0s autopkgtest [04:45:56]: starting date and time: 2025-02-16 04:45:56+0000 0s autopkgtest [04:45:56]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [04:45:56]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.q2zyvzet/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc,src:iproute2,src:php-twig,src:postgresql-17,src:postgresql-common,src:roundcube --apt-upgrade mdanalysis --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu1 iproute2/6.13.0-1ubuntu1 php-twig/3.19.0-1 postgresql-17/17.3-2 postgresql-common/273 roundcube/1.6.10+dfsg-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-big-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-ppc64el-17.secgroup --name adt-plucky-ppc64el-mdanalysis-20250216-044555-juju-7f2275-prod-proposed-migration-environment-2-48a4168a-6b03-459f-bc78-c397d50951f1 --image adt/ubuntu-plucky-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration-ppc64el -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,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 116s autopkgtest [04:47:52]: testbed dpkg architecture: ppc64el 116s autopkgtest [04:47:52]: testbed apt version: 2.9.28 116s autopkgtest [04:47:52]: @@@@@@@@@@@@@@@@@@@@ test bed setup 117s autopkgtest [04:47:53]: testbed release detected to be: None 117s autopkgtest [04:47:53]: updating testbed package index (apt update) 118s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 118s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 118s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 118s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 118s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [73.0 kB] 118s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [810 kB] 119s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.1 kB] 119s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 119s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [167 kB] 119s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted ppc64el Packages [760 B] 119s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [902 kB] 119s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [4228 B] 119s Fetched 2084 kB in 1s (1929 kB/s) 120s Reading package lists... 120s Reading package lists... 121s Building dependency tree... 121s Reading state information... 121s Calculating upgrade... 121s The following packages will be upgraded: 121s dash gcc-14-base libatomic1 libgcc-s1 libp11-kit0 libstdc++6 libtasn1-6 121s libxdmcp6 122s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 122s Need to get 1476 kB of archives. 122s After this operation, 15.4 kB of additional disk space will be used. 122s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el dash ppc64el 0.5.12-12ubuntu1 [114 kB] 122s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libatomic1 ppc64el 14.2.0-17ubuntu1 [10.7 kB] 122s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14-base ppc64el 14.2.0-17ubuntu1 [53.6 kB] 122s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libstdc++6 ppc64el 14.2.0-17ubuntu1 [886 kB] 122s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgcc-s1 ppc64el 14.2.0-17ubuntu1 [39.2 kB] 122s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libp11-kit0 ppc64el 0.25.5-2ubuntu2 [305 kB] 122s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtasn1-6 ppc64el 4.20.0-2 [55.9 kB] 122s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxdmcp6 ppc64el 1:1.1.5-1 [11.6 kB] 122s Preconfiguring packages ... 123s Fetched 1476 kB in 1s (2365 kB/s) 123s (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 ... 106311 files and directories currently installed.) 123s Preparing to unpack .../dash_0.5.12-12ubuntu1_ppc64el.deb ... 123s Unpacking dash (0.5.12-12ubuntu1) over (0.5.12-9ubuntu1) ... 123s Setting up dash (0.5.12-12ubuntu1) ... 123s (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 ... 106311 files and directories currently installed.) 123s Preparing to unpack .../libatomic1_14.2.0-17ubuntu1_ppc64el.deb ... 123s Unpacking libatomic1:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 123s Preparing to unpack .../gcc-14-base_14.2.0-17ubuntu1_ppc64el.deb ... 123s Unpacking gcc-14-base:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 123s Setting up gcc-14-base:ppc64el (14.2.0-17ubuntu1) ... 123s (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 ... 106311 files and directories currently installed.) 123s Preparing to unpack .../libstdc++6_14.2.0-17ubuntu1_ppc64el.deb ... 123s Unpacking libstdc++6:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 123s Setting up libstdc++6:ppc64el (14.2.0-17ubuntu1) ... 123s (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 ... 106311 files and directories currently installed.) 123s Preparing to unpack .../libgcc-s1_14.2.0-17ubuntu1_ppc64el.deb ... 123s Unpacking libgcc-s1:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 123s Setting up libgcc-s1:ppc64el (14.2.0-17ubuntu1) ... 123s (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 ... 106311 files and directories currently installed.) 123s Preparing to unpack .../libp11-kit0_0.25.5-2ubuntu2_ppc64el.deb ... 123s Unpacking libp11-kit0:ppc64el (0.25.5-2ubuntu2) over (0.25.5-2ubuntu1) ... 123s Preparing to unpack .../libtasn1-6_4.20.0-2_ppc64el.deb ... 123s Unpacking libtasn1-6:ppc64el (4.20.0-2) over (4.19.0-3build1) ... 123s Preparing to unpack .../libxdmcp6_1%3a1.1.5-1_ppc64el.deb ... 123s Unpacking libxdmcp6:ppc64el (1:1.1.5-1) over (1:1.1.3-0ubuntu6) ... 123s Setting up libxdmcp6:ppc64el (1:1.1.5-1) ... 123s Setting up libp11-kit0:ppc64el (0.25.5-2ubuntu2) ... 123s Setting up libatomic1:ppc64el (14.2.0-17ubuntu1) ... 123s Setting up libtasn1-6:ppc64el (4.20.0-2) ... 123s Processing triggers for libc-bin (2.40-4ubuntu1) ... 124s Processing triggers for man-db (2.13.0-1) ... 124s Processing triggers for debianutils (5.21) ... 125s Reading package lists... 125s Building dependency tree... 125s Reading state information... 125s 0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded. 125s autopkgtest [04:48:01]: upgrading testbed (apt dist-upgrade and autopurge) 125s Reading package lists... 126s Building dependency tree... 126s Reading state information... 126s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 126s Starting 2 pkgProblemResolver with broken count: 0 126s Done 127s Entering ResolveByKeep 127s 127s The following packages will be upgraded: 127s iproute2 libc-bin libc-dev-bin libc6 libc6-dev locales 127s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 127s Need to get 11.7 MB of archives. 127s After this operation, 358 kB of additional disk space will be used. 127s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc-dev-bin ppc64el 2.41-1ubuntu1 [25.3 kB] 128s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc6-dev ppc64el 2.41-1ubuntu1 [2046 kB] 128s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el locales all 2.41-1ubuntu1 [4246 kB] 128s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc6 ppc64el 2.41-1ubuntu1 [3243 kB] 128s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc-bin ppc64el 2.41-1ubuntu1 [742 kB] 128s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el iproute2 ppc64el 6.13.0-1ubuntu1 [1419 kB] 129s Preconfiguring packages ... 129s Fetched 11.7 MB in 1s (10.1 MB/s) 129s (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 ... 106311 files and directories currently installed.) 129s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu1_ppc64el.deb ... 129s Unpacking libc-dev-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 129s Preparing to unpack .../libc6-dev_2.41-1ubuntu1_ppc64el.deb ... 129s Unpacking libc6-dev:ppc64el (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 129s Preparing to unpack .../locales_2.41-1ubuntu1_all.deb ... 129s Unpacking locales (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 129s Preparing to unpack .../libc6_2.41-1ubuntu1_ppc64el.deb ... 129s Checking for services that may need to be restarted... 129s Checking init scripts... 129s Checking for services that may need to be restarted... 129s Checking init scripts... 130s Stopping some services possibly affected by the upgrade (will be restarted later): 130s cron: stopping...done. 130s 130s Unpacking libc6:ppc64el (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 130s Setting up libc6:ppc64el (2.41-1ubuntu1) ... 130s Checking for services that may need to be restarted... 130s Checking init scripts... 130s Restarting services possibly affected by the upgrade: 130s cron: restarting...done. 130s 130s Services restarted successfully. 130s (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 ... 106312 files and directories currently installed.) 130s Preparing to unpack .../libc-bin_2.41-1ubuntu1_ppc64el.deb ... 130s Unpacking libc-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 130s Setting up libc-bin (2.41-1ubuntu1) ... 130s (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 ... 106312 files and directories currently installed.) 130s Preparing to unpack .../iproute2_6.13.0-1ubuntu1_ppc64el.deb ... 131s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 131s Setting up iproute2 (6.13.0-1ubuntu1) ... 131s Setting up locales (2.41-1ubuntu1) ... 131s Installing new version of config file /etc/locale.alias ... 132s Generating locales (this might take a while)... 133s en_US.UTF-8... done 133s Generation complete. 133s Setting up libc-dev-bin (2.41-1ubuntu1) ... 133s Setting up libc6-dev:ppc64el (2.41-1ubuntu1) ... 133s Processing triggers for man-db (2.13.0-1) ... 134s Processing triggers for systemd (257.2-3ubuntu1) ... 135s Reading package lists... 136s Building dependency tree... 136s Reading state information... 136s Starting pkgProblemResolver with broken count: 0 136s Starting 2 pkgProblemResolver with broken count: 0 136s Done 137s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 139s autopkgtest [04:48:15]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP Tue Feb 4 16:32:08 UTC 2025 139s autopkgtest [04:48:15]: @@@@@@@@@@@@@@@@@@@@ apt-source mdanalysis 146s Get:1 http://ftpmaster.internal/ubuntu plucky/universe mdanalysis 2.8.0-1 (dsc) [2861 B] 146s Get:2 http://ftpmaster.internal/ubuntu plucky/universe mdanalysis 2.8.0-1 (tar) [60.8 MB] 146s Get:3 http://ftpmaster.internal/ubuntu plucky/universe mdanalysis 2.8.0-1 (diff) [10.9 kB] 147s gpgv: Signature made Mon Feb 10 23:30:56 2025 UTC 147s gpgv: using RSA key 23C9A93E585819E9126D0A36573EF1E4BD5A01FA 147s gpgv: Can't check signature: No public key 147s dpkg-source: warning: cannot verify inline signature for ./mdanalysis_2.8.0-1.dsc: no acceptable signature found 148s autopkgtest [04:48:24]: testing package mdanalysis version 2.8.0-1 149s autopkgtest [04:48:25]: build not needed 153s autopkgtest [04:48:29]: test test-mdanalysis: preparing testbed 153s Reading package lists... 