with method or node: least-squares 188s 188s 0.04 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 188s 188s Root-Tip-Regression: 188s --rate: 2.826e-03 188s --r^2: 0.98 188s 188s The R^2 value indicates the fraction of variation inroot-to-tip 188s distance explained by the sampling times.Higher values corresponds 188s more clock-like behavior (max 1.0). 188s 188s The rate is the slope of the best fit of the date tothe root-to-tip 188s distance and provides an estimate ofthe substitution rate. The rate 188s needs to be positive!Negative rates suggest an inappropriate root. 188s 188s 188s The estimated rate and tree correspond to a root date: 188s 188s --- root-date: 1996.75 188s 188s 188s --- new tree written to 188s 2024-11-13_clock/rerooted.newick 188s 188s --- wrote dates and root-to-tip distances to 188s 2024-11-13_clock/rtt.csv 188s 188s --- root-to-tip plot saved to 188s 2024-11-13_clock/root_to_tip_regression.pdf 189s temporal_signal ok 193s 193s Attempting to parse dates... 193s Using column 'name' as name. This needs match the taxon names in the tree!! 193s Using column 'date' as date. 193s 193s 0.00 -TreeAnc: set-up 193s 193s 0.07 TreeTime.reroot: with method or node: least-squares 193s 193s 0.07 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 193s 193s 0.09 TreeTime.reroot: with method or node: least-squares 193s 193s 0.09 TreeTime.reroot: rerooting will account for covariance and shared ancestry. 193s 193s 0.15 ###TreeTime.run: INITIAL ROUND 193s 193s 0.72 TreeTime.reroot: with method or node: least-squares 193s 193s 0.72 TreeTime.reroot: rerooting will account for covariance and shared ancestry. 193s 193s 0.75 ###TreeTime.run: rerunning timetree after rerooting 193s 193s 1.22 ###TreeTime.run: ITERATION 1 out of 2 iterations 193s 193s 1.22 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 193s polytomies using the old 'greedy' mode. This is not well suited for large 193s polytomies. Stochastic resolution will become the default in future 193s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 193s keep using the greedy method in the future, run with `--greedy-resolve` 193s 193s 1.68 ###TreeTime.run: CONVERGED 193s 193s 3.21 ###TreeTime.run: FINAL ROUND - confidence estimation via marginal 193s reconstruction 193s 193s Inferred sequence evolution model (saved as 2024-11-13_treetime/sequence_evolution_model.txt): 193s Substitution rate (mu): 1.0 193s 193s Equilibrium frequencies (pi_i): 193s A: 0.3088 193s C: 0.1897 193s G: 0.2335 193s T: 0.2581 193s -: 0.0099 193s 193s Symmetrized rates from j->i (W_ij): 193s A C G T - 193s A 0 0.7003 3.0669 0.2651 0.9742 193s C 0.7003 0 0.3354 3.399 0.999 193s G 3.0669 0.3354 0 0.4258 0.9892 193s T 0.2651 3.399 0.4258 0 0.9848 193s - 0.9742 0.999 0.9892 0.9848 0 193s 193s Actual rates from j->i (Q_ij): 193s A C G T - 193s A 0 0.2163 0.9472 0.0819 0.3009 193s C 0.1328 0 0.0636 0.6448 0.1895 193s G 0.716 0.0783 0 0.0994 0.2309 193s T 0.0684 0.8772 0.1099 0 0.2541 193s - 0.0097 0.0099 0.0098 0.0098 0 193s 193s 193s Inferred sequence evolution model (saved as 2024-11-13_treetime/molecular_clock.txt): 193s Root-Tip-Regression: 193s --rate: 2.733e-03 +/- 4.02e-04 (one std-dev) 193s --chi^2: 14.45 193s --r^2: 0.96 193s 193s --- saved tree as 193s 2024-11-13_treetime/timetree.pdf 193s 193s --- root-to-tip plot saved to 193s 2024-11-13_treetime/root_to_tip_regression.pdf 193s 193s --- alignment including ancestral nodes saved as 193s 2024-11-13_treetime/ancestral_sequences.fasta 193s 193s --- saved divergence times in 193s 2024-11-13_treetime/dates.tsv 193s 193s --- tree saved in nexus format as 193s 2024-11-13_treetime/timetree.nexus 193s 193s --- tree saved in auspice json format as 193s 2024-11-13_treetime/auspice_tree.json 193s 193s --- divergence tree saved in nexus format as 193s 2024-11-13_treetime/divergence_tree.nexus 193s 193s timetree_inference ok 194s /usr/lib/python3/dist-packages/treetime/wrappers.py:587: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]` 194s weight_dict = {row[0]:row[1] for ri,row in tmp_weights.iterrows() if not np.isnan(row[1])} 195s Using column '#name' as taxon name. This needs to match the taxa in the tree! 195s Assigned discrete traits to 86 out of 86 taxa. 195s 195s 195s Completed mugration model inference of attribute 'country' for zika/zika.nwk 195s 195s Saved inferred mugration model as: 2024-11-13_mugration/GTR.txt 195s Saved annotated tree as: 2024-11-13_mugration/annotated_tree.nexus 195s ---Done! 195s 195s mugration ok 237s 237s Attempting to parse dates... 237s Using column 'strain' as name. This needs match the taxon names in the tree!! 237s Using column 'date' as date. 237s 237s 0.00 -TreeAnc: set-up 237s 237s 5.04 TreeTime.reroot: with method or node: least-squares 237s 237s 5.04 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 237s 237s 5.20 TreeTime.reroot: with method or node: least-squares 237s 237s 5.20 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 237s 237s 6.07 ###TreeTime.run: INITIAL ROUND 237s 237s 12.61 TreeTime.reroot: with method or node: least-squares 237s 237s 12.61 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 237s 237s 12.74 ###TreeTime.run: rerunning timetree after rerooting 237s 237s 19.56 ###TreeTime.run: ITERATION 1 out of 2 iterations 237s 237s 19.56 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 237s polytomies using the old 'greedy' mode. This is not well suited for large 237s polytomies. Stochastic resolution will become the default in future 237s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 237s keep using the greedy method in the future, run with `--greedy-resolve` 237s 237s 28.34 ###TreeTime.run: ITERATION 2 out of 2 iterations 237s 237s 36.66 TreeTime: the following tips have been marked as outliers. Their date 237s constraints were not used. Please remove them from the tree. Their dates 237s have been reset: 237s 237s 36.66 G22619, input date: [2011.0013698630137, 2011.9986301369863], apparent 237s date: 1987.89 237s 237s 36.66 G22703, input date: [2004.0013661202186, 2004.9986338797814], apparent 237s date: 2012.13 237s 237s Inferred sequence evolution model (saved as 2024-11-13-0001_treetime/sequence_evolution_model.txt): 237s Substitution rate (mu): 1.0 237s 237s Equilibrium frequencies (pi_i): 237s A: 0.1669 237s C: 0.3286 237s G: 0.3273 237s T: 0.1669 237s -: 0.0103 237s 237s Symmetrized rates from j->i (W_ij): 237s A C G T - 237s A 0 0.7503 1.6677 0.312 35.7144 237s C 0.7503 0 0.3143 1.4117 35.7541 237s G 1.6677 0.3143 0 0.7444 49.2713 237s T 0.312 1.4117 0.7444 0 32.0818 237s - 35.7144 35.7541 49.2713 32.0818 0 237s 237s Actual rates from j->i (Q_ij): 237s A C G T - 237s A 0 0.1252 0.2784 0.0521 5.9611 237s C 0.2465 0 0.1033 0.4638 11.7479 237s G 0.5459 0.1029 0 0.2437 16.1277 237s T 0.0521 0.2356 0.1242 0 5.3538 237s - 0.3682 0.3686 0.508 0.3307 0 237s 237s 237s Inferred sequence evolution model (saved as 2024-11-13-0001_treetime/molecular_clock.txt): 237s Root-Tip-Regression: 237s --rate: 1.000e-07 237s --r^2: 0.32 237s 237s --- saved tree as 237s 2024-11-13-0001_treetime/timetree.pdf 237s 237s --- root-to-tip plot saved to 237s 2024-11-13-0001_treetime/root_to_tip_regression.pdf 237s Sites that were constant except for ambiguous bases were made constant 237s by TreeTime. This happened 1343 times. These sites are now excluded 237s from the VCF. 237s 237s ***WARNING: vcf_utils.py 237s 52 sites were found that had no alternative bases. If this data has 237s been run through TreeTime and contains ambiguous bases, try calling 237s get_tree_dict with var_ambigs=True to see if this clears the error. 