0s autopkgtest [09:27:12]: starting date and time: 2025-04-14 09:27:12+0000
  0s autopkgtest [09:27:12]: git checkout: 9986aa8c Merge branch 'skia/fix_network_interface' into 'ubuntu/production'
  0s autopkgtest [09:27:12]: host juju-7f2275-prod-proposed-migration-environment-23; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5hyvsi7l/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:dials --apt-upgrade dials --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=dials/3.22.1+dfsg3-1build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu4-ram8-disk100 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-23@bos03-3.secgroup --name adt-plucky-amd64-dials-20250414-092712-juju-7f2275-prod-proposed-migration-environment-23-35411be8-3676-47f7-b0da-a6a79c90b811 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-23 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/
 54s autopkgtest [09:28:06]: testbed dpkg architecture: amd64
 54s autopkgtest [09:28:06]: testbed apt version: 3.0.0
 55s autopkgtest [09:28:07]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 55s autopkgtest [09:28:07]: testbed release detected to be: None
 56s autopkgtest [09:28:08]: updating testbed package index (apt update)
 56s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [265 kB]
 56s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
 56s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
 56s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
 57s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [5192 B]
 57s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [204 kB]
 57s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [9948 B]
 57s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [3776 B]
 57s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [2508 B]
 57s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [288 B]
 57s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [232 B]
 57s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [130 kB]
 57s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [61.6 kB]
 57s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [9496 B]
 57s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [2300 B]
 57s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [6168 B]
 57s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [440 B]
 57s Fetched 701 kB in 1s (869 kB/s)
 58s Reading package lists...
 59s autopkgtest [09:28:11]: upgrading testbed (apt dist-upgrade and autopurge)
 59s Reading package lists...
 59s Building dependency tree...
 59s Reading state information...
 59s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
 59s Starting 2 pkgProblemResolver with broken count: 0
 59s Done
 60s Entering ResolveByKeep
 60s 
 61s Calculating upgrade...
 61s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 61s Reading package lists...
 61s Building dependency tree...
 61s Reading state information...
 62s Starting pkgProblemResolver with broken count: 0
 62s Starting 2 pkgProblemResolver with broken count: 0
 62s Done
 62s Solving dependencies...
 62s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 65s autopkgtest [09:28:17]: testbed running kernel: Linux 6.14.0-15-generic #15-Ubuntu SMP PREEMPT_DYNAMIC Sun Apr  6 15:05:05 UTC 2025
 65s autopkgtest [09:28:17]: @@@@@@@@@@@@@@@@@@@@ apt-source dials
 68s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/universe dials 3.22.1+dfsg3-1build1 (dsc) [2737 B]
 68s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe dials 3.22.1+dfsg3-1build1 (tar) [8378 kB]
 68s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe dials 3.22.1+dfsg3-1build1 (diff) [13.6 kB]
 68s gpgv: Signature made Tue Mar  4 14:21:27 2025 UTC
 68s gpgv:                using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2
 68s gpgv: Can't check signature: No public key
 68s dpkg-source: warning: cannot verify inline signature for ./dials_3.22.1+dfsg3-1build1.dsc: no acceptable signature found
 68s autopkgtest [09:28:20]: testing package dials version 3.22.1+dfsg3-1build1
 69s autopkgtest [09:28:21]: build not needed
 70s autopkgtest [09:28:22]: test command1: preparing testbed
 70s Reading package lists...
 71s Building dependency tree...
 71s Reading state information...