153s Building dependency tree... 153s Reading state information... 154s Starting pkgProblemResolver with broken count: 0 154s Starting 2 pkgProblemResolver with broken count: 0 154s Done 154s The following NEW packages will be installed: 154s autoconf automake autopoint autotools-dev blt build-essential cpp cpp-14 154s cpp-14-powerpc64le-linux-gnu cpp-powerpc64le-linux-gnu cython3 debhelper 154s debugedit dh-autoreconf dh-python dh-strip-nondeterminism docutils-common 154s dwz fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome 154s fonts-lato fonts-lyx fonts-mathjax fonts-urw-base35 g++ g++-14 154s g++-14-powerpc64le-linux-gnu g++-powerpc64le-linux-gnu gcc gcc-14 154s gcc-14-powerpc64le-linux-gnu gcc-powerpc64le-linux-gnu gettext 154s intltool-debian libaec0 libarchive-zip-perl libasan8 libblas3 libcairo2 154s libcc1-0 libdebhelper-perl libdeflate0 libexpat1-dev 154s libfile-stripnondeterminism-perl libfontconfig1 libfontenc1 libgcc-14-dev 154s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-310 154s libhdf5-hl-310 libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 154s libjpeg8 libjs-jquery libjs-jquery-ui libjs-mathjax libjs-sphinxdoc 154s libjs-underscore libjson-perl liblapack3 liblbfgsb0 liblcms2-2 liblerc4 154s liblsan0 liblzf1 libmpc3 libnetcdf19t64 libopenjp2-7 libpixman-1-0 154s libpython3-all-dev libpython3-dev libpython3.12-dev libpython3.13-dev 154s libqhull-r8.0 libquadmath0 libraqm0 libsharpyuv0 libstdc++-14-dev libsz2 154s libtcl8.6 libtiff6 libtk8.6 libtool libtsan2 libubsan1 libwebp7 154s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 154s libxslt1.1 libxss1 m4 po-debconf pybuild-plugin-pyproject 154s python-matplotlib-data python-mdanalysis-doc python3-alabaster python3-all 154s python3-all-dev python3-biopython python3-brotli python3-build python3-cairo 154s python3-cftime python3-citeproc python3-contourpy python3-cycler 154s python3-dateutil python3-decorator python3-defusedxml python3-dev 154s python3-docutils python3-duecredit python3-fasteners python3-fonttools 154s python3-freetype python3-fs python3-griddataformats python3-gsd python3-h5py 154s python3-h5py-serial python3-hypothesis python3-imagesize python3-iniconfig 154s python3-installer python3-joblib python3-kiwisolver python3-latexcodec 154s python3-looseversion python3-lxml python3-lz4 python3-matplotlib 154s python3-mda-xdrlib python3-mdanalysis python3-mmtf python3-monotonic 154s python3-mpmath python3-mrcfile python3-msgpack python3-msmb-theme 154s python3-netcdf4 python3-networkx python3-numpy python3-packaging 154s python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk 154s python3-platformdirs python3-pluggy python3-pybtex python3-pybtex-docutils 154s python3-pyproject-hooks python3-pytest python3-pytz python3-reportlab 154s python3-rlpycairo python3-roman python3-scipy python3-seaborn python3-six 154s python3-sklearn python3-sklearn-lib python3-snowballstemmer 154s python3-sortedcontainers python3-sphinx python3-sphinx-rtd-theme 154s python3-sphinx-sitemap python3-sphinxcontrib.bibtex 154s python3-sphinxcontrib.jquery python3-sympy python3-threadpoolctl python3-tk 154s python3-toml python3-tqdm python3-tz python3-ufolib2 python3-unicodedata2 154s python3-wheel python3.12 python3.12-dev python3.12-minimal python3.12-tk 154s python3.13-dev python3.13-tk sgml-base sphinx-common sphinx-rtd-theme-common 154s tk8.6-blt2.5 unicode-data w3c-sgml-lib x11-common xfonts-encodings 154s xfonts-utils xml-core zlib1g-dev 154s 0 upgraded, 207 newly installed, 0 to remove and 0 not upgraded. 154s Need to get 228 MB of archives. 154s After this operation, 1096 MB of additional disk space will be used. 154s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12-minimal ppc64el 3.12.9-1 [2465 kB] 155s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-lato all 2.015-1 [2781 kB] 155s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el sgml-base all 1.31 [11.4 kB] 155s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12 ppc64el 3.12.9-1 [671 kB] 155s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el m4 ppc64el 1.4.19-5 [280 kB] 155s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el autoconf all 2.72-3 [382 kB] 155s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el autotools-dev all 20220109.1 [44.9 kB] 155s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el automake all 1:1.17-3 [572 kB] 155s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el autopoint all 0.23.1-1 [619 kB] 155s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtcl8.6 ppc64el 8.6.16+dfsg-1 [1201 kB] 155s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] 155s Get:12 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] 155s Get:13 http://ftpmaster.internal/ubuntu plucky/main ppc64el libfontenc1 ppc64el 1:1.1.8-1build1 [15.8 kB] 155s Get:14 http://ftpmaster.internal/ubuntu plucky/main ppc64el x11-common all 1:7.7+23ubuntu3 [21.7 kB] 155s Get:15 http://ftpmaster.internal/ubuntu plucky/main ppc64el xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 155s Get:16 http://ftpmaster.internal/ubuntu plucky/main ppc64el xfonts-utils ppc64el 1:7.7+7 [114 kB] 155s Get:17 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-urw-base35 all 20200910-8 [11.0 MB] 155s Get:18 http://ftpmaster.internal/ubuntu plucky/main ppc64el fontconfig-config ppc64el 2.15.0-1.1ubuntu2 [37.4 kB] 155s Get:19 http://ftpmaster.internal/ubuntu plucky/main ppc64el libfontconfig1 ppc64el 2.15.0-1.1ubuntu2 [190 kB] 155s Get:20 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1build1 [23.1 kB] 155s Get:21 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxft2 ppc64el 2.3.6-1build1 [61.5 kB] 155s Get:22 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxss1 ppc64el 1:1.2.3-1build3 [7980 B] 155s Get:23 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtk8.6 ppc64el 8.6.16-1 [946 kB] 155s Get:24 http://ftpmaster.internal/ubuntu plucky/main ppc64el tk8.6-blt2.5 ppc64el 2.5.3+dfsg-7build1 [784 kB] 156s Get:25 http://ftpmaster.internal/ubuntu plucky/main ppc64el blt ppc64el 2.5.3+dfsg-7build1 [4840 B] 156s Get:26 http://ftpmaster.internal/ubuntu plucky/main ppc64el libisl23 ppc64el 0.27-1 [882 kB] 156s Get:27 http://ftpmaster.internal/ubuntu plucky/main ppc64el libmpc3 ppc64el 1.3.1-1build2 [62.1 kB] 156s Get:28 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp-14-powerpc64le-linux-gnu ppc64el 14.2.0-17ubuntu1 [10.5 MB] 156s Get:29 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp-14 ppc64el 14.2.0-17ubuntu1 [1038 B] 156s Get:30 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp-powerpc64le-linux-gnu ppc64el 4:14.2.0-1ubuntu1 [5566 B] 156s Get:31 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp ppc64el 4:14.2.0-1ubuntu1 [22.4 kB] 156s Get:32 http://ftpmaster.internal/ubuntu plucky/main ppc64el libcc1-0 ppc64el 14.2.0-17ubuntu1 [48.1 kB] 156s Get:33 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgomp1 ppc64el 14.2.0-17ubuntu1 [161 kB] 156s Get:34 http://ftpmaster.internal/ubuntu plucky/main ppc64el libitm1 ppc64el 14.2.0-17ubuntu1 [32.1 kB] 156s Get:35 http://ftpmaster.internal/ubuntu plucky/main ppc64el libasan8 ppc64el 14.2.0-17ubuntu1 [2945 kB] 156s Get:36 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblsan0 ppc64el 14.2.0-17ubuntu1 [1322 kB] 156s Get:37 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtsan2 ppc64el 14.2.0-17ubuntu1 [2696 kB] 156s Get:38 http://ftpmaster.internal/ubuntu plucky/main ppc64el libubsan1 ppc64el 14.2.0-17ubuntu1 [1191 kB] 156s Get:39 http://ftpmaster.internal/ubuntu plucky/main ppc64el libquadmath0 ppc64el 14.2.0-17ubuntu1 [158 kB] 156s Get:40 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgcc-14-dev ppc64el 14.2.0-17ubuntu1 [1620 kB] 156s Get:41 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14-powerpc64le-linux-gnu ppc64el 14.2.0-17ubuntu1 [20.6 MB] 157s Get:42 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14 ppc64el 14.2.0-17ubuntu1 [536 kB] 157s Get:43 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-powerpc64le-linux-gnu ppc64el 4:14.2.0-1ubuntu1 [1226 B] 157s Get:44 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc ppc64el 4:14.2.0-1ubuntu1 [5012 B] 157s Get:45 http://ftpmaster.internal/ubuntu plucky/main ppc64el libstdc++-14-dev ppc64el 14.2.0-17ubuntu1 [2677 kB] 157s Get:46 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++-14-powerpc64le-linux-gnu ppc64el 14.2.0-17ubuntu1 [12.0 MB] 157s Get:47 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++-14 ppc64el 14.2.0-17ubuntu1 [21.8 kB] 157s Get:48 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++-powerpc64le-linux-gnu ppc64el 4:14.2.0-1ubuntu1 [966 B] 157s Get:49 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++ ppc64el 4:14.2.0-1ubuntu1 [1088 B] 157s Get:50 http://ftpmaster.internal/ubuntu plucky/main ppc64el build-essential ppc64el 12.10ubuntu1 [4936 B] 157s Get:51 http://ftpmaster.internal/ubuntu plucky/universe ppc64el cython3 ppc64el 3.0.11+dfsg-2ubuntu1 [3264 kB] 157s Get:52 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdebhelper-perl all 13.24.1ubuntu2 [95.4 kB] 157s Get:53 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtool all 2.5.4-3build1 [168 kB] 157s Get:54 http://ftpmaster.internal/ubuntu plucky/main ppc64el dh-autoreconf all 20 [16.1 kB] 157s Get:55 http://ftpmaster.internal/ubuntu plucky/main ppc64el libarchive-zip-perl all 1.68-1 [90.2 kB] 157s Get:56 http://ftpmaster.internal/ubuntu plucky/main ppc64el libfile-stripnondeterminism-perl all 1.14.1-2 [20.3 kB] 157s Get:57 http://ftpmaster.internal/ubuntu plucky/main ppc64el dh-strip-nondeterminism all 1.14.1-2 [5064 B] 157s Get:58 http://ftpmaster.internal/ubuntu plucky/main