237s Alternative causes: - Not all sequences in your alignment are in the 237s tree (if you are running TreeTime via commandline this is most likely) 237s - In TreeTime, can be caused by overwriting variants in tips with 237s small branch lengths (debug) These are the positions affected 237s (numbering starts at 0): 237s 46593, 52473, 165918, 304891, 662240, 954864, 954865, 954866, 954867, 237s 963561, 1046706, 1145470, 1321893, 1468105, 1468106, 1512661, 1704463, 237s 1716723, 1743968, 1951837, 2129868, 2215816, 2274543, 2515984, 237s 2580886, 2626512, 2626513, 2626599, 2686156, 2736331, 2823901, 237s 2869282, 2894207, 2911378, 3047997, 3160385, 3314001, 3321447, 237s 3336505, 3461793, 3490408, 3618189, 3734466, 3764813, 3828626, 237s 3842630, 3894439, 3912292, 3913650, 3956227, 4149358, 4183687 237s 237s --- alignment including ancestral nodes saved as 237s 2024-11-13-0001_treetime/ancestral_sequences.vcf 237s 237s --- saved divergence times in 237s 2024-11-13-0001_treetime/dates.tsv 237s 237s --- tree saved in nexus format as 237s 2024-11-13-0001_treetime/timetree.nexus 237s 237s --- tree saved in auspice json format as 237s 2024-11-13-0001_treetime/auspice_tree.json 237s 237s --- divergence tree saved in nexus format as 237s 2024-11-13-0001_treetime/divergence_tree.nexus 237s 237s --- saved detected outliers as 2024-11-13-0001_treetime/outliers.tsv 237s timetree_inference on vcf data ok 323s 323s Attempting to parse dates... 323s Using column 'name' as name. This needs match the taxon names in the tree!! 323s Using column 'date' as date. 323s 323s 0.00 -TreeAnc: set-up 323s 323s 3.16 -WARNING: character U is unknown. Treating it as missing information 323s 323s 11.77 TreeTime.reroot: with method or node: least-squares 323s 323s 11.77 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 323s 323s 12.18 TreeTime.reroot: with method or node: least-squares 323s 323s 12.18 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 323s 323s 17.12 ###TreeTime.run: INITIAL ROUND 323s 323s 24.95 TreeTime.reroot: with method or node: least-squares 323s 323s 24.96 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 323s 323s 25.27 ###TreeTime.run: rerunning timetree after rerooting 323s 323s 35.13 ###TreeTime.run: ITERATION 1 out of 2 iterations 323s 323s 35.60 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 323s polytomies using the old 'greedy' mode. This is not well suited for large 323s polytomies. Stochastic resolution will become the default in future 323s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 323s keep using the greedy method in the future, run with `--greedy-resolve` 323s 323s 51.68 ###TreeTime.run: ITERATION 2 out of 2 iterations 323s 323s 80.93 TreeTime: the following tips have been marked as outliers. Their date 323s constraints were not used. Please remove them from the tree. Their dates 323s have been reset: 323s 323s 80.93 EM_NG_2016_029366, input date: 2016.21, apparent date: 2015.07 323s 323s 80.93 EM_NG_2016_029364, input date: 2016.21, apparent date: 2015.07 323s 323s 80.93 EM_NG_2016_029417, input date: 2016.22, apparent date: 2015.07 323s 323s 80.93 NZG_0381, input date: 2016.23, apparent date: 2015.07 323s 323s 80.93 NZG_0393, input date: 2016.24, apparent date: 2015.10 323s 323s 80.93 NZG_0422, input date: 2016.25, apparent date: 2015.10 323s 323s 80.93 NZG_0358, input date: 2016.22, apparent date: 2015.10 323s 323s 80.93 2607_C2_12916_EMLH, input date: 2015.32, apparent date: 2015.38 323s 323s 80.93 2607_C2_12855_EMLH, input date: 2015.28, apparent date: 2015.38 323s 323s 80.93 1708_C1_13031_EMLH, input date: 2015.38, apparent date: 2015.48 323s 323s 80.93 1507_C1_18650_EMLH, input date: 2015.52, apparent date: 2015.75 323s 323s 80.93 1507_C1_18706_EMLH, input date: 2015.53, apparent date: 2015.75 323s 323s 80.93 0208_C1_MK10173, input date: 2015.58, apparent date: 2015.75 323s 323s 80.93 2208_C2_18659R_EMLH, input date: 2015.52, apparent date: 2015.88 323s 323s 80.93 1507_C1_13268_EMLH, input date: 2015.47, apparent date: 2015.82 323s 323s 80.93 1507_C1_18660_EMLH, input date: 2015.52, apparent date: 2015.82 323s 323s 80.93 1507_C1_18647_EMLH, input date: 2015.52, apparent date: 2015.68 323s 323s 80.93 2208_C2_18642R_EMLH, input date: 2015.51, apparent date: 2015.82 323s 323s 80.93 1507_C1_18636_EMLH, input date: 2015.51, apparent date: 2015.88 323s 323s 80.93 2208_C2_18687R_EMLH, input date: 2015.53, apparent date: 2015.88 323s 323s Inferred sequence evolution model (saved as 2024-11-13-0002_treetime/sequence_evolution_model.txt): 323s Substitution rate (mu): 1.0 323s 323s Equilibrium frequencies (pi_i): 323s A: 0.3139 323s C: 0.2145 323s G: 0.1979 323s T: 0.2639 323s -: 0.01 323s 323s Symmetrized rates from j->i (W_ij): 323s A C G T - 323s A 0 0.3828 2.529 0.2295 6.7698 323s C 0.3828 0 0.1692 3.5617 12.1437 323s G 2.529 0.1692 0 0.3726 5.2801 323s T 0.2295 3.5617 0.3726 0 27.6482 323s - 6.7698 12.1437 5.2801 27.6482 0 323s 323s Actual rates from j->i (Q_ij): 323s A C G T - 323s A 0 0.1202 0.7938 0.072 2.125 323s C 0.0821 0 0.0363 0.7638 2.6042 323s G 0.5004 0.0335 0 0.0737 1.0447 323s T 0.0606 0.9398 0.0983 0 7.2951 323s - 0.0674 0.1208 0.0525 0.2751 0 323s 323s 323s Inferred sequence evolution model (saved as 2024-11-13-0002_treetime/molecular_clock.txt): 323s Root-Tip-Regression: 323s --rate: 7.885e-04 323s --r^2: 0.80 323s 323s Inferred coalescent model 323s Skyline assuming 100.0 gen/year and approximate confidence bounds (+/- 2.000000 standard deviations of the LH) 323s date N_e lower upper 323s 2013.979 3.400e+01 1.400e+01 8.257e+01 323s 2014.076 6.049e+01 3.338e+01 1.096e+02 323s 2014.172 1.333e+02 8.282e+01 2.146e+02 323s 2014.268 1.283e+02 7.435e+01 2.213e+02 323s 2014.365 7.558e+01 4.702e+01 1.215e+02 323s 2014.461 2.212e+02 1.563e+02 3.130e+02 323s 2014.557 4.263e+02 3.015e+02 6.029e+02 323s 2014.654 2.615e+03 1.795e+03 3.808e+03 323s 2014.750 2.308e+03 1.396e+03 3.813e+03 323s 2014.847 1.231e+03 7.208e+02 2.103e+03 323s 2014.943 6.545e+02 4.040e+02 1.060e+03 323s 2015.039 3.951e+02 2.462e+02 6.342e+02 323s 2015.136 5.224e+02 3.377e+02 8.082e+02 323s 2015.232 3.274e+02 2.047e+02 5.235e+02 323s 2015.328 2.308e+02 1.440e+02 3.699e+02 323s 2015.425 1.658e+02 1.048e+02 2.622e+02 323s 2015.521 1.241e+02 7.652e+01 2.014e+02 323s 2015.617 1.271e+02 7.767e+01 2.081e+02 323s 2015.714 4.670e+01 2.486e+01 8.775e+01 323s 2015.810 1.550e+01 5.983e+00 4.016e+01 323s 323s --- written skyline to 2024-11-13-0002_treetime/skyline.tsv 323s 323s --- saved tree as 323s 2024-11-13-0002_treetime/timetree.pdf 323s 323s --- root-to-tip plot saved to 323s 2024-11-13-0002_treetime/root_to_tip_regression.pdf 323s 323s --- alignment including ancestral nodes saved as 323s 2024-11-13-0002_treetime/ancestral_sequences.fasta 323s 323s --- saved divergence times in 323s 2024-11-13-0002_treetime/dates.tsv 323s 323s --- tree saved in nexus format as 323s 2024-11-13-0002_treetime/timetree.nexus 323s 323s --- tree saved in auspice json format as 323s 2024-11-13-0002_treetime/auspice_tree.json 323s 323s --- divergence tree saved in nexus format as 323s 2024-11-13-0002_treetime/divergence_tree.nexus 323s 323s --- saved detected outliers as 2024-11-13-0002_treetime/outliers.tsv 323s skyline approximation ok 346s 346s Attempting to parse dates... 