 71s Starting pkgProblemResolver with broken count: 0
 71s Starting 2 pkgProblemResolver with broken count: 0
 71s Done
 72s The following NEW packages will be installed:
 72s   adwaita-icon-theme at-spi2-common bitshuffle blt clang-18
 72s   dconf-gsettings-backend dconf-service dials fontconfig fontconfig-config
 72s   fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome
 72s   fonts-glyphicons-halflings fonts-katex fonts-lato fonts-lyx fonts-mathjax
 72s   gdb gtk-update-icon-cache hicolor-icon-theme libaec0 libamd-comgr2
 72s   libamdhip64-5 libann-cctbx-dev libann-cctbx0 libantlr3c-3.4-0 libasan8
 72s   libatk-bridge2.0-0t64 libatk1.0-0t64 libatspi2.0-0t64 libavahi-client3
 72s   libavahi-common-data libavahi-common3 libbabeltrace1 libblas3
 72s   libboost-numpy1.83.0 libboost-python-dev libboost-python1.83-dev
 72s   libboost-python1.83.0 libboost-thread1.83.0 libboost-timer1.83.0
 72s   libboost1.83-dev libcairo-gobject2 libcairo2 libcbf1t64 libccp4-data
 72s   libccp4-dev libccp4c0t64 libccp4f0t64 libcctbx-dev libcctbx0
 72s   libclang-common-18-dev libclang1-18 libcolord2 libcups2t64 libdatrie1
 72s   libdconf1 libdeflate0 libdouble-conversion3 libdrm-intel1 libegl-mesa0
 72s   libegl1 libepoxy0 libevent-pthreads-2.1-7t64 libexpat1-dev libfabric1
 72s   libfontconfig1 libgbm1 libgc1 libgcc-14-dev libgdk-pixbuf-2.0-0
 72s   libgdk-pixbuf2.0-common libgfortran5 libgl1 libgl1-mesa-dri libglew2.2
 72s   libglu1-mesa libglut3.12 libglvnd0 libglx-mesa0 libglx0 libgomp1
 72s   libgraphite2-3 libgtk-3-0t64 libgtk-3-common libharfbuzz0b libhdf5-310
 72s   libhdf5-hl-310 libhdf5-openmpi-310 libhsa-runtime64-1 libhsakmt1 libhwasan0
 72s   libhwloc-plugins libhwloc15 libibmad5 libibumad3 libice6 libimagequant0
 72s   libinput-bin libinput10 libipt2 libitm1 libjbig0 libjpeg-turbo8 libjpeg8
 72s   libjs-bootstrap libjs-jquery libjs-jquery-ui libjs-katex libjs-mathjax
 72s   libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 liblcms2-2 liblerc4
 72s   libllvm17t64 liblsan0 liblzf1 libmd4c0 libmmdb2-0 libmtdev1t64 libmunge2
 72s   libnetcdf22 libnorm1t64 libnotify4 libobjc-14-dev libobjc4 libopengl0
 72s   libopenjp2-7 libopenmpi40 libpango-1.0-0 libpangocairo-1.0-0
 72s   libpangoft2-1.0-0 libpciaccess0 libpcre2-16-0 libpcre2-32-0 libpgm-5.3-0t64
 72s   libpixman-1-0 libpmix2t64 libpocl2-common libpocl2t64 libpsm-infinipath1
 72s   libpsm2-2 libpython3-dev libpython3.13-dev libqhull-r8.0 libqt5core5t64
 72s   libqt5dbus5t64 libqt5designer5 libqt5gui5t64 libqt5help5 libqt5network5t64
 72s   libqt5opengl5t64 libqt5printsupport5t64 libqt5sql5t64 libqt5svg5
 72s   libqt5test5t64 libqt5widgets5t64 libqt5xml5t64 libquadmath0 libraqm0
 72s   librdmacm1t64 libsharpyuv0 libsm6 libsodium23 libsource-highlight-common
 72s   libsource-highlight4t64 libssm2 libstdc++-14-dev libsz2 libtcl8.6
 72s   libthai-data libthai0 libtiff6 libtk8.6 libtsan2 libubsan1 libucx0
 72s   libvulkan1 libwacom-common libwacom9 libwayland-client0 libwayland-cursor0
 72s   libwayland-egl1 libwayland-server0 libwebp7 libwebpdemux2 libwebpmux3
 72s   libwxbase3.2-1t64 libwxgtk-gl3.2-1t64 libwxgtk3.2-1t64 libx11-xcb1
 72s   libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1
 72s   libxcb-present0 libxcb-randr0 libxcb-render-util0 libxcb-render0
 72s   libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1 libxcb-xfixes0
 72s   libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcomposite1 libxcursor1
 72s   libxdamage1 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon-x11-0
 72s   libxnvctrl0 libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxtst6
 72s   libxxf86vm1 libzmq5 llvm-18-linker-tools mesa-libgallium ocl-icd-libopencl1
 72s   pocl-opencl-icd pymol-data python-matplotlib-data python3-all
 72s   python3-asttokens python3-brotli python3-cctbx python3-comm
 72s   python3-contourpy python3-coverage python3-cycler python3-dateutil
 72s   python3-debugpy python3-decorator python3-dev python3-dials
 72s   python3-dials-data python3-execnet python3-executing python3-fabio
 72s   python3-fastjsonschema python3-flexcache python3-flexparser
 72s   python3-fonttools python3-fs python3-h5py python3-h5py-serial
 72s   python3-hdf5plugin python3-importlib-resources python3-iniconfig
 72s   python3-ipykernel python3-ipython python3-jedi python3-joblib
 72s   python3-jupyter-client python3-jupyter-core python3-kiwisolver
 72s   python3-legacy-cgi python3-lxml python3-lz4 python3-mako python3-matplotlib
 72s   python3-matplotlib-inline python3-mpmath python3-mrcfile python3-natsort
 72s   python3-nbformat python3-nest-asyncio python3-numexpr python3-numpy
 72s   python3-numpy-dev python3-nxmx python3-opengl python3-ordered-