ppc64el debugedit ppc64el 1:5.1-2 [52.4 kB] 157s Get:59 http://ftpmaster.internal/ubuntu plucky/main ppc64el dwz ppc64el 0.15-1build6 [142 kB] 157s Get:60 http://ftpmaster.internal/ubuntu plucky/main ppc64el gettext ppc64el 0.23.1-1 [1155 kB] 157s Get:61 http://ftpmaster.internal/ubuntu plucky/main ppc64el intltool-debian all 0.35.0+20060710.6 [23.2 kB] 157s Get:62 http://ftpmaster.internal/ubuntu plucky/main ppc64el po-debconf all 1.0.21+nmu1 [233 kB] 157s Get:63 http://ftpmaster.internal/ubuntu plucky/main ppc64el debhelper all 13.24.1ubuntu2 [895 kB] 157s Get:64 http://ftpmaster.internal/ubuntu plucky/universe ppc64el dh-python all 6.20250108 [117 kB] 157s Get:65 http://ftpmaster.internal/ubuntu plucky/main ppc64el xml-core all 0.19 [20.3 kB] 157s Get:66 http://ftpmaster.internal/ubuntu plucky/main ppc64el docutils-common all 0.21.2+dfsg-2 [131 kB] 157s Get:67 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 157s Get:68 http://ftpmaster.internal/ubuntu plucky/universe ppc64el fonts-lyx all 2.4.3-1 [171 kB] 157s Get:69 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 157s Get:70 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libaec0 ppc64el 1.1.3-1 [30.1 kB] 157s Get:71 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.1-2 [239 kB] 157s Get:72 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpixman-1-0 ppc64el 0.44.0-3 [334 kB] 157s Get:73 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxcb-render0 ppc64el 1.17.0-2 [17.2 kB] 157s Get:74 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxcb-shm0 ppc64el 1.17.0-2 [5980 B] 157s Get:75 http://ftpmaster.internal/ubuntu plucky/main ppc64el libcairo2 ppc64el 1.18.2-2 [747 kB] 157s Get:76 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdeflate0 ppc64el 1.23-1 [63.4 kB] 157s Get:77 http://ftpmaster.internal/ubuntu plucky/main ppc64el libexpat1-dev ppc64el 2.6.4-1 [149 kB] 157s Get:78 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 14.2.0-17ubuntu1 [571 kB] 157s Get:79 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgraphite2-3 ppc64el 1.3.14-2ubuntu1 [84.6 kB] 157s Get:80 http://ftpmaster.internal/ubuntu plucky/main ppc64el libharfbuzz0b ppc64el 10.2.0-1 [598 kB] 157s Get:81 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libsz2 ppc64el 1.1.3-1 [5566 B] 157s Get:82 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-310 ppc64el 1.14.5+repack-3 [1523 kB] 158s Get:83 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-hl-310 ppc64el 1.14.5+repack-3 [74.9 kB] 158s Get:84 http://ftpmaster.internal/ubuntu plucky/main ppc64el libimagequant0 ppc64el 2.18.0-1build1 [43.2 kB] 158s Get:85 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-3ubuntu2 [215 kB] 158s Get:86 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 158s Get:87 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 158s Get:88 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 158s Get:89 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 158s Get:90 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-sphinxdoc all 8.1.3-4 [30.9 kB] 158s Get:91 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjson-perl all 4.10000-1 [81.9 kB] 158s Get:92 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.1-2 [2813 kB] 158s Get:93 http://ftpmaster.internal/ubuntu plucky/universe ppc64el liblbfgsb0 ppc64el 3.0+dfsg.4-1build1 [33.0 kB] 158s Get:94 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblcms2-2 ppc64el 2.16-2 [243 kB] 158s Get:95 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblerc4 ppc64el 4.0.0+ds-5ubuntu1 [298 kB] 158s Get:96 http://ftpmaster.internal/ubuntu plucky/universe ppc64el liblzf1 ppc64el 3.6-4 [7920 B] 158s Get:97 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libnetcdf19t64 ppc64el 1:4.9.2-6ubuntu2 [599 kB] 158s Get:98 http://ftpmaster.internal/ubuntu plucky/main ppc64el zlib1g-dev ppc64el 1:1.3.dfsg+really1.3.1-1ubuntu1 [902 kB] 158s Get:99 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpython3.13-dev ppc64el 3.13.2-1 [5971 kB] 158s Get:100 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpython3-dev ppc64el 3.13.1-1~exp2 [10.5 kB] 158s Get:101 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpython3.12-dev ppc64el 3.12.9-1 [6140 kB] 158s Get:102 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpython3-all-dev ppc64el 3.13.1-1~exp2 [922 B] 158s Get:103 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libqhull-r8.0 ppc64el 2020.2-6build1 [225 kB] 159s Get:104 http://ftpmaster.internal/ubuntu plucky/main ppc64el libraqm0 ppc64el 0.10.2-1 [19.2 kB] 159s Get:105 http://ftpmaster.internal/ubuntu plucky/main ppc64el libsharpyuv0 ppc64el 1.5.0-0.1 [22.3 kB] 159s Get:106 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu2 [35.9 kB] 159s Get:107 http://ftpmaster.internal/ubuntu plucky/main ppc64el libwebp7 ppc64el 1.5.0-0.1 [315 kB] 159s Get:108 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtiff6 ppc64el 4.5.1+git230720-4ubuntu4 [272 kB] 159s Get:109 http://ftpmaster.internal/ubuntu plucky/main ppc64el libwebpdemux2 ppc64el 1.5.0-0.1 [14.6 kB] 159s Get:110 http://ftpmaster.internal/ubuntu plucky/main ppc64el libwebpmux3 ppc64el 1.5.0-0.1 [31.1 kB] 159s Get:111 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxslt1.1 ppc64el 1.1.39-0exp1ubuntu2 [191 kB] 159s Get:112 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-packaging all 24.2-1 [51.5 kB] 159s Get:113 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pyproject-hooks all 1.2.0-1 [10.2 kB] 159s Get:114 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-toml all 0.10.2-1 [16.5 kB] 159s Get:115 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-wheel all 0.45.1-1 [57.7 kB] 159s Get:116 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-build all 1.2.2-1 [31.0 kB] 159s Get:117 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-installer all 0.7.0+dfsg1-3 [17.4 kB] 159s Get:118 http://ftpmaster.internal/ubuntu plucky/universe ppc64el pybuild-plugin-pyproject all 6.20250108 [1726 B] 159s Get:119 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python-matplotlib-data all 3.8.3-3ubuntu2 [2929 kB] 159s Get:120 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 160s Get:121 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python-mdanalysis-doc all 2.8.0-1 [3459 kB] 161s Get:122 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-all ppc64el 3.13.1-1~exp2 [896 B] 161s Get:123 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.13-dev ppc64el 3.13.2-1 [508 kB] 161s Get:124 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-dev ppc64el 3.13.1-1~exp2 [26.7 kB] 161s Get:125 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12-dev ppc64el 3.12.9-1 [505 kB] 161s Get:126 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-all-dev ppc64el 3.13.1-1~exp2 [918 B] 161s Get:127 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-numpy ppc64el 1:1.26.4+ds-13 [5146 kB] 162s Get:128 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12-tk ppc64el 3.12.9-1 [116 kB] 162s Get:129 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.13-tk ppc64el 3.13.2-1 [107 kB] 162s Get:130 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-tk ppc64el 3.13.1-1 [9772 B] 162s Get:131 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pil.imagetk ppc64el 11.1.0-5 [10.4 kB] 162s Get:132 http://ftpmaster.internal/ubuntu plucky/main ppc64el libopenjp2-7 ppc64el 2.5.0-2ubuntu3 [247 kB] 162s Get:133 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-pil ppc64el 11.1.0-5 [618 kB] 162s Get:134 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-cairo ppc64el 1.26.1-2build1 [150 kB] 162s Get:135 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-freetype all 2.5.1-1 [92.3 kB] 162s Get:136 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-rlpycairo all 0.3.0-3 [9130 B] 162s Get:137 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-reportlab all 4.3.0-1 [1137 kB] 162s Get:138 http://ftpmaster.internal/ubuntu plucky/universe ppc64el w3c-sgml-lib all 1.3-3 [280 kB] 162s Get:139 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-biopython ppc64el 1.85+dfsg-2 [1771 kB] 162s Get:140 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-brotli ppc64el 1.1.0-2build3 [423 kB] 162s Get:141 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-cftime ppc64el 1.6.4-1build2 [327 kB] 163s Get:142 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-lxml ppc64el 5.3.1-1 [1752 kB] 163s Get:143 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-citeproc all 0.6.0-3 [98.4 kB] 163s Get:144 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-contourpy ppc64el 1.3.1-1 [260 kB] 163s Get:145 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-cycler all 0.12.1-1 [9716 B] 163s Get:146 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-dateutil all 2.9.0-3 [80.2 kB] 163s Get:147 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-decorator all 5.1.1-5 [10.1 kB] 163s Get:148 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-defusedxml all 0.7.1-3 [42.2 kB] 163s Get:149 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-roman all 5.0-1 [10.3 kB] 163s Get:150 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-docutils all 0.21.2+dfsg-2 [409 kB] 163s Get:151 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-looseversion all 1.3.0-3 [8354 B] 163s Get:152 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-duecredit all 0.10.2-2 [66.0 kB] 163s Get:153 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-monotonic all 1.6-3 [5344 B] 163s Get:154 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-fasteners all 0.18-2 [12.5 kB] 163s Get:155 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-pytz all 2025.1-3 [162 kB] 163s Get:156 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-tz all 2025.1-3 [1866 B] 163s Get:157 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-platformdirs all 4.3.6-1 [16.8 kB] 163s Get:158 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-fs all 2.4.16-6 [90.7 kB] 163s Get:159 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-lz4 ppc64el 4.4.0+dfsg-1 [28.3 kB] 163s Get:160 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-scipy ppc64el 1.14.1-4ubuntu1 [22.7 MB] 167s Get:161 