346s Using column 'name' as name. This needs match the taxon names in the tree!! 346s Using column 'date' as date. 346s 346s 0.00 -TreeAnc: set-up 346s 346s 0.05 TreeTime.reroot: with method or node: least-squares 346s 346s 0.05 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 346s 346s 0.49 TreeTime.reroot: with method or node: least-squares 346s 346s 0.49 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 346s 346s 0.83 ###TreeTime.run: INITIAL ROUND 346s 346s 6.85 TreeTime.reroot: with method or node: least-squares 346s 346s 6.85 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 346s 346s 7.22 ###TreeTime.run: rerunning timetree after rerooting 346s 346s 13.47 ###TreeTime.run: ITERATION 1 out of 2 iterations 346s 346s 13.47 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 346s polytomies using the old 'greedy' mode. This is not well suited for large 346s polytomies. Stochastic resolution will become the default in future 346s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 346s keep using the greedy method in the future, run with `--greedy-resolve` 346s 346s 20.49 ###TreeTime.run: CONVERGED 346s 346s 20.49 TreeTime: the following tips have been marked as outliers. Their date 346s constraints were not used. Please remove them from the tree. Their dates 346s have been reset: 346s 346s 20.49 NZG_0393, input date: 2016.24, apparent date: 2015.26 346s 346s 20.49 NZG_0422, input date: 2016.25, apparent date: 2015.26 346s 346s 20.49 NZG_0358, input date: 2016.22, apparent date: 2015.26 346s 346s 20.49 EM_NG_2016_029366, input date: 2016.21, apparent date: 2015.19 346s 346s 20.49 EM_NG_2016_029364, input date: 2016.21, apparent date: 2015.19 346s 346s 20.49 EM_NG_2016_029417, input date: 2016.22, apparent date: 2015.19 346s 346s 20.49 NZG_0381, input date: 2016.23, apparent date: 2015.19 346s 346s 20.49 1708_C1_13031_EMLH, input date: 2015.38, apparent date: 2015.40 346s 346s 20.49 1507_C1_18660_EMLH, input date: 2015.52, apparent date: 2015.81 346s 346s 20.49 2208_C2_18642R_EMLH, input date: 2015.51, apparent date: 2015.81 346s 346s 20.49 1507_C1_18636_EMLH, input date: 2015.51, apparent date: 2015.87 346s 346s 20.49 2208_C2_18687R_EMLH, input date: 2015.53, apparent date: 2015.87 346s 346s 20.49 1507_C1_18650_EMLH, input date: 2015.52, apparent date: 2015.74 346s 346s 20.49 1507_C1_13268_EMLH, input date: 2015.47, apparent date: 2015.81 346s 346s 20.49 1507_C1_18647_EMLH, input date: 2015.52, apparent date: 2015.68 346s 346s 20.49 0208_C1_MK10173, input date: 2015.58, apparent date: 2015.74 346s 346s 20.49 1507_C1_18706_EMLH, input date: 2015.53, apparent date: 2015.74 346s 346s 20.49 2208_C2_18659R_EMLH, input date: 2015.52, apparent date: 2015.87 346s 346s Inferred sequence evolution model (saved as 2024-11-13-0003_treetime/sequence_evolution_model.txt): 346s Substitution rate (mu): 1.0 346s 346s Equilibrium frequencies (pi_i): 346s A: 0.2 346s C: 0.2 346s G: 0.2 346s T: 0.2 346s -: 0.2 346s 346s Symmetrized rates from j->i (W_ij): 346s A C G T - 346s A 0 1.25 1.25 1.25 1.25 346s C 1.25 0 1.25 1.25 1.25 346s G 1.25 1.25 0 1.25 1.25 346s T 1.25 1.25 1.25 0 1.25 346s - 1.25 1.25 1.25 1.25 0 346s 346s Actual rates from j->i (Q_ij): 346s A C G T - 346s A 0 0.25 0.25 0.25 0.25 346s C 0.25 0 0.25 0.25 0.25 346s G 0.25 0.25 0 0.25 0.25 346s T 0.25 0.25 0.25 0 0.25 346s - 0.25 0.25 0.25 0.25 0 346s 346s 346s Inferred sequence evolution model (saved as 2024-11-13-0003_treetime/molecular_clock.txt): 346s Root-Tip-Regression: 346s --rate: 8.047e-04 346s --r^2: 0.79 346s 346s --- saved tree as 346s 2024-11-13-0003_treetime/timetree.pdf 346s 346s --- root-to-tip plot saved to 346s 2024-11-13-0003_treetime/root_to_tip_regression.pdf 346s --- saved divergence times in 346s 2024-11-13-0003_treetime/dates.tsv 346s 346s --- tree saved in nexus format as 346s 2024-11-13-0003_treetime/timetree.nexus 346s 346s --- tree saved in auspice json format as 346s 2024-11-13-0003_treetime/auspice_tree.json 346s 346s --- divergence tree saved in nexus format as 346s 2024-11-13-0003_treetime/divergence_tree.nexus 346s 346s --- saved detected outliers as 2024-11-13-0003_treetime/outliers.tsv 346s sequence length only ok 346s All tests passed 347s autopkgtest [13:08:42]: test run-unit-test: -----------------------] 347s autopkgtest [13:08:42]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 347s run-unit-test PASS 347s autopkgtest [13:08:42]: test autodep8-python3: preparing testbed 470s autopkgtest [13:10:45]: testbed dpkg architecture: s390x 470s autopkgtest [13:10:45]: testbed apt version: 2.9.8 470s autopkgtest [13:10:45]: @@@@@@@@@@@@@@@@@@@@ test bed setup 471s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 471s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 471s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [967 kB] 471s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.5 kB] 471s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [104 kB] 471s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [107 kB] 471s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [641 kB] 471s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [17.4 kB] 472s Fetched 1934 kB in 1s (2186 kB/s) 472s Reading package lists... 474s Reading package lists... 474s Building dependency tree... 474s Reading state information... 474s Calculating upgrade... 474s The following NEW packages will be installed: 474s python3.13-gdbm 474s The following packages will be upgraded: 474s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 474s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 474s Need to get 252 kB of archives. 474s After this operation, 98.3 kB of additional disk space will be used. 474s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-minimal s390x 3.12.7-1 [27.4 kB] 474s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3 s390x 3.12.7-1 [24.0 kB] 474s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libpython3-stdlib s390x 3.12.7-1 [10.0 kB] 474s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-gdbm s390x 3.13.0-2 [31.0 kB] 474s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-gdbm s390x 3.12.7-1 [8642 B] 474s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libgpgme11t64 s390x 1.23.2-5ubuntu4 [151 kB] 475s Fetched 252 kB in 0s (619 kB/s) 475s (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 ... 55510 files and directories currently installed.) 475s Preparing to unpack .../python3-minimal_3.12.7-1_s390x.deb ... 475s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 475s Setting up python3-minimal (3.12.7-1) ... 475s (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 ... 55510 files and directories currently installed.) 475s Preparing to unpack .../python3_3.12.7-1_s390x.deb ... 475s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 475s Preparing to unpack .../libpython3-stdlib_3.12.7-1_s390x.deb ... 475s Unpacking libpython3-stdlib:s390x (3.12.7-1) over (3.12.6-0ubuntu1) ... 475s Selecting previously unselected package python3.13-gdbm. 475s Preparing to unpack .../python3.13-gdbm_3.13.0-2_s390x.deb ... 475s Unpacking python3.13-gdbm (3.13.0-2) ... 475s Preparing to unpack .../python3-gdbm_3.12.7-1_s390x.deb ... 475s Unpacking python3-gdbm:s390x (3.12.7-1) over (3.12.6-1ubuntu1) ... 475s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_s390x.deb ... 475s Unpacking libgpgme11t64:s390x (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 475s Setting up libgpgme11t64:s390x (1.23.2-5ubuntu4) ... 475s Setting up python3.13-gdbm (3.13.0-2) ... 475s Setting up libpython3-stdlib:s390x (3.12.7-1) ... 475s Setting up python3 (3.12.7-1) ... 475s Setting up python3-gdbm:s390x (3.12.7-1) ... 475s Processing triggers for man-db (2.12.1-3) ... 476s Processing triggers for libc-bin (2.40-1ubuntu3) ... 476s Reading package lists... 476s Building dependency tree... 476s Reading state information... 476s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 477s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 477s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 477s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 477s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 478s Reading package lists... 