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mpmath all 1.3.0-1 [425 kB] 167s Get:162 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sympy all 1.13.3-1 [4228 kB] 167s Get:163 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-ufolib2 all 0.17.0+dfsg1-1 [33.5 kB] 167s Get:164 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-unicodedata2 ppc64el 15.1.0+ds-1build2 [361 kB] 168s Get:165 http://ftpmaster.internal/ubuntu plucky/universe ppc64el unicode-data all 15.1.0-1 [8878 kB] 169s Get:166 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-fonttools ppc64el 4.55.3-2 [1722 kB] 169s Get:167 http://ftpmaster.internal/ubuntu plucky/main ppc64el sphinx-rtd-theme-common all 3.0.2+dfsg-2 [1014 kB] 169s Get:168 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mrcfile all 1.5.4-2 [116 kB] 169s Get:169 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-griddataformats all 1.0.2-2 [2107 kB] 170s Get:170 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-gsd ppc64el 3.3.0-1build2 [236 kB] 170s Get:171 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-h5py-serial ppc64el 3.12.1-1 [1603 kB] 170s Get:172 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-h5py all 3.12.1-1 [7970 B] 170s Get:173 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-sortedcontainers all 2.4.0-2 [27.6 kB] 170s Get:174 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-hypothesis all 6.125.2-1 [333 kB] 170s Get:175 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-imagesize all 1.4.1-1 [6844 B] 170s Get:176 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-iniconfig all 1.1.1-2 [6024 B] 170s Get:177 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-joblib all 1.4.2-2 [205 kB] 170s Get:178 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-kiwisolver ppc64el 1.4.7-3 [73.2 kB] 170s Get:179 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-latexcodec all 3.0.0-1 [16.6 kB] 170s Get:180 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-matplotlib ppc64el 3.8.3-3ubuntu2 [4709 kB] 171s Get:181 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mda-xdrlib all 0.2.0-3 [11.4 kB] 171s Get:182 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-msgpack ppc64el 1.0.3-3build3 [110 kB] 171s Get:183 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mmtf all 1.1.3-1 [16.2 kB] 171s Get:184 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-threadpoolctl all 3.1.0-1 [21.3 kB] 171s Get:185 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-tqdm all 4.67.1-2 [92.5 kB] 171s Get:186 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mdanalysis ppc64el 2.8.0-1 [4630 kB] 172s Get:187 http://ftpmaster.internal/ubuntu plucky/main ppc64el sphinx-common all 8.1.3-4 [663 kB] 172s Get:188 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-alabaster all 0.7.16-0.1 [18.5 kB] 172s Get:189 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-snowballstemmer all 2.2.0-4build1 [59.8 kB] 172s Get:190 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-sphinx all 8.1.3-4 [474 kB] 172s Get:191 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sphinxcontrib.jquery all 4.1-5 [6678 B] 172s Get:192 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sphinx-rtd-theme all 3.0.2+dfsg-2 [23.5 kB] 172s Get:193 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-msmb-theme all 1.2.0-4 [35.4 kB] 172s Get:194 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-netcdf4 ppc64el 1.7.2-1build2 [896 kB] 172s Get:195 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 174s Get:196 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas-lib ppc64el 2.2.3+dfsg-8 [7343 kB] 175s Get:197 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas all 2.2.3+dfsg-8 [3112 kB] 175s Get:198 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pluggy all 1.5.0-1 [21.0 kB] 175s Get:199 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-six all 1.17.0-1 [13.2 kB] 175s Get:200 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pybtex all 0.24.0-4 [70.0 kB] 175s Get:201 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pybtex-docutils all 1.0.2-1 [7176 B] 175s Get:202 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pytest all 8.3.4-1 [252 kB] 176s Get:203 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-seaborn all 0.13.2-4.1 [225 kB] 176s Get:204 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sklearn-lib ppc64el 1.4.2+dfsg-7build1 [6473 kB] 176s Get:205 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sklearn all 1.4.2+dfsg-7build1 [2258 kB] 177s Get:206 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sphinx-sitemap all 2.6.0-1 [6674 B] 177s Get:207 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-sphinxcontrib.bibtex all 2.6.2-1 [25.2 kB] 177s Fetched 228 MB in 23s (10.1 MB/s) 177s Selecting previously unselected package python3.12-minimal. 177s (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 ... 106313 files and directories currently installed.) 177s Preparing to unpack .../000-python3.12-minimal_3.12.9-1_ppc64el.deb ... 177s Unpacking python3.12-minimal (3.12.9-1) ... 177s Selecting previously unselected package fonts-lato. 177s Preparing to unpack .../001-fonts-lato_2.015-1_all.deb ... 177s Unpacking fonts-lato (2.015-1) ... 178s Selecting previously unselected package sgml-base. 178s Preparing to unpack .../002-sgml-base_1.31_all.deb ... 178s Unpacking sgml-base (1.31) ... 178s Selecting previously unselected package python3.12. 178s Preparing to unpack .../003-python3.12_3.12.9-1_ppc64el.deb ... 178s Unpacking python3.12 (3.12.9-1) ... 178s Selecting previously unselected package m4. 178s Preparing to unpack .../004-m4_1.4.19-5_ppc64el.deb ... 178s Unpacking m4 (1.4.19-5) ... 178s Selecting previously unselected package autoconf. 178s Preparing to unpack .../005-autoconf_2.72-3_all.deb ... 178s Unpacking autoconf (2.72-3) ... 178s Selecting previously unselected package autotools-dev. 178s Preparing to unpack .../006-autotools-dev_20220109.1_all.deb ... 178s Unpacking autotools-dev (20220109.1) ... 178s Selecting previously unselected package automake. 178s Preparing to unpack .../007-automake_1%3a1.17-3_all.deb ... 178s Unpacking automake (1:1.17-3) ... 178s Selecting previously unselected package autopoint. 178s Preparing to unpack .../008-autopoint_0.23.1-1_all.deb ... 178s Unpacking autopoint (0.23.1-1) ... 178s Selecting previously unselected package libtcl8.6:ppc64el. 178s Preparing to unpack .../009-libtcl8.6_8.6.16+dfsg-1_ppc64el.deb ... 178s Unpacking libtcl8.6:ppc64el (8.6.16+dfsg-1) ... 178s Selecting previously unselected package fonts-dejavu-mono. 178s Preparing to unpack .../010-fonts-dejavu-mono_2.37-8_all.deb ... 178s Unpacking fonts-dejavu-mono (2.37-8) ... 178s Selecting previously unselected package fonts-dejavu-core. 178s Preparing to unpack .../011-fonts-dejavu-core_2.37-8_all.deb ... 178s Unpacking fonts-dejavu-core (2.37-8) ... 178s Selecting previously unselected package libfontenc1:ppc64el. 178s Preparing to unpack .../012-libfontenc1_1%3a1.1.8-1build1_ppc64el.deb ... 178s Unpacking libfontenc1:ppc64el (1:1.1.8-1build1) ... 178s Selecting previously unselected package x11-common. 178s Preparing to unpack .../013-x11-common_1%3a7.7+23ubuntu3_all.deb ... 178s Unpacking x11-common (1:7.7+23ubuntu3) ... 178s Selecting previously unselected package xfonts-encodings. 178s Preparing to unpack .../014-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 178s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 178s Selecting previously unselected package xfonts-utils. 178s Preparing to unpack .../015-xfonts-utils_1%3a7.7+7_ppc64el.deb ... 178s Unpacking xfonts-utils (1:7.7+7) ... 178s Selecting previously unselected package fonts-urw-base35. 178s Preparing to unpack .../016-fonts-urw-base35_20200910-8_all.deb ... 178s Unpacking fonts-urw-base35 (20200910-8) ... 178s Selecting previously unselected package fontconfig-config. 178s Preparing to unpack .../017-fontconfig-config_2.15.0-1.1ubuntu2_ppc64el.deb ... 178s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 178s Selecting previously unselected package libfontconfig1:ppc64el. 178s Preparing to unpack .../018-libfontconfig1_2.15.0-1.1ubuntu2_ppc64el.deb ... 178s Unpacking libfontconfig1:ppc64el (2.15.0-1.1ubuntu2) ... 178s Selecting previously unselected package libxrender1:ppc64el. 178s Preparing to unpack .../019-libxrender1_1%3a0.9.10-1.1build1_ppc64el.deb ... 178s Unpacking libxrender1:ppc64el (1:0.9.10-1.1build1) ... 178s Selecting previously unselected package libxft2:ppc64el. 178s Preparing to unpack .../020-libxft2_2.3.6-1build1_ppc64el.deb ... 178s Unpacking libxft2:ppc64el (2.3.6-1build1) ... 178s Selecting previously unselected package libxss1:ppc64el. 178s Preparing to unpack .../021-libxss1_1%3a1.2.3-1build3_ppc64el.deb ... 178s Unpacking libxss1:ppc64el (1:1.2.3-1build3) ... 178s Selecting previously unselected package libtk8.6:ppc64el. 178s Preparing to unpack .../022-libtk8.6_8.6.16-1_ppc64el.deb ... 178s Unpacking libtk8.6:ppc64el (8.6.16-1) ... 179s Selecting previously unselected package tk8.6-blt2.5. 179s Preparing to unpack .../023-tk8.6-blt2.5_2.5.3+dfsg-7build1_ppc64el.deb ... 179s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 179s Selecting previously unselected package blt. 179s Preparing to unpack .../024-blt_2.5.3+dfsg-7build1_ppc64el.deb ... 179s Unpacking blt (2.5.3+dfsg-7build1) ... 179s Selecting previously unselected package libisl23:ppc64el. 179s Preparing to unpack .../025-libisl23_0.27-1_ppc64el.deb ... 179s Unpacking libisl23:ppc64el (0.27-1) ... 179s Selecting previously unselected package libmpc3:ppc64el. 179s Preparing to unpack .../026-libmpc3_1.3.1-1build2_ppc64el.deb ... 179s Unpacking libmpc3:ppc64el (1.3.1-1build2) ... 179s Selecting previously unselected package cpp-14-powerpc64le-linux-gnu. 179s Preparing to unpack .../027-cpp-14-powerpc64le-linux-gnu_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking cpp-14-powerpc64le-linux-gnu (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package cpp-14. 179s Preparing to unpack .../028-cpp-14_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking cpp-14 (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package cpp-powerpc64le-linux-gnu. 179s Preparing to unpack .../029-cpp-powerpc64le-linux-gnu_4%3a14.2.0-1ubuntu1_ppc64el.deb ... 