478s Reading package lists... 478s Building dependency tree... 478s Reading state information... 478s Calculating upgrade... 478s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 478s Reading package lists... 478s Building dependency tree... 478s Reading state information... 479s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 483s Reading package lists... 483s Building dependency tree... 483s Reading state information... 483s Starting pkgProblemResolver with broken count: 0 483s Starting 2 pkgProblemResolver with broken count: 0 483s Done 484s The following additional packages will be installed: 484s blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx 484s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 484s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 484s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui 484s liblapack3 liblbfgsb0 liblcms2-2 libopenjp2-7 libpixman-1-0 484s libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 484s libsharpyuv0 libtcl8.6 libtiff6 libtk8.6 libwebp7 libwebpdemux2 libwebpmux3 484s libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxslt1.1 libxss1 484s python-matplotlib-data python3-all python3-appdirs python3-biopython 484s python3-brotli python3-cairo python3-contourpy python3-cycler 484s python3-dateutil python3-decorator python3-fonttools python3-freetype 484s python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 484s python3-mpmath python3-numpy python3-packaging python3-pandas 484s python3-pandas-lib python3-pil python3-pil.imagetk python3-reportlab 484s python3-rlpycairo python3-scipy python3-six python3-sympy python3-tk 484s python3-treetime python3-tz python3-ufolib2 python3.12-tk python3.13 484s python3.13-minimal python3.13-tk sgml-base tk8.6-blt2.5 unicode-data 484s w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 484s Suggested packages: 484s blt-demo fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre 484s libjs-jquery-ui-docs liblcms2-utils tcl8.6 tk8.6 bwa clustalo clustalw 484s dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons 484s python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 raxml samtools 484s t-coffee wise python-cycler-doc python-lxml-doc cm-super-minimal dvipng 484s ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 484s librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi-cairo 484s python3-gobject python3-pyqt5 python3-sip python3-tornado 484s texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gcc 484s gfortran python-numpy-doc python3-dev python3-pytest python-pandas-doc 484s python3-statsmodels python-pil-doc pdf-viewer python3-egenix-mxtexttools 484s python-reportlab-doc rl-accel rl-renderpm python-scipy-doc 484s texlive-fonts-extra python-sympy-doc tix python3-tk-dbg python3.13-venv 484s python3.13-doc binfmt-support sgml-base-doc debhelper 484s Recommended packages: 484s javascript-common python-biopython-doc ncbi-blast+ python3-bs4 484s python3-cssselect python3-html5lib python3-bottleneck python3-numexpr 484s python3-odf python3-openpyxl python3-tables python3-olefile 484s fonts-dejavu-extra g++ | c++-compiler isympy-common 484s The following NEW packages will be installed: 484s autopkgtest-satdep blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono 484s fonts-lyx fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 484s libfontenc1 libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 484s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui 484s liblapack3 liblbfgsb0 liblcms2-2 libopenjp2-7 libpixman-1-0 484s libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 484s libsharpyuv0 libtcl8.6 libtiff6 libtk8.6 libwebp7 libwebpdemux2 libwebpmux3 484s libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxslt1.1 libxss1 484s python-matplotlib-data python3-all python3-appdirs python3-biopython 484s python3-brotli python3-cairo python3-contourpy python3-cycler 484s python3-dateutil python3-decorator python3-fonttools python3-freetype 484s python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 484s python3-mpmath python3-numpy python3-packaging python3-pandas 484s python3-pandas-lib python3-pil python3-pil.imagetk python3-reportlab 484s python3-rlpycairo python3-scipy python3-six python3-sympy python3-tk 484s python3-treetime python3-tz python3-ufolib2 python3.12-tk python3.13 484s python3.13-minimal python3.13-tk sgml-base tk8.6-blt2.5 unicode-data 484s w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 484s 0 upgraded, 90 newly installed, 0 to remove and 0 not upgraded. 484s Need to get 89.2 MB/89.2 MB of archives. 484s After this operation, 350 MB of additional disk space will be used. 484s Get:1 /tmp/autopkgtest.ePzQPP/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [720 B] 484s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-minimal s390x 3.13.0-2 [877 kB] 485s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-minimal s390x 3.13.0-2 [2172 kB] 485s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x sgml-base all 1.31 [11.4 kB] 485s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libtcl8.6 s390x 8.6.15+dfsg-2 [1034 kB] 485s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB] 485s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 485s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 485s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libfontenc1 s390x 1:1.1.8-1build1 [14.8 kB] 485s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB] 485s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 485s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x xfonts-utils s390x 1:7.7+7 [101 kB] 485s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 485s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu2 [37.4 kB] 485s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu2 [150 kB] 485s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB] 485s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libxft2 s390x 2.3.6-1build1 [49.6 kB] 485s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libxss1 s390x 1:1.2.3-1build3 [7396 B] 485s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x libtk8.6 s390x 8.6.15-1 [828 kB] 485s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x tk8.6-blt2.5 s390x 2.5.3+dfsg-7build1 [662 kB] 485s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x blt s390x 2.5.3+dfsg-7build1 [4840 B] 485s Get:22 http://ftpmaster.internal/ubuntu plucky/universe s390x fonts-lyx all 2.4.2.1-1 [171 kB] 485s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 485s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB] 485s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB] 485s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B] 485s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB] 485s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.22-1 [46.1 kB] 485s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 485s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 14.2.0-8ubuntu1 [151 kB] 485s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB] 485s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.0.1-1 [536 kB] 485s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libimagequant0 s390x 2.18.0-1build1 [43.3 kB] 485s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu2 [150 kB] 485s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 485s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 485s Get:37 http://ftpmaster.internal/ubuntu plucky/universe s390x libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 485s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 486s Get:39 http://ftpmaster.internal/ubuntu plucky/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1build1 [32.4 kB] 486s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x liblcms2-2 s390x 2.16-2 [175 kB] 486s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.13-stdlib s390x 3.13.0-2 [2086 kB] 486s Get:42 http://ftpmaster.internal/ubuntu plucky/universe s390x libqhull-r8.0 s390x 2020.2-6build1 [199 kB] 486s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x libraqm0 s390x 0.10.1-1build1 [16.2 kB] 486s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.4.0-0.1 [16.2 kB] 486s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB] 486s Get:46 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.4.0-0.1 [204 kB] 486s Get:47 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB] 486s Get:48 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpdemux2 s390x 1.4.0-0.1 [12.2 kB] 486s Get:49 http://ftpmaster.internal/ubuntu plucky/main s390x libwebpmux3 s390x 1.4.0-0.1 [25.3 kB] 486s Get:50 http://ftpmaster.internal/ubuntu plucky/main s390x libxslt1.1 s390x 1.1.39-0exp1ubuntu1 [169 kB] 486s Get:51 http://ftpmaster.internal/ubuntu plucky/universe s390x python-matplotlib-data all 3.8.3-3 [2928 kB] 486s Get:52 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13 s390x 3.13.0-2 [719 kB] 486s Get:53 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-all s390x 3.12.7-1 [890 B] 486s Get:54 http://ftpmaster.internal/ubuntu plucky/main s390x python3-appdirs all 1.4.4-4 [10.9 kB] 486s Get:55 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-11build1 [4113 kB] 486s Get:56 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-tk s390x 3.12.7-3 [117 kB] 486s Get:57 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-tk s390x 3.13.0-2 [107 kB] 486s Get:58 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x python3-tk s390x 3.12.7-1 [9750 B] 486s Get:59 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pil.imagetk s390x 10.4.0-1ubuntu1 [9314 B] 486s Get:60 http://ftpmaster.internal/ubuntu plucky/main s390x libopenjp2-7 s390x 2.5.0-2ubuntu1 [208 kB] 486s Get:61 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pil s390x 10.4.0-1ubuntu1 [492 kB] 486s Get:62 http://ftpmaster.internal/ubuntu plucky/main s390x python3-cairo s390x 1.26.1-2 [119 kB] 486s Get:63 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-freetype all 2.5.1-1 [92.3 kB] 486s Get:64 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 486s Get:65 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-reportlab all 4.2.5-1 [1107 kB] 486s Get:66 http://ftpmaster.internal/ubuntu plucky/main s390x xml-core all 0.19 [20.3 kB] 486s Get:67 http://ftpmaster.internal/ubuntu plucky/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 486s Get:68 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biopython s390x 1.84+dfsg-4 [1721 kB] 486s Get:69 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-brotli s390x 1.1.0-2build2 [376 kB] 486s Get:70 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-contourpy s390x 1.3.0-2 [195 kB] 486s Get:71 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-cycler all 0.12.1-1 [9716 B] 486s Get:72 http://ftpmaster.internal/ubuntu plucky/main s390x python3-six all 1.16.0-7 [13.1 kB] 486s Get:73 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dateutil all 2.9.0-2 [80.3 kB] 486s Get:74 http://ftpmaster.internal/ubuntu plucky/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 486s Get:75 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-scipy s390x 1.13.1-5 [17.5 MB] 487s Get:76 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 487s Get:77 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-mpmath all 1.3.0-1 [425 kB] 487s Get:78 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-sympy all 1.13.3-1 [4228 kB] 488s Get:79 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tz all 2024.1-2 [31.4 kB] 488s Get:80 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fs all 2.4.16-4 [91.3 kB] 488s Get:81 http://ftpmaster.internal/ubuntu plucky/main s390x python3-lxml s390x 5.3.0-1 [1314 kB] 488s Get:82 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-lz4 s390x 4.0.2+dfsg-1build4 [26.4 kB] 488s Get:83 http://ftpmaster.internal/ubuntu plucky/universe s390x unicode-data all 15.1.0-1 [8878 kB] 488s Get:84 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-fonttools s390x 4.46.0-1build2 [1453 kB] 488s Get:85 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-kiwisolver s390x 1.4.7-2 [54.9 kB] 488s Get:86 http://ftpmaster.internal/ubuntu plucky/main s390x python3-packaging all 24.1-1 [41.4 kB] 488s Get:87 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-matplotlib s390x 3.8.3-3 [4554 kB] 489s Get:88 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas-lib s390x 2.2.3+dfsg-5 [4938 kB] 489s Get:89 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas all 2.2.3+dfsg-5 [3112 kB] 489s Get:90 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-treetime all 0.11.4-1 [941 kB] 490s Fetched 89.2 MB in 5s (16.4 MB/s) 490s Selecting previously unselected package libpython3.13-minimal:s390x. 490s (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 ... 55517 files and directories currently installed.) 490s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_s390x.deb ... 490s Unpacking libpython3.13-minimal:s390x (3.13.0-2) ... 490s Selecting previously unselected package python3.13-minimal. 490s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_s390x.deb ... 490s Unpacking python3.13-minimal (3.13.0-2) ... 490s Selecting previously unselected package sgml-base. 490s Preparing to unpack .../02-sgml-base_1.31_all.deb ... 490s Unpacking sgml-base (1.31) ... 490s Selecting previously unselected package libtcl8.6:s390x. 490s Preparing to unpack .../03-libtcl8.6_8.6.15+dfsg-2_s390x.deb ... 490s Unpacking libtcl8.6:s390x (8.6.15+dfsg-2) ... 490s Selecting previously unselected package libfreetype6:s390x. 490s Preparing to unpack .../04-libfreetype6_2.13.3+dfsg-1_s390x.deb ... 490s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ... 490s Selecting previously unselected package fonts-dejavu-mono. 490s Preparing to unpack .../05-fonts-dejavu-mono_2.37-8_all.deb ... 490s Unpacking fonts-dejavu-mono (2.37-8) ... 490s Selecting previously unselected package fonts-dejavu-core. 490s Preparing to unpack .../06-fonts-dejavu-core_2.37-8_all.deb ... 490s Unpacking fonts-dejavu-core (2.37-8) ... 490s Selecting previously unselected package libfontenc1:s390x. 490s Preparing to unpack .../07-libfontenc1_1%3a1.1.8-1build1_s390x.deb ... 490s Unpacking libfontenc1:s390x (1:1.1.8-1build1) ... 490s Selecting previously unselected package x11-common. 490s Preparing to unpack .../08-x11-common_1%3a7.7+23ubuntu3_all.deb ... 490s Unpacking x11-common (1:7.7+23ubuntu3) ... 490s Selecting previously unselected package xfonts-encodings. 490s Preparing to unpack .../09-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 490s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 490s Selecting previously unselected package xfonts-utils. 490s Preparing to unpack .../10-xfonts-utils_1%3a7.7+7_s390x.deb ... 490s Unpacking xfonts-utils (1:7.7+7) ... 490s Selecting previously unselected package fonts-urw-base35. 490s Preparing to unpack .../11-fonts-urw-base35_20200910-8_all.deb ... 490s Unpacking fonts-urw-base35 (20200910-8) ... 490s Selecting previously unselected package fontconfig-config. 490s Preparing to unpack .../12-fontconfig-config_2.15.0-1.1ubuntu2_s390x.deb ... 490s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 490s Selecting previously unselected package libfontconfig1:s390x. 490s Preparing to unpack .../13-libfontconfig1_2.15.0-1.1ubuntu2_s390x.deb ... 