179s Unpacking cpp-powerpc64le-linux-gnu (4:14.2.0-1ubuntu1) ... 179s Selecting previously unselected package cpp. 179s Preparing to unpack .../030-cpp_4%3a14.2.0-1ubuntu1_ppc64el.deb ... 179s Unpacking cpp (4:14.2.0-1ubuntu1) ... 179s Selecting previously unselected package libcc1-0:ppc64el. 179s Preparing to unpack .../031-libcc1-0_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libcc1-0:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libgomp1:ppc64el. 179s Preparing to unpack .../032-libgomp1_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libgomp1:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libitm1:ppc64el. 179s Preparing to unpack .../033-libitm1_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libitm1:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libasan8:ppc64el. 179s Preparing to unpack .../034-libasan8_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libasan8:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package liblsan0:ppc64el. 179s Preparing to unpack .../035-liblsan0_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking liblsan0:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libtsan2:ppc64el. 179s Preparing to unpack .../036-libtsan2_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libtsan2:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libubsan1:ppc64el. 179s Preparing to unpack .../037-libubsan1_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libubsan1:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libquadmath0:ppc64el. 179s Preparing to unpack .../038-libquadmath0_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libquadmath0:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package libgcc-14-dev:ppc64el. 179s Preparing to unpack .../039-libgcc-14-dev_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking libgcc-14-dev:ppc64el (14.2.0-17ubuntu1) ... 179s Selecting previously unselected package gcc-14-powerpc64le-linux-gnu. 179s Preparing to unpack .../040-gcc-14-powerpc64le-linux-gnu_14.2.0-17ubuntu1_ppc64el.deb ... 179s Unpacking gcc-14-powerpc64le-linux-gnu (14.2.0-17ubuntu1) ... 180s Selecting previously unselected package gcc-14. 180s Preparing to unpack .../041-gcc-14_14.2.0-17ubuntu1_ppc64el.deb ... 180s Unpacking gcc-14 (14.2.0-17ubuntu1) ... 180s Selecting previously unselected package gcc-powerpc64le-linux-gnu. 180s Preparing to unpack .../042-gcc-powerpc64le-linux-gnu_4%3a14.2.0-1ubuntu1_ppc64el.deb ... 180s Unpacking gcc-powerpc64le-linux-gnu (4:14.2.0-1ubuntu1) ... 180s Selecting previously unselected package gcc. 180s Preparing to unpack .../043-gcc_4%3a14.2.0-1ubuntu1_ppc64el.deb ... 180s Unpacking gcc (4:14.2.0-1ubuntu1) ... 180s Selecting previously unselected package libstdc++-14-dev:ppc64el. 180s Preparing to unpack .../044-libstdc++-14-dev_14.2.0-17ubuntu1_ppc64el.deb ... 180s Unpacking libstdc++-14-dev:ppc64el (14.2.0-17ubuntu1) ... 180s Selecting previously unselected package g++-14-powerpc64le-linux-gnu. 180s Preparing to unpack .../045-g++-14-powerpc64le-linux-gnu_14.2.0-17ubuntu1_ppc64el.deb ... 180s Unpacking g++-14-powerpc64le-linux-gnu (14.2.0-17ubuntu1) ... 180s Selecting previously unselected package g++-14. 180s Preparing to unpack .../046-g++-14_14.2.0-17ubuntu1_ppc64el.deb ... 180s Unpacking g++-14 (14.2.0-17ubuntu1) ... 180s Selecting previously unselected package g++-powerpc64le-linux-gnu. 180s Preparing to unpack .../047-g++-powerpc64le-linux-gnu_4%3a14.2.0-1ubuntu1_ppc64el.deb ... 180s Unpacking g++-powerpc64le-linux-gnu (4:14.2.0-1ubuntu1) ... 180s Selecting previously unselected package g++. 180s Preparing to unpack .../048-g++_4%3a14.2.0-1ubuntu1_ppc64el.deb ... 180s Unpacking g++ (4:14.2.0-1ubuntu1) ... 180s Selecting previously unselected package build-essential. 180s Preparing to unpack .../049-build-essential_12.10ubuntu1_ppc64el.deb ... 180s Unpacking build-essential (12.10ubuntu1) ... 180s Selecting previously unselected package cython3. 180s Preparing to unpack .../050-cython3_3.0.11+dfsg-2ubuntu1_ppc64el.deb ... 180s Unpacking cython3 (3.0.11+dfsg-2ubuntu1) ... 180s Selecting previously unselected package libdebhelper-perl. 180s Preparing to unpack .../051-libdebhelper-perl_13.24.1ubuntu2_all.deb ... 180s Unpacking libdebhelper-perl (13.24.1ubuntu2) ... 180s Selecting previously unselected package libtool. 180s Preparing to unpack .../052-libtool_2.5.4-3build1_all.deb ... 180s Unpacking libtool (2.5.4-3build1) ... 180s Selecting previously unselected package dh-autoreconf. 180s Preparing to unpack .../053-dh-autoreconf_20_all.deb ... 180s Unpacking dh-autoreconf (20) ... 180s Selecting previously unselected package libarchive-zip-perl. 180s Preparing to unpack .../054-libarchive-zip-perl_1.68-1_all.deb ... 180s Unpacking libarchive-zip-perl (1.68-1) ... 180s Selecting previously unselected package libfile-stripnondeterminism-perl. 180s Preparing to unpack .../055-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... 180s Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... 180s Selecting previously unselected package dh-strip-nondeterminism. 180s Preparing to unpack .../056-dh-strip-nondeterminism_1.14.1-2_all.deb ... 180s Unpacking dh-strip-nondeterminism (1.14.1-2) ... 180s Selecting previously unselected package debugedit. 180s Preparing to unpack .../057-debugedit_1%3a5.1-2_ppc64el.deb ... 180s Unpacking debugedit (1:5.1-2) ... 180s Selecting previously unselected package dwz. 180s Preparing to unpack .../058-dwz_0.15-1build6_ppc64el.deb ... 180s Unpacking dwz (0.15-1build6) ... 180s Selecting previously unselected package gettext. 180s Preparing to unpack .../059-gettext_0.23.1-1_ppc64el.deb ... 180s Unpacking gettext (0.23.1-1) ... 180s Selecting previously unselected package intltool-debian. 180s Preparing to unpack .../060-intltool-debian_0.35.0+20060710.6_all.deb ... 180s Unpacking intltool-debian (0.35.0+20060710.6) ... 181s Selecting previously unselected package po-debconf. 181s Preparing to unpack .../061-po-debconf_1.0.21+nmu1_all.deb ... 181s Unpacking po-debconf (1.0.21+nmu1) ... 181s Selecting previously unselected package debhelper. 181s Preparing to unpack .../062-debhelper_13.24.1ubuntu2_all.deb ... 181s Unpacking debhelper (13.24.1ubuntu2) ... 181s Selecting previously unselected package dh-python. 181s Preparing to unpack .../063-dh-python_6.20250108_all.deb ... 181s Unpacking dh-python (6.20250108) ... 181s Selecting previously unselected package xml-core. 181s Preparing to unpack .../064-xml-core_0.19_all.deb ... 181s Unpacking xml-core (0.19) ... 181s Selecting previously unselected package docutils-common. 181s Preparing to unpack .../065-docutils-common_0.21.2+dfsg-2_all.deb ... 181s Unpacking docutils-common (0.21.2+dfsg-2) ... 181s Selecting previously unselected package fonts-font-awesome. 181s Preparing to unpack .../066-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 181s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 181s Selecting previously unselected package fonts-lyx. 181s Preparing to unpack .../067-fonts-lyx_2.4.3-1_all.deb ... 181s Unpacking fonts-lyx (2.4.3-1) ... 181s Selecting previously unselected package fonts-mathjax. 181s Preparing to unpack .../068-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 181s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 181s Selecting previously unselected package libaec0:ppc64el. 181s Preparing to unpack .../069-libaec0_1.1.3-1_ppc64el.deb ... 181s Unpacking libaec0:ppc64el (1.1.3-1) ... 181s Selecting previously unselected package libblas3:ppc64el. 181s Preparing to unpack .../070-libblas3_3.12.1-2_ppc64el.deb ... 181s Unpacking libblas3:ppc64el (3.12.1-2) ... 181s Selecting previously unselected package libpixman-1-0:ppc64el. 181s Preparing to unpack .../071-libpixman-1-0_0.44.0-3_ppc64el.deb ... 181s Unpacking libpixman-1-0:ppc64el (0.44.0-3) ... 181s Selecting previously unselected package libxcb-render0:ppc64el. 181s Preparing to unpack .../072-libxcb-render0_1.17.0-2_ppc64el.deb ... 181s Unpacking libxcb-render0:ppc64el (1.17.0-2) ... 181s Selecting previously unselected package libxcb-shm0:ppc64el. 181s Preparing to unpack .../073-libxcb-shm0_1.17.0-2_ppc64el.deb ... 181s Unpacking libxcb-shm0:ppc64el (1.17.0-2) ... 181s Selecting previously unselected package libcairo2:ppc64el. 181s Preparing to unpack .../074-libcairo2_1.18.2-2_ppc64el.deb ... 181s Unpacking libcairo2:ppc64el (1.18.2-2) ... 181s Selecting previously unselected package libdeflate0:ppc64el. 181s Preparing to unpack .../075-libdeflate0_1.23-1_ppc64el.deb ... 181s Unpacking libdeflate0:ppc64el (1.23-1) ... 181s Selecting previously unselected package libexpat1-dev:ppc64el. 181s Preparing to unpack .../076-libexpat1-dev_2.6.4-1_ppc64el.deb ... 181s Unpacking libexpat1-dev:ppc64el (2.6.4-1) ... 181s Selecting previously unselected package libgfortran5:ppc64el. 181s Preparing to unpack .../077-libgfortran5_14.2.0-17ubuntu1_ppc64el.deb ... 181s Unpacking libgfortran5:ppc64el (14.2.0-17ubuntu1) ... 181s Selecting previously unselected package libgraphite2-3:ppc64el. 181s Preparing to unpack .../078-libgraphite2-3_1.3.14-2ubuntu1_ppc64el.deb ... 181s Unpacking libgraphite2-3:ppc64el (1.3.14-2ubuntu1) ... 181s Selecting previously unselected package libharfbuzz0b:ppc64el. 181s Preparing to unpack .../079-libharfbuzz0b_10.2.0-1_ppc64el.deb ... 181s Unpacking libharfbuzz0b:ppc64el (10.2.0-1) ... 181s Selecting previously unselected package libsz2:ppc64el. 181s Preparing to unpack .../080-libsz2_1.1.3-1_ppc64el.deb ... 181s Unpacking libsz2:ppc64el (1.1.3-1) ... 181s Selecting previously unselected package libhdf5-310:ppc64el. 181s Preparing to unpack .../081-libhdf5-310_1.14.5+repack-3_ppc64el.deb ... 181s Unpacking libhdf5-310:ppc64el (1.14.5+repack-3) ... 181s Selecting previously unselected package libhdf5-hl-310:ppc64el. 181s Preparing to unpack .../082-libhdf5-hl-310_1.14.5+repack-3_ppc64el.deb ... 181s Unpacking libhdf5-hl-310:ppc64el (1.14.5+repack-3) ... 182s Selecting previously unselected package libimagequant0:ppc64el. 182s Preparing to unpack .../083-libimagequant0_2.18.0-1build1_ppc64el.deb ... 182s Unpacking libimagequant0:ppc64el (2.18.0-1build1) ... 