490s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 490s Selecting previously unselected package libxrender1:s390x. 490s Preparing to unpack .../14-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ... 490s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ... 490s Selecting previously unselected package libxft2:s390x. 490s Preparing to unpack .../15-libxft2_2.3.6-1build1_s390x.deb ... 490s Unpacking libxft2:s390x (2.3.6-1build1) ... 490s Selecting previously unselected package libxss1:s390x. 490s Preparing to unpack .../16-libxss1_1%3a1.2.3-1build3_s390x.deb ... 490s Unpacking libxss1:s390x (1:1.2.3-1build3) ... 490s Selecting previously unselected package libtk8.6:s390x. 490s Preparing to unpack .../17-libtk8.6_8.6.15-1_s390x.deb ... 490s Unpacking libtk8.6:s390x (8.6.15-1) ... 490s Selecting previously unselected package tk8.6-blt2.5. 490s Preparing to unpack .../18-tk8.6-blt2.5_2.5.3+dfsg-7build1_s390x.deb ... 490s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 490s Selecting previously unselected package blt. 490s Preparing to unpack .../19-blt_2.5.3+dfsg-7build1_s390x.deb ... 490s Unpacking blt (2.5.3+dfsg-7build1) ... 490s Selecting previously unselected package fonts-lyx. 490s Preparing to unpack .../20-fonts-lyx_2.4.2.1-1_all.deb ... 490s Unpacking fonts-lyx (2.4.2.1-1) ... 490s Selecting previously unselected package libblas3:s390x. 490s Preparing to unpack .../21-libblas3_3.12.0-3build2_s390x.deb ... 490s Unpacking libblas3:s390x (3.12.0-3build2) ... 490s Selecting previously unselected package libpixman-1-0:s390x. 490s Preparing to unpack .../22-libpixman-1-0_0.44.0-3_s390x.deb ... 490s Unpacking libpixman-1-0:s390x (0.44.0-3) ... 490s Selecting previously unselected package libxcb-render0:s390x. 490s Preparing to unpack .../23-libxcb-render0_1.17.0-2_s390x.deb ... 490s Unpacking libxcb-render0:s390x (1.17.0-2) ... 490s Selecting previously unselected package libxcb-shm0:s390x. 490s Preparing to unpack .../24-libxcb-shm0_1.17.0-2_s390x.deb ... 490s Unpacking libxcb-shm0:s390x (1.17.0-2) ... 490s Selecting previously unselected package libcairo2:s390x. 490s Preparing to unpack .../25-libcairo2_1.18.2-2_s390x.deb ... 490s Unpacking libcairo2:s390x (1.18.2-2) ... 490s Selecting previously unselected package libdeflate0:s390x. 490s Preparing to unpack .../26-libdeflate0_1.22-1_s390x.deb ... 490s Unpacking libdeflate0:s390x (1.22-1) ... 490s Selecting previously unselected package libgfortran5:s390x. 490s Preparing to unpack .../27-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 490s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 490s Selecting previously unselected package libgomp1:s390x. 490s Preparing to unpack .../28-libgomp1_14.2.0-8ubuntu1_s390x.deb ... 490s Unpacking libgomp1:s390x (14.2.0-8ubuntu1) ... 490s Selecting previously unselected package libgraphite2-3:s390x. 490s Preparing to unpack .../29-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ... 490s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 490s Selecting previously unselected package libharfbuzz0b:s390x. 490s Preparing to unpack .../30-libharfbuzz0b_10.0.1-1_s390x.deb ... 490s Unpacking libharfbuzz0b:s390x (10.0.1-1) ... 490s Selecting previously unselected package libimagequant0:s390x. 490s Preparing to unpack .../31-libimagequant0_2.18.0-1build1_s390x.deb ... 490s Unpacking libimagequant0:s390x (2.18.0-1build1) ... 490s Selecting previously unselected package libjpeg-turbo8:s390x. 490s Preparing to unpack .../32-libjpeg-turbo8_2.1.5-2ubuntu2_s390x.deb ... 490s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 490s Selecting previously unselected package libjpeg8:s390x. 490s Preparing to unpack .../33-libjpeg8_8c-2ubuntu11_s390x.deb ... 490s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 490s Selecting previously unselected package libjs-jquery. 490s Preparing to unpack .../34-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 490s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 490s Selecting previously unselected package libjs-jquery-ui. 490s Preparing to unpack .../35-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 490s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 491s Selecting previously unselected package liblapack3:s390x. 491s Preparing to unpack .../36-liblapack3_3.12.0-3build2_s390x.deb ... 491s Unpacking liblapack3:s390x (3.12.0-3build2) ... 491s Selecting previously unselected package liblbfgsb0:s390x. 491s Preparing to unpack .../37-liblbfgsb0_3.0+dfsg.4-1build1_s390x.deb ... 491s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 491s Selecting previously unselected package liblcms2-2:s390x. 491s Preparing to unpack .../38-liblcms2-2_2.16-2_s390x.deb ... 491s Unpacking liblcms2-2:s390x (2.16-2) ... 491s Selecting previously unselected package libpython3.13-stdlib:s390x. 491s Preparing to unpack .../39-libpython3.13-stdlib_3.13.0-2_s390x.deb ... 491s Unpacking libpython3.13-stdlib:s390x (3.13.0-2) ... 491s Selecting previously unselected package libqhull-r8.0:s390x. 491s Preparing to unpack .../40-libqhull-r8.0_2020.2-6build1_s390x.deb ... 491s Unpacking libqhull-r8.0:s390x (2020.2-6build1) ... 491s Selecting previously unselected package libraqm0:s390x. 491s Preparing to unpack .../41-libraqm0_0.10.1-1build1_s390x.deb ... 491s Unpacking libraqm0:s390x (0.10.1-1build1) ... 491s Selecting previously unselected package libsharpyuv0:s390x. 491s Preparing to unpack .../42-libsharpyuv0_1.4.0-0.1_s390x.deb ... 491s Unpacking libsharpyuv0:s390x (1.4.0-0.1) ... 491s Selecting previously unselected package libjbig0:s390x. 491s Preparing to unpack .../43-libjbig0_2.1-6.1ubuntu2_s390x.deb ... 491s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ... 491s Selecting previously unselected package libwebp7:s390x. 491s Preparing to unpack .../44-libwebp7_1.4.0-0.1_s390x.deb ... 491s Unpacking libwebp7:s390x (1.4.0-0.1) ... 491s Selecting previously unselected package libtiff6:s390x. 491s Preparing to unpack .../45-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ... 491s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 491s Selecting previously unselected package libwebpdemux2:s390x. 491s Preparing to unpack .../46-libwebpdemux2_1.4.0-0.1_s390x.deb ... 491s Unpacking libwebpdemux2:s390x (1.4.0-0.1) ... 491s Selecting previously unselected package libwebpmux3:s390x. 491s Preparing to unpack .../47-libwebpmux3_1.4.0-0.1_s390x.deb ... 491s Unpacking libwebpmux3:s390x (1.4.0-0.1) ... 491s Selecting previously unselected package libxslt1.1:s390x. 491s Preparing to unpack .../48-libxslt1.1_1.1.39-0exp1ubuntu1_s390x.deb ... 491s Unpacking libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 491s Selecting previously unselected package python-matplotlib-data. 491s Preparing to unpack .../49-python-matplotlib-data_3.8.3-3_all.deb ... 491s Unpacking python-matplotlib-data (3.8.3-3) ... 491s Selecting previously unselected package python3.13. 491s Preparing to unpack .../50-python3.13_3.13.0-2_s390x.deb ... 491s Unpacking python3.13 (3.13.0-2) ... 491s Selecting previously unselected package python3-all. 491s Preparing to unpack .../51-python3-all_3.12.7-1_s390x.deb ... 491s Unpacking python3-all (3.12.7-1) ... 491s Selecting previously unselected package python3-appdirs. 491s Preparing to unpack .../52-python3-appdirs_1.4.4-4_all.deb ... 491s Unpacking python3-appdirs (1.4.4-4) ... 491s Selecting previously unselected package python3-numpy. 491s Preparing to unpack .../53-python3-numpy_1%3a1.26.4+ds-11build1_s390x.deb ... 491s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 491s Selecting previously unselected package python3.12-tk. 491s Preparing to unpack .../54-python3.12-tk_3.12.7-3_s390x.deb ... 491s Unpacking python3.12-tk (3.12.7-3) ... 491s Selecting previously unselected package python3.13-tk. 491s Preparing to unpack .../55-python3.13-tk_3.13.0-2_s390x.deb ... 491s Unpacking python3.13-tk (3.13.0-2) ... 491s Selecting previously unselected package python3-tk:s390x. 491s Preparing to unpack .../56-python3-tk_3.12.7-1_s390x.deb ... 491s Unpacking python3-tk:s390x (3.12.7-1) ... 491s Selecting previously unselected package python3-pil.imagetk:s390x. 491s Preparing to unpack .../57-python3-pil.imagetk_10.4.0-1ubuntu1_s390x.deb ... 491s Unpacking python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 491s Selecting previously unselected package libopenjp2-7:s390x. 491s Preparing to unpack .../58-libopenjp2-7_2.5.0-2ubuntu1_s390x.deb ... 491s Unpacking libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 491s Selecting previously unselected package python3-pil:s390x. 491s Preparing to unpack .../59-python3-pil_10.4.0-1ubuntu1_s390x.deb ... 491s Unpacking python3-pil:s390x (10.4.0-1ubuntu1) ... 491s Selecting previously unselected package python3-cairo. 491s Preparing to unpack .../60-python3-cairo_1.26.1-2_s390x.deb ... 491s Unpacking python3-cairo (1.26.1-2) ... 491s Selecting previously unselected package python3-freetype. 491s Preparing to unpack .../61-python3-freetype_2.5.1-1_all.deb ... 491s Unpacking python3-freetype (2.5.1-1) ... 491s Selecting previously unselected package python3-rlpycairo. 491s Preparing to unpack .../62-python3-rlpycairo_0.3.0-3_all.deb ... 491s Unpacking python3-rlpycairo (0.3.0-3) ... 491s Selecting previously unselected package python3-reportlab. 491s Preparing to unpack .../63-python3-reportlab_4.2.5-1_all.deb ... 491s Unpacking python3-reportlab (4.2.5-1) ... 491s Selecting previously unselected package xml-core. 491s Preparing to unpack .../64-xml-core_0.19_all.deb ... 491s Unpacking xml-core (0.19) ... 491s Selecting previously unselected package w3c-sgml-lib. 491s Preparing to unpack .../65-w3c-sgml-lib_1.3-3_all.deb ... 491s Unpacking w3c-sgml-lib (1.3-3) ... 491s Selecting previously unselected package python3-biopython. 491s Preparing to unpack .../66-python3-biopython_1.84+dfsg-4_s390x.deb ... 491s Unpacking python3-biopython (1.84+dfsg-4) ... 491s Selecting previously unselected package python3-brotli. 491s Preparing to unpack .../67-python3-brotli_1.1.0-2build2_s390x.deb ... 491s Unpacking python3-brotli (1.1.0-2build2) ... 491s Selecting previously unselected package python3-contourpy. 491s Preparing to unpack .../68-python3-contourpy_1.3.0-2_s390x.deb ... 491s Unpacking python3-contourpy (1.3.0-2) ... 491s Selecting previously unselected package python3-cycler. 491s Preparing to unpack .../69-python3-cycler_0.12.1-1_all.deb ... 491s Unpacking python3-cycler (0.12.1-1) ... 491s Selecting previously unselected package python3-six. 491s Preparing to unpack .../70-python3-six_1.16.0-7_all.deb ... 491s Unpacking python3-six (1.16.0-7) ... 491s Selecting previously unselected package python3-dateutil. 491s Preparing to unpack .../71-python3-dateutil_2.9.0-2_all.deb ... 491s Unpacking python3-dateutil (2.9.0-2) ... 491s Selecting previously unselected package python3-decorator. 491s Preparing to unpack .../72-python3-decorator_5.1.1-5_all.deb ... 491s Unpacking python3-decorator (5.1.1-5) ... 491s Selecting previously unselected package python3-scipy. 491s Preparing to unpack .../73-python3-scipy_1.13.1-5_s390x.deb ... 491s Unpacking python3-scipy (1.13.1-5) ... 492s Selecting previously unselected package python3-ufolib2. 492s Preparing to unpack .../74-python3-ufolib2_0.16.1+dfsg1-1_all.deb ... 492s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ... 492s Selecting previously unselected package python3-mpmath. 492s Preparing to unpack .../75-python3-mpmath_1.3.0-1_all.deb ... 492s Unpacking python3-mpmath (1.3.0-1) ... 492s Selecting previously unselected package python3-sympy. 492s Preparing to unpack .../76-python3-sympy_1.13.3-1_all.deb ... 492s Unpacking python3-sympy (1.13.3-1) ... 492s Selecting previously unselected package python3-tz. 492s Preparing to unpack .../77-python3-tz_2024.1-2_all.deb ... 492s Unpacking python3-tz (2024.1-2) ... 492s Selecting previously unselected package python3-fs. 492s Preparing to unpack .../78-python3-fs_2.4.16-4_all.deb ... 492s Unpacking python3-fs (2.4.16-4) ... 492s Selecting previously unselected package python3-lxml:s390x. 492s Preparing to unpack .../79-python3-lxml_5.3.0-1_s390x.deb ... 492s Unpacking python3-lxml:s390x (5.3.0-1) ... 492s Selecting previously unselected package python3-lz4. 492s Preparing to unpack .../80-python3-lz4_4.0.2+dfsg-1build4_s390x.deb ... 492s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ... 492s Selecting previously unselected package unicode-data. 492s Preparing to unpack .../81-unicode-data_15.1.0-1_all.deb ... 492s Unpacking unicode-data (15.1.0-1) ... 492s Selecting previously unselected package python3-fonttools. 492s Preparing to unpack .../82-python3-fonttools_4.46.0-1build2_s390x.deb ... 492s Unpacking python3-fonttools (4.46.0-1build2) ... 492s Selecting previously unselected package python3-kiwisolver. 492s Preparing to unpack .../83-python3-kiwisolver_1.4.7-2_s390x.deb ... 492s Unpacking python3-kiwisolver (1.4.7-2) ... 492s Selecting previously unselected package python3-packaging. 492s Preparing to unpack .../84-python3-packaging_24.1-1_all.deb ... 492s Unpacking python3-packaging (24.1-1) ... 492s Selecting previously unselected package python3-matplotlib. 492s Preparing to unpack .../85-python3-matplotlib_3.8.3-3_s390x.deb ... 492s Unpacking python3-matplotlib (3.8.3-3) ... 492s Selecting previously unselected package python3-pandas-lib:s390x. 492s Preparing to unpack .../86-python3-pandas-lib_2.2.3+dfsg-5_s390x.deb ... 492s Unpacking python3-pandas-lib:s390x (2.2.3+dfsg-5) ... 493s Selecting previously unselected package python3-pandas. 493s Preparing to unpack .../87-python3-pandas_2.2.3+dfsg-5_all.deb ... 493s Unpacking python3-pandas (2.2.3+dfsg-5) ... 493s Selecting previously unselected package python3-treetime. 493s Preparing to unpack .../88-python3-treetime_0.11.4-1_all.deb ... 493s Unpacking python3-treetime (0.11.4-1) ... 493s Selecting previously unselected package autopkgtest-satdep. 493s Preparing to unpack .../89-2-autopkgtest-satdep.deb ... 493s Unpacking autopkgtest-satdep (0) ... 493s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ... 493s Setting up liblcms2-2:s390x (2.16-2) ... 493s Setting up libpixman-1-0:s390x (0.44.0-3) ... 493s Setting up libsharpyuv0:s390x (1.4.0-0.1) ... 493s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ... 493s Setting up python3-lz4 (4.0.2+dfsg-1build4) ... 493s Setting up libxcb-render0:s390x (1.17.0-2) ... 493s Setting up fonts-lyx (2.4.2.1-1) ... 493s Setting up x11-common (1:7.7+23ubuntu3) ... 493s Setting up libdeflate0:s390x (1.22-1) ... 493s Setting up libqhull-r8.0:s390x (2020.2-6build1) ... 493s Setting up libxcb-shm0:s390x (1.17.0-2) ... 493s Setting up libgomp1:s390x (14.2.0-8ubuntu1) ... 493s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ... 493s Setting up python3-tz (2024.1-2) ... 493s Setting up unicode-data (15.1.0-1) ... 493s Setting up python3-six (1.16.0-7) ... 494s Setting up libpython3.13-minimal:s390x (3.13.0-2) ... 494s Setting up python3-decorator (5.1.1-5) ... 494s Setting up libfontenc1:s390x (1:1.1.8-1build1) ... 494s Setting up libblas3:s390x (3.12.0-3build2) ... 494s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 494s Setting up python3-packaging (24.1-1) ... 