182s Selecting previously unselected package libjpeg-turbo8:ppc64el. 182s Preparing to unpack .../084-libjpeg-turbo8_2.1.5-3ubuntu2_ppc64el.deb ... 182s Unpacking libjpeg-turbo8:ppc64el (2.1.5-3ubuntu2) ... 182s Selecting previously unselected package libjpeg8:ppc64el. 182s Preparing to unpack .../085-libjpeg8_8c-2ubuntu11_ppc64el.deb ... 182s Unpacking libjpeg8:ppc64el (8c-2ubuntu11) ... 182s Selecting previously unselected package libjs-jquery. 182s Preparing to unpack .../086-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 182s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 182s Selecting previously unselected package libjs-jquery-ui. 182s Preparing to unpack .../087-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 182s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 182s Selecting previously unselected package libjs-underscore. 182s Preparing to unpack .../088-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 182s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 182s Selecting previously unselected package libjs-sphinxdoc. 182s Preparing to unpack .../089-libjs-sphinxdoc_8.1.3-4_all.deb ... 182s Unpacking libjs-sphinxdoc (8.1.3-4) ... 182s Selecting previously unselected package libjson-perl. 182s Preparing to unpack .../090-libjson-perl_4.10000-1_all.deb ... 182s Unpacking libjson-perl (4.10000-1) ... 182s Selecting previously unselected package liblapack3:ppc64el. 182s Preparing to unpack .../091-liblapack3_3.12.1-2_ppc64el.deb ... 182s Unpacking liblapack3:ppc64el (3.12.1-2) ... 182s Selecting previously unselected package liblbfgsb0:ppc64el. 182s Preparing to unpack .../092-liblbfgsb0_3.0+dfsg.4-1build1_ppc64el.deb 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zlib1g-dev:ppc64el (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 182s Selecting previously unselected package libpython3.13-dev:ppc64el. 182s Preparing to unpack .../098-libpython3.13-dev_3.13.2-1_ppc64el.deb ... 182s Unpacking libpython3.13-dev:ppc64el (3.13.2-1) ... 182s Selecting previously unselected package libpython3-dev:ppc64el. 182s Preparing to unpack .../099-libpython3-dev_3.13.1-1~exp2_ppc64el.deb ... 182s Unpacking libpython3-dev:ppc64el (3.13.1-1~exp2) ... 182s Selecting previously unselected package libpython3.12-dev:ppc64el. 182s Preparing to unpack .../100-libpython3.12-dev_3.12.9-1_ppc64el.deb ... 182s Unpacking libpython3.12-dev:ppc64el (3.12.9-1) ... 182s Selecting previously unselected package libpython3-all-dev:ppc64el. 182s Preparing to unpack .../101-libpython3-all-dev_3.13.1-1~exp2_ppc64el.deb ... 182s Unpacking libpython3-all-dev:ppc64el (3.13.1-1~exp2) ... 182s Selecting previously unselected package libqhull-r8.0:ppc64el. 182s Preparing to unpack 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Unpacking libtiff6:ppc64el (4.5.1+git230720-4ubuntu4) ... 183s Selecting previously unselected package libwebpdemux2:ppc64el. 183s Preparing to unpack .../108-libwebpdemux2_1.5.0-0.1_ppc64el.deb ... 183s Unpacking libwebpdemux2:ppc64el (1.5.0-0.1) ... 183s Selecting previously unselected package libwebpmux3:ppc64el. 183s Preparing to unpack .../109-libwebpmux3_1.5.0-0.1_ppc64el.deb ... 183s Unpacking libwebpmux3:ppc64el (1.5.0-0.1) ... 183s Selecting previously unselected package libxslt1.1:ppc64el. 183s Preparing to unpack .../110-libxslt1.1_1.1.39-0exp1ubuntu2_ppc64el.deb ... 183s Unpacking libxslt1.1:ppc64el (1.1.39-0exp1ubuntu2) ... 183s Selecting previously unselected package python3-packaging. 183s Preparing to unpack .../111-python3-packaging_24.2-1_all.deb ... 183s Unpacking python3-packaging (24.2-1) ... 183s Selecting previously unselected package python3-pyproject-hooks. 183s Preparing to unpack .../112-python3-pyproject-hooks_1.2.0-1_all.deb ... 183s Unpacking python3-pyproject-hooks (1.2.0-1) ... 183s Selecting previously unselected package python3-toml. 183s Preparing to unpack .../113-python3-toml_0.10.2-1_all.deb ... 183s Unpacking python3-toml (0.10.2-1) ... 183s Selecting previously unselected package python3-wheel. 183s Preparing to unpack .../114-python3-wheel_0.45.1-1_all.deb ... 183s Unpacking python3-wheel (0.45.1-1) ... 183s Selecting previously unselected package python3-build. 183s Preparing to unpack .../115-python3-build_1.2.2-1_all.deb ... 183s Unpacking python3-build (1.2.2-1) ... 183s Selecting previously unselected package python3-installer. 183s Preparing to unpack .../116-python3-installer_0.7.0+dfsg1-3_all.deb ... 183s Unpacking python3-installer (0.7.0+dfsg1-3) ... 183s Selecting previously unselected package pybuild-plugin-pyproject. 183s Preparing to unpack .../117-pybuild-plugin-pyproject_6.20250108_all.deb ... 183s Unpacking pybuild-plugin-pyproject (6.20250108) ... 183s Selecting previously unselected package python-matplotlib-data. 183s Preparing to unpack .../118-python-matplotlib-data_3.8.3-3ubuntu2_all.deb ... 183s Unpacking python-matplotlib-data (3.8.3-3ubuntu2) ... 183s Selecting previously unselected package libjs-mathjax. 183s Preparing to unpack .../119-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 183s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 184s Selecting previously unselected package python-mdanalysis-doc. 184s Preparing to unpack .../120-python-mdanalysis-doc_2.8.0-1_all.deb ... 184s Unpacking python-mdanalysis-doc (2.8.0-1) ... 184s Selecting previously unselected package python3-all. 184s Preparing to unpack .../121-python3-all_3.13.1-1~exp2_ppc64el.deb ... 184s Unpacking python3-all (3.13.1-1~exp2) ... 184s Selecting previously unselected package python3.13-dev. 184s Preparing to unpack .../122-python3.13-dev_3.13.2-1_ppc64el.deb ... 184s Unpacking python3.13-dev (3.13.2-1) ... 184s Selecting previously unselected package python3-dev. 184s Preparing to unpack .../123-python3-dev_3.13.1-1~exp2_ppc64el.deb ... 184s Unpacking python3-dev (3.13.1-1~exp2) ... 184s Selecting previously unselected package python3.12-dev. 184s Preparing to unpack .../124-python3.12-dev_3.12.9-1_ppc64el.deb ... 184s Unpacking python3.12-dev (3.12.9-1) ... 184s Selecting previously unselected package python3-all-dev. 184s Preparing to unpack .../125-python3-all-dev_3.13.1-1~exp2_ppc64el.deb ... 184s Unpacking python3-all-dev (3.13.1-1~exp2) ... 184s Selecting previously unselected package python3-numpy. 184s Preparing to unpack .../126-python3-numpy_1%3a1.26.4+ds-13_ppc64el.deb ... 184s Unpacking python3-numpy (1:1.26.4+ds-13) ... 184s Selecting previously unselected package python3.12-tk. 184s Preparing to unpack .../127-python3.12-tk_3.12.9-1_ppc64el.deb ... 184s Unpacking python3.12-tk (3.12.9-1) ... 184s Selecting previously unselected package python3.13-tk. 184s Preparing to unpack .../128-python3.13-tk_3.13.2-1_ppc64el.deb ... 184s Unpacking python3.13-tk (3.13.2-1) ... 184s Selecting previously unselected package python3-tk:ppc64el. 184s Preparing to unpack .../129-python3-tk_3.13.1-1_ppc64el.deb ... 184s Unpacking python3-tk:ppc64el (3.13.1-1) ... 184s Selecting previously unselected package python3-pil.imagetk:ppc64el. 184s Preparing to unpack .../130-python3-pil.imagetk_11.1.0-5_ppc64el.deb ... 184s Unpacking python3-pil.imagetk:ppc64el (11.1.0-5) ... 184s Selecting previously unselected package libopenjp2-7:ppc64el. 184s Preparing to unpack .../131-libopenjp2-7_2.5.0-2ubuntu3_ppc64el.deb ... 184s Unpacking libopenjp2-7:ppc64el (2.5.0-2ubuntu3) ... 184s Selecting previously unselected package python3-pil:ppc64el. 184s Preparing to unpack .../132-python3-pil_11.1.0-5_ppc64el.deb ... 184s Unpacking python3-pil:ppc64el (11.1.0-5) ... 184s Selecting previously unselected package python3-cairo. 184s Preparing to unpack .../133-python3-cairo_1.26.1-2build1_ppc64el.deb ... 184s Unpacking python3-cairo (1.26.1-2build1) ... 184s Selecting previously unselected package python3-freetype. 184s Preparing to unpack .../134-python3-freetype_2.5.1-1_all.deb ... 184s Unpacking python3-freetype (2.5.1-1) ... 185s Selecting previously unselected package python3-rlpycairo. 185s Preparing to unpack .../135-python3-rlpycairo_0.3.0-3_all.deb ... 185s Unpacking python3-rlpycairo (0.3.0-3) ... 185s Selecting previously unselected package python3-reportlab. 185s Preparing to unpack .../136-python3-reportlab_4.3.0-1_all.deb ... 185s Unpacking python3-reportlab (4.3.0-1) ... 185s Selecting previously unselected package w3c-sgml-lib. 185s Preparing to unpack .../137-w3c-sgml-lib_1.3-3_all.deb ... 185s Unpacking w3c-sgml-lib (1.3-3) ... 185s Selecting previously unselected package python3-biopython. 185s Preparing to unpack .../138-python3-biopython_1.85+dfsg-2_ppc64el.deb ... 185s Unpacking python3-biopython (1.85+dfsg-2) ... 185s Selecting previously unselected package python3-brotli. 185s Preparing to unpack .../139-python3-brotli_1.1.0-2build3_ppc64el.deb ... 185s Unpacking python3-brotli (1.1.0-2build3) ... 185s Selecting previously unselected package python3-cftime. 185s Preparing to unpack .../140-python3-cftime_1.6.4-1build2_ppc64el.deb ... 185s Unpacking python3-cftime (1.6.4-1build2) ... 185s Selecting previously unselected package python3-lxml:ppc64el. 185s Preparing to unpack .../141-python3-lxml_5.3.1-1_ppc64el.deb ... 185s Unpacking python3-lxml:ppc64el (5.3.1-1) ... 185s Selecting previously unselected package python3-citeproc. 185s Preparing to unpack .../142-python3-citeproc_0.6.0-3_all.deb ... 185s Unpacking python3-citeproc (0.6.0-3) ... 185s Selecting previously unselected package python3-contourpy. 185s Preparing to unpack .../143-python3-contourpy_1.3.1-1_ppc64el.deb ... 185s Unpacking python3-contourpy (1.3.1-1) ... 185s Selecting previously unselected package python3-cycler. 185s Preparing to unpack .../144-python3-cycler_0.12.1-1_all.deb ... 185s Unpacking python3-cycler (0.12.1-1) ... 185s Selecting previously unselected package python3-dateutil. 185s Preparing to unpack .../145-python3-dateutil_2.9.0-3_all.deb ... 185s Unpacking python3-dateutil (2.9.0-3) ... 185s Selecting previously unselected package python3-decorator. 185s Preparing to unpack .../146-python3-decorator_5.1.1-5_all.deb ... 185s Unpacking python3-decorator (5.1.1-5) ... 185s Selecting previously unselected package python3-defusedxml. 185s Preparing to unpack .../147-python3-defusedxml_0.7.1-3_all.deb ... 185s Unpacking python3-defusedxml (0.7.1-3) ... 185s Selecting previously unselected package python3-roman. 185s Preparing to unpack .../148-python3-roman_5.0-1_all.deb ... 185s Unpacking python3-roman (5.0-1) ... 185s Selecting previously unselected package python3-docutils. 185s Preparing to unpack .../149-python3-docutils_0.21.2+dfsg-2_all.deb ... 185s Unpacking python3-docutils (0.21.2+dfsg-2) ... 185s Selecting previously unselected package python3-looseversion. 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185s Selecting previously unselected package python3-platformdirs. 185s Preparing to unpack .../156-python3-platformdirs_4.3.6-1_all.deb ... 185s Unpacking python3-platformdirs (4.3.6-1) ... 185s Selecting previously unselected package python3-fs. 185s Preparing to unpack .../157-python3-fs_2.4.16-6_all.deb ... 185s Unpacking python3-fs (2.4.16-6) ... 185s Selecting previously unselected package python3-lz4. 185s Preparing to unpack .../158-python3-lz4_4.4.0+dfsg-1_ppc64el.deb ... 185s Unpacking python3-lz4 (4.4.0+dfsg-1) ... 185s Selecting previously unselected package python3-scipy. 185s Preparing to unpack .../159-python3-scipy_1.14.1-4ubuntu1_ppc64el.deb ... 185s Unpacking python3-scipy (1.14.1-4ubuntu1) ... 186s Selecting previously unselected package python3-mpmath. 186s Preparing to unpack .../160-python3-mpmath_1.3.0-1_all.deb ... 186s Unpacking python3-mpmath (1.3.0-1) ... 186s Selecting previously unselected package python3-sympy. 186s Preparing to unpack .../161-python3-sympy_1.13.3-1_all.deb ... 186s Unpacking python3-sympy (1.13.3-1) ... 187s Selecting previously unselected package python3-ufolib2. 187s Preparing to unpack .../162-python3-ufolib2_0.17.0+dfsg1-1_all.deb ... 187s Unpacking python3-ufolib2 (0.17.0+dfsg1-1) ... 187s Selecting previously unselected package python3-unicodedata2. 187s Preparing to unpack .../163-python3-unicodedata2_15.1.0+ds-1build2_ppc64el.deb ... 187s Unpacking python3-unicodedata2 (15.1.0+ds-1build2) ... 187s Selecting previously unselected package unicode-data. 187s Preparing to unpack .../164-unicode-data_15.1.0-1_all.deb ... 187s Unpacking unicode-data (15.1.0-1) ... 187s Selecting previously unselected package python3-fonttools. 187s Preparing to unpack .../165-python3-fonttools_4.55.3-2_ppc64el.deb ... 187s Unpacking python3-fonttools (4.55.3-2) ... 187s Selecting previously unselected package sphinx-rtd-theme-common. 187s Preparing to unpack .../166-sphinx-rtd-theme-common_3.0.2+dfsg-2_all.deb ... 187s Unpacking sphinx-rtd-theme-common (3.0.2+dfsg-2) ... 187s Selecting previously unselected package python3-mrcfile. 187s Preparing to unpack .../167-python3-mrcfile_1.5.4-2_all.deb ... 187s Unpacking python3-mrcfile (1.5.4-2) ... 187s Selecting previously unselected package python3-griddataformats. 187s Preparing to unpack .../168-python3-griddataformats_1.0.2-2_all.deb ... 187s Unpacking python3-griddataformats (1.0.2-2) ... 187s Selecting previously unselected package python3-gsd. 187s Preparing to unpack .../169-python3-gsd_3.3.0-1build2_ppc64el.deb ... 187s Unpacking python3-gsd (3.3.0-1build2) ... 187s Selecting previously unselected package python3-h5py-serial. 187s Preparing to unpack .../170-python3-h5py-serial_3.12.1-1_ppc64el.deb ... 187s Unpacking python3-h5py-serial (3.12.1-1) ... 187s Selecting previously unselected package python3-h5py. 187s Preparing to unpack .../171-python3-h5py_3.12.1-1_all.deb ... 187s Unpacking python3-h5py (3.12.1-1) ... 187s Selecting previously unselected package python3-sortedcontainers. 187s Preparing to unpack .../172-python3-sortedcontainers_2.4.0-2_all.deb ... 187s Unpacking python3-sortedcontainers (2.4.0-2) ... 187s Selecting previously unselected package python3-hypothesis. 187s Preparing to unpack .../173-python3-hypothesis_6.125.2-1_all.deb ... 187s Unpacking python3-hypothesis (6.125.2-1) ... 187s Selecting previously unselected package python3-imagesize. 187s Preparing to unpack .../174-python3-imagesize_1.4.1-1_all.deb ... 187s Unpacking python3-imagesize (1.4.1-1) ... 187s Selecting previously unselected package python3-iniconfig. 187s Preparing to unpack .../175-python3-iniconfig_1.1.1-2_all.deb ... 187s Unpacking python3-iniconfig (1.1.1-2) ... 187s Selecting previously unselected package python3-joblib. 187s Preparing to unpack .../176-python3-joblib_1.4.2-2_all.deb ... 187s Unpacking python3-joblib (1.4.2-2) ... 187s Selecting previously unselected package python3-kiwisolver. 187s Preparing to unpack .../177-python3-kiwisolver_1.4.7-3_ppc64el.deb ... 187s Unpacking python3-kiwisolver (1.4.7-3) ... 187s Selecting previously unselected package python3-latexcodec. 187s Preparing to unpack .../178-python3-latexcodec_3.0.0-1_all.deb ... 187s Unpacking python3-latexcodec (3.0.0-1) ... 187s Selecting previously unselected package python3-matplotlib. 187s Preparing to unpack .../179-python3-matplotlib_3.8.3-3ubuntu2_ppc64el.deb ... 187s Unpacking python3-matplotlib (3.8.3-3ubuntu2) ... 187s Selecting previously unselected package python3-mda-xdrlib. 187s Preparing to unpack .../180-python3-mda-xdrlib_0.2.0-3_all.deb ... 187s Unpacking python3-mda-xdrlib (0.2.0-3) ... 187s Selecting previously unselected package python3-msgpack. 187s Preparing to unpack .../181-python3-msgpack_1.0.3-3build3_ppc64el.deb ... 187s Unpacking python3-msgpack (1.0.3-3build3) ... 187s Selecting previously unselected package python3-mmtf. 187s Preparing to unpack .../182-python3-mmtf_1.1.3-1_all.deb ... 187s Unpacking python3-mmtf (1.1.3-1) ... 188s Selecting previously unselected package python3-threadpoolctl. 188s Preparing to unpack .../183-python3-threadpoolctl_3.1.0-1_all.deb ... 188s Unpacking python3-threadpoolctl (3.1.0-1) ... 188s Selecting previously unselected package python3-tqdm. 188s Preparing to unpack .../184-python3-tqdm_4.67.1-2_all.deb ... 188s Unpacking python3-tqdm (4.67.1-2) ... 188s Selecting previously unselected package python3-mdanalysis. 188s Preparing to unpack .../185-python3-mdanalysis_2.8.0-1_ppc64el.deb ... 188s Unpacking python3-mdanalysis (2.8.0-1) ... 188s Selecting previously unselected package sphinx-common. 188s Preparing to unpack .../186-sphinx-common_8.1.3-4_all.deb ... 188s Unpacking sphinx-common (8.1.3-4) ... 188s Selecting previously unselected package python3-alabaster. 188s Preparing to unpack .../187-python3-alabaster_0.7.16-0.1_all.deb ... 188s Unpacking python3-alabaster (0.7.16-0.1) ... 188s Selecting previously unselected package 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298s Setting up python3-sphinx-sitemap (2.6.0-1) ... 299s Setting up python3-sphinxcontrib.jquery (4.1-5) ... 299s Setting up python3-sphinx-rtd-theme (3.0.2+dfsg-2) ... 299s Setting up python3-msmb-theme (1.2.0-4) ... 300s autopkgtest [04:50:56]: test test-mdanalysis: [----------------------- 300s skipping tests with SKIP_TEST_LIST=test_all_import[.analysis.hole2] journal.pcbi.1004568 312s ============================= test session starts ============================== 312s platform linux -- Python 3.12.9, pytest-8.3.4, pluggy-1.5.0 312s rootdir: /tmp/autopkgtest.408MiA/build.C3a/src 312s plugins: typeguard-4.4.1, hypothesis-6.125.2 312s collected 19663 items / 2 deselected / 6 skipped / 19661 selected 312s 317s testsuite/MDAnalysisTests/analysis/test_align.py ....................... 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[100%] 1368s 1368s = 19100 passed, 558 skipped, 2 deselected, 7 xfailed, 2 xpassed, 104647 warnings in 1067.60s (0:17:47) = 1388s 1388s DueCredit Report: 1388s - Molecular simulation analysis library / MDAnalysis (v 2.8.0) [1, 2] 1388s - Iterative Calculation of Opimal Reference / MDAnalysis.analysis.align.iterative_average (v 2.8.0) [3] 1388s - Bond-Angle-Torsions Coordinate Transformation / MDAnalysis.analysis.bat.BAT (v 2.8.0) [4] 1388s - Dielectric analysis / MDAnalysis.analysis.dielectric (v 2.8.0) [5] 1388s - DSSP algorithm description / MDAnalysis.analysis.dssp (v 2.8.0) [6] 1388s - ENCORE Ensemble Comparison / MDAnalysis.analysis.encore (v 2.8.0) [7] 1388s - Hydrogen bond analysis implementation / MDAnalysis.analysis.hydrogenbonds.hbond_analysis (v 2.8.0) [8] 1388s - Hydrogen bonding autocorrelation time / MDAnalysis.analysis.hydrogenbonds.hbond_autocorrel (v 2.8.0) [9] 1388s - LeafletFinder algorithm / MDAnalysis.analysis.leaflet (v 2.8.0) [2] 1388s - Mean Squared Displacements with tidynamics, FCA fast correlation algorithm / MDAnalysis.analysis.msd (v 2.8.0) [10, 11] 1388s - Cumulative overlap / MDAnalysis.analysis.pca (v 2.8.0) [12] 1388s - Specifications of the H5MD standard, MDAnalysis trajectory reader/writer of the H5MDformat / MDAnalysis.coordinates.H5MD (v 1.1, 2.8.0) [13, 14] 1388s - MMTF Reader / MDAnalysis.coordinates.MMTF (v 2.8.0) [15] 1388s - The TNG paper / MDAnalysis.coordinates.TNG (v 2.8.0) [16] 1388s - QCProt implementation / MDAnalysis.lib.qcprot (v 2.8.0) [17, 18] 1388s - MMTF Parser / MDAnalysis.topology.MMTFParser (v 2.8.0) [15] 1388s - Works through the orthogonal case for unwrapping, and proposes the non-orthogonal approach. / MDAnalysis.transformations.nojump (v 2.8.0) [19] 1388s - Scientific tools library / numpy (v 1.26.4) [20] 1388s 1388s 2 packages cited 1388s 16 modules cited 1388s 0 functions cited 1388s 1388s References 1388s ---------- 1388s 1388s [1] Gowers, R. et al., 2016. MDAnalysis: A Python Package for the Rapid Analysis of Molecular Dynamics Simulations. In Proceedings of the 15th Python in Science Conference. SciPy. SciPy, pp. 98–105. 1388s [2] Michaud‐Agrawal, N. et al., 2011. MDAnalysis: A toolkit for the analysis of molecular dynamics simulations. Journal of Computational Chemistry, 32(10), pp.2319–2327. 1388s [3] Linke, M., Köfinger, J. & Hummer, G., 2018. Fully Anisotropic Rotational Diffusion Tensor from Molecular Dynamics Simulations. The Journal of Physical Chemistry B, 122(21), pp.5630–5639. 1388s [4] Minh, D.D.L., 2019. Alchemical Grid Dock (AlGDock): Binding Free Energy Calculations between Flexible Ligands and Rigid Receptors. Journal of Computational Chemistry, 41(7), pp.715–730. 1388s [5] Neumann, M., 1983. Dipole moment fluctuation formulas in computer simulations of polar systems. Molecular Physics, 50(4), pp.841–858. 