494s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ... 494s Setting up python3-brotli (1.1.0-2build2) ... 494s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 494s Setting up python3-cycler (0.12.1-1) ... 494s Setting up libimagequant0:s390x (2.18.0-1build1) ... 494s Setting up fonts-dejavu-mono (2.37-8) ... 494s Setting up python3-kiwisolver (1.4.7-2) ... 494s Setting up libtcl8.6:s390x (8.6.15+dfsg-2) ... 494s Setting up fonts-dejavu-core (2.37-8) ... 494s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu2) ... 494s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 494s Setting up libwebp7:s390x (1.4.0-0.1) ... 494s Setting up libxslt1.1:s390x (1.1.39-0exp1ubuntu1) ... 494s Setting up libopenjp2-7:s390x (2.5.0-2ubuntu1) ... 494s Setting up python3.13-minimal (3.13.0-2) ... 495s Setting up libharfbuzz0b:s390x (10.0.1-1) ... 495s Setting up python3-dateutil (2.9.0-2) ... 495s Setting up sgml-base (1.31) ... 496s Setting up libxss1:s390x (1:1.2.3-1build3) ... 496s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 496s Setting up python3-mpmath (1.3.0-1) ... 497s Setting up python-matplotlib-data (3.8.3-3) ... 497s Setting up libwebpmux3:s390x (1.4.0-0.1) ... 497s Setting up python3-appdirs (1.4.4-4) ... 497s Setting up libpython3.13-stdlib:s390x (3.13.0-2) ... 497s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 497s Setting up python3-sympy (1.13.3-1) ... 515s Setting up liblapack3:s390x (3.12.0-3build2) ... 515s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 515s Setting up python3.13 (3.13.0-2) ... 516s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 516s Setting up libwebpdemux2:s390x (1.4.0-0.1) ... 516s Setting up python3-all (3.12.7-1) ... 516s Setting up python3-freetype (2.5.1-1) ... 516s Setting up xfonts-utils (1:7.7+7) ... 516s Setting up python3-fs (2.4.16-4) ... 517s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 517s Setting up libraqm0:s390x (0.10.1-1build1) ... 517s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 521s Setting up python3-lxml:s390x (5.3.0-1) ... 521s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ... 521s Setting up xml-core (0.19) ... 522s Setting up python3-contourpy (1.3.0-2) ... 522s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu2) ... 522s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 522s Setting up libxft2:s390x (2.3.6-1build1) ... 522s Setting up python3-scipy (1.13.1-5) ... 531s Setting up libtk8.6:s390x (8.6.15-1) ... 531s Setting up python3-pandas-lib:s390x (2.2.3+dfsg-5) ... 531s Setting up python3.12-tk (3.12.7-3) ... 531s Setting up fonts-urw-base35 (20200910-8) ... 531s Setting up libcairo2:s390x (1.18.2-2) ... 531s Setting up python3.13-tk (3.13.0-2) ... 531s Setting up python3-pil:s390x (10.4.0-1ubuntu1) ... 532s Setting up python3-pandas (2.2.3+dfsg-5) ... 546s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 546s Setting up python3-cairo (1.26.1-2) ... 546s Setting up blt (2.5.3+dfsg-7build1) ... 546s Setting up python3-tk:s390x (3.12.7-1) ... 546s Setting up python3-pil.imagetk:s390x (10.4.0-1ubuntu1) ... 546s Setting up python3-rlpycairo (0.3.0-3) ... 546s Setting up python3-reportlab (4.2.5-1) ... 548s Setting up python3-fonttools (4.46.0-1build2) ... 550s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 550s Setting up python3-matplotlib (3.8.3-3) ... 554s Processing triggers for libc-bin (2.40-1ubuntu3) ... 554s Processing triggers for systemd (256.5-2ubuntu4) ... 554s Processing triggers for man-db (2.12.1-3) ... 555s Processing triggers for sgml-base (1.31) ... 555s Setting up w3c-sgml-lib (1.3-3) ... 579s Setting up python3-biopython (1.84+dfsg-4) ... 582s Setting up python3-treetime (0.11.4-1) ... 582s Setting up autopkgtest-satdep (0) ... 586s (Reading database ... 66998 files and directories currently installed.) 586s Removing autopkgtest-satdep (0) ... 600s autopkgtest [13:12:55]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import treetime; print(treetime)" ; done 600s autopkgtest [13:12:55]: test autodep8-python3: [----------------------- 601s Testing with python3.13: 601s Traceback (most recent call last): 601s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 24, in 601s from . import multiarray 601s File "/usr/lib/python3/dist-packages/numpy/core/multiarray.py", line 10, in 601s from . import overrides 601s File "/usr/lib/python3/dist-packages/numpy/core/overrides.py", line 8, in 601s from numpy.core._multiarray_umath import ( 601s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 601s ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 601s 601s During handling of the above exception, another exception occurred: 601s 601s Traceback (most recent call last): 601s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 130, in 601s from numpy.__config__ import show as show_config 601s File "/usr/lib/python3/dist-packages/numpy/__config__.py", line 4, in 601s from numpy.core._multiarray_umath import ( 601s ...<3 lines>... 601s ) 601s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 50, in 601s raise ImportError(msg) 601s ImportError: 601s 601s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 601s 601s Importing the numpy C-extensions failed. This error can happen for 601s many reasons, often due to issues with your setup or how NumPy was 601s installed. 601s 601s We have compiled some common reasons and troubleshooting tips at: 601s 601s https://numpy.org/devdocs/user/troubleshooting-importerror.html 601s 601s Please note and check the following: 601s 601s * The Python version is: Python3.13 from "/usr/bin/python3.13" 601s * The NumPy version is: "1.26.4" 601s 601s and make sure that they are the versions you expect. 601s Please carefully study the documentation linked above for further help. 601s 601s Original error was: No module named 'numpy.core._multiarray_umath' 601s 601s 601s The above exception was the direct cause of the following exception: 601s 601s Traceback (most recent call last): 601s File "", line 1, in 601s import treetime; print(treetime) 601s ^^^^^^^^^^^^^^^ 601s File "/usr/lib/python3/dist-packages/treetime/__init__.py", line 38, in 601s from .treeanc import TreeAnc 601s File "/usr/lib/python3/dist-packages/treetime/treeanc.py", line 3, in 601s import numpy as np 601s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 135, in 601s raise ImportError(msg) from e 601s ImportError: Error importing numpy: you should not try to import numpy from 601s its source directory; please exit the numpy source tree, and relaunch 601s your python interpreter from there. 601s autopkgtest [13:12:56]: test autodep8-python3: -----------------------] 602s autodep8-python3 FAIL non-zero exit status 1 602s autopkgtest [13:12:57]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 602s autopkgtest [13:12:57]: @@@@@@@@@@@@@@@@@@@@ summary 602s run-unit-test PASS 602s autodep8-python3 FAIL non-zero exit status 1 614s nova [W] Using flock in prodstack6-s390x 614s flock: timeout while waiting to get lock 614s Creating nova instance adt-plucky-s390x-python-treetime-20241113-130254-juju-7f2275-prod-proposed-migration-environment-15-bc265453-f7f6-4c23-8aa5-e0eff3cb5b0b from image adt/ubuntu-plucky-s390x-server-20241113.img (UUID e740277e-1f72-40ae-bfbe-46030537c71c)... 614s nova [W] Using flock in prodstack6-s390x 614s flock: timeout while waiting to get lock 614s Creating nova instance adt-plucky-s390x-python-treetime-20241113-130254-juju-7f2275-prod-proposed-migration-environment-15-bc265453-f7f6-4c23-8aa5-e0eff3cb5b0b from image adt/ubuntu-plucky-s390x-server-20241113.img (UUID e740277e-1f72-40ae-bfbe-46030537c71c)...