1388s [6] Kabsch, W. & Sander, C., 1983. Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features. Biopolymers, 22(12), pp.2577–2637. 1388s [7] Tiberti, M. et al., 2015. ENCORE: Software for Quantitative Ensemble Comparison B. L. de Groot, ed.. PLOS Computational Biology, 11(10), p.1004415. 1388s [8] Smith, P. et al., 2019. On the interaction of hyaluronic acid with synovial fluid lipid membranes. Physical Chemistry Chemical Physics, 21(19), pp.9845–9857. 1388s [9] Gowers, R.J. & Carbone, P., 2015. A multiscale approach to model hydrogen bonding: The case of polyamide. The Journal of Chemical Physics, 142(22). 1388s [10] de Buyl, P., 2018. tidynamics: A tiny package to compute the dynamics of stochastic and molecular simulations. Journal of Open Source Software, 3(28), p.877. 1388s [11] Calandrini, V. et al., 2011. nMoldyn - Interfacing spectroscopic experiments, molecular dynamics simulations and models for time correlation functions. École thématique de la Société Française de la Neutronique, 12, pp.201–232. 1388s [12] Yang, L. et al., 2008. Close Correspondence between the Motions from Principal Component Analysis of Multiple HIV-1 Protease Structures and Elastic Network Modes. Structure, 16(2), pp.321–330. 1388s [13] Jakupovic, E. & Beckstein, O., 2021. MPI-parallel Molecular Dynamics Trajectory Analysis with the H5MD Format in the MDAnalysis Python Package. In Proceedings of the 20th Python in Science Conference. SciPy. SciPy, pp. 40–48. 1388s [14] de Buyl, P., Colberg, P.H. & Höfling, F., 2014. H5MD: A structured, efficient, and portable file format for molecular data. Computer Physics Communications, 185(6), pp.1546–1553. 1388s [15] Bradley, A.R. et al., 2017. MMTF—An efficient file format for the transmission, visualization, and analysis of macromolecular structures D. Schneidman, ed.. PLOS Computational Biology, 13(6), p.1005575. 1388s [16] Lundborg, M. et al., 2013. An efficient and extensible format, library, and API for binary trajectory data from molecular simulations. Journal of Computational Chemistry, 35(3), pp.260–269. 1388s [17] Theobald, D.L., 2005. Rapid calculation of RMSDs using a quaternion-based characteristic polynomial. Acta Crystallographica Section A Foundations of Crystallography, 61(4), pp.478–480. 1388s [18] Liu, P., Agrafiotis, D.K. & Theobald, D.L., Fast determination of the optimal rotational matrix for macromolecular superpositions. Journal of Computational Chemistry, 31(7), pp.1561–1563. 1388s [19] Kulke, M. & Vermaas, J.V., 2022. Reversible Unwrapping Algorithm for Constant-Pressure Molecular Dynamics Simulations. Journal of Chemical Theory and Computation, 18(10), pp.6161–6171. 1388s [20] Van Der Walt, S., Colbert, S.C. & Varoquaux, G., 2011. The NumPy array: a structure for efficient numerical computation. Computing in Science & Engineering, 13(2), pp.22–30. 1400s ============================= test session starts ============================== 1400s platform linux -- Python 3.13.2, pytest-8.3.4, pluggy-1.5.0 1400s rootdir: /tmp/autopkgtest.408MiA/build.C3a/src 1400s plugins: typeguard-4.4.1, hypothesis-6.125.2 1400s collected 19667 items / 2 deselected / 6 skipped / 19665 selected 1400s 1405s testsuite/MDAnalysisTests/analysis/test_align.py ....................... [ 0%] 1421s .....................s.ss.s........ [ 0%] 1421s testsuite/MDAnalysisTests/analysis/test_atomicdistances.py ... [ 0%] 1421s testsuite/MDAnalysisTests/analysis/test_backends.py .......... [ 0%] 1428s testsuite/MDAnalysisTests/analysis/test_base.py ........................ [ 0%] 1449s ....................................................................... [ 0%] 1452s testsuite/MDAnalysisTests/analysis/test_bat.py ................... [ 0%] 1454s testsuite/MDAnalysisTests/analysis/test_contacts.py .................... 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[100%] 2368s 2368s = 19104 passed, 558 skipped, 2 deselected, 7 xfailed, 2 xpassed, 104648 warnings in 976.96s (0:16:16) = 2368s 2368s DueCredit Report: 2368s - Molecular simulation analysis library / MDAnalysis (v 2.8.0) [1, 2] 2368s - Iterative Calculation of Opimal Reference / MDAnalysis.analysis.align.iterative_average (v 2.8.0) [3] 2368s - Bond-Angle-Torsions Coordinate Transformation / MDAnalysis.analysis.bat.BAT (v 2.8.0) [4] 2368s - Dielectric analysis / MDAnalysis.analysis.dielectric (v 2.8.0) [5] 2368s - DSSP algorithm description / MDAnalysis.analysis.dssp (v 2.8.0) [6] 2368s - ENCORE Ensemble Comparison / MDAnalysis.analysis.encore (v 2.8.0) [7] 2368s - Hydrogen bond analysis implementation / MDAnalysis.analysis.hydrogenbonds.hbond_analysis (v 2.8.0) [8] 2368s - Hydrogen bonding autocorrelation time / MDAnalysis.analysis.hydrogenbonds.hbond_autocorrel (v 2.8.0) [9] 2368s - LeafletFinder algorithm / MDAnalysis.analysis.leaflet (v 2.8.0) [2] 2368s - Mean Squared Displacements with tidynamics, FCA fast correlation algorithm / MDAnalysis.analysis.msd (v 2.8.0) [10, 11] 2368s - Cumulative overlap / MDAnalysis.analysis.pca (v 2.8.0) [12] 2368s - Specifications of the H5MD standard, MDAnalysis trajectory reader/writer of the H5MDformat / MDAnalysis.coordinates.H5MD (v 2.8.0, 1.1) [13, 14] 2368s - MMTF Reader / MDAnalysis.coordinates.MMTF (v 2.8.0) [15] 2368s - The TNG paper / MDAnalysis.coordinates.TNG (v 2.8.0) [16] 2368s - QCProt implementation / MDAnalysis.lib.qcprot (v 2.8.0) [17, 18] 2368s - MMTF Parser / MDAnalysis.topology.MMTFParser (v 2.8.0) [15] 2368s - Works through the orthogonal case for unwrapping, and proposes the non-orthogonal approach. / MDAnalysis.transformations.nojump (v 2.8.0) [19] 2368s - Scientific tools library / numpy (v 1.26.4) [20] 2368s 2368s 2 packages cited 2368s 16 modules cited 2368s 0 functions cited 2368s 2368s References 2368s ---------- 2368s 2368s [1] Gowers, R. et al., 2016. MDAnalysis: A Python Package for the Rapid Analysis of Molecular Dynamics Simulations. In Proceedings of the 15th Python in Science Conference. SciPy. SciPy, pp. 98–105. 2368s [2] Michaud‐Agrawal, N. et al., 2011. MDAnalysis: A toolkit for the analysis of molecular dynamics simulations. Journal of Computational Chemistry, 32(10), pp.2319–2327. 2368s [3] Linke, M., Köfinger, J. & Hummer, G., 2018. Fully Anisotropic Rotational Diffusion Tensor from Molecular Dynamics Simulations. The Journal of Physical Chemistry B, 122(21), pp.5630–5639. 2368s [4] Minh, D.D.L., 2019. Alchemical Grid Dock (AlGDock): Binding Free Energy Calculations between Flexible Ligands and Rigid Receptors. Journal of Computational Chemistry, 41(7), pp.715–730. 2368s [5] Neumann, M., 1983. Dipole moment fluctuation formulas in computer simulations of polar systems. Molecular Physics, 50(4), pp.841–858. 2368s [6] Kabsch, W. & Sander, C., 1983. Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features. Biopolymers, 22(12), pp.2577–2637. 2368s [7] Tiberti, M. et al., 2015. ENCORE: Software for Quantitative Ensemble Comparison B. L. de Groot, ed.. PLOS Computational Biology, 11(10), p.1004415. 2368s [8] Smith, P. et al., 2019. On the interaction of hyaluronic acid with synovial fluid lipid membranes. Physical Chemistry Chemical Physics, 21(19), pp.9845–9857. 2368s [9] Gowers, R.J. & Carbone, P., 2015. A multiscale approach to model hydrogen bonding: The case of polyamide. The Journal of Chemical Physics, 142(22). 2368s [10] de Buyl, P., 2018. tidynamics: A tiny package to compute the dynamics of stochastic and molecular simulations. Journal of Open Source Software, 3(28), p.877. 2368s [11] Calandrini, V. et al., 2011. nMoldyn - Interfacing spectroscopic experiments, molecular dynamics simulations and models for time correlation functions. École thématique de la Société Française de la Neutronique, 12, pp.201–232. 2368s [12] Yang, L. et al., 2008. Close Correspondence between the Motions from Principal Component Analysis of Multiple HIV-1 Protease Structures and Elastic Network Modes. Structure, 16(2), pp.321–330. 2368s [13] Jakupovic, E. & Beckstein, O., 2021. MPI-parallel Molecular Dynamics Trajectory Analysis with the H5MD Format in the MDAnalysis Python Package. In Proceedings of the 20th Python in Science Conference. SciPy. SciPy, pp. 40–48. 2368s [14] de Buyl, P., Colberg, P.H. & Höfling, F., 2014. H5MD: A structured, efficient, and portable file format for molecular data. Computer Physics Communications, 185(6), pp.1546–1553. 2368s [15] Bradley, A.R. et al., 2017. MMTF—An efficient file format for the transmission, visualization, and analysis of macromolecular structures D. Schneidman, ed.. PLOS Computational Biology, 13(6), p.1005575. 2368s [16] Lundborg, M. et al., 2013. An efficient and extensible format, library, and API for binary trajectory data from molecular simulations. Journal of Computational Chemistry, 35(3), pp.260–269. 2368s [17] Theobald, D.L., 2005. Rapid calculation of RMSDs using a quaternion-based characteristic polynomial. Acta Crystallographica Section A Foundations of Crystallography, 61(4), pp.478–480. 2368s [18] Liu, P., Agrafiotis, D.K. & Theobald, D.L., Fast determination of the optimal rotational matrix for macromolecular superpositions. Journal of Computational Chemistry, 31(7), pp.1561–1563. 2368s [19] Kulke, M. & Vermaas, J.V., 2022. Reversible Unwrapping Algorithm for Constant-Pressure Molecular Dynamics Simulations. Journal of Chemical Theory and Computation, 18(10), pp.6161–6171. 2368s [20] Van Der Walt, S., Colbert, S.C. & Varoquaux, G., 2011. The NumPy array: a structure for efficient numerical computation. Computing in Science & Engineering, 13(2), pp.22–30. 2371s autopkgtest [05:25:27]: test test-mdanalysis: -----------------------] 2372s test-mdanalysis PASS 2372s autopkgtest [05:25:28]: test test-mdanalysis: - - - - - - - - - - results - - - - - - - - - - 2372s autopkgtest [05:25:28]: @@@@@@@@@@@@@@@@@@@@ summary 2372s test-mdanalysis PASS 2377s nova [W] Using flock in prodstack6-ppc64el 2377s Creating nova instance adt-plucky-ppc64el-mdanalysis-20250216-044555-juju-7f2275-prod-proposed-migration-environment-2-48a4168a-6b03-459f-bc78-c397d50951f1 from image adt/ubuntu-plucky-ppc64el-server-20250215.img (UUID 6b0563e5-c35c-4c0f-8fb5-aae43570455f)... 2377s nova [W] Timed out waiting for 999dba31-ac09-4b19-92be-504073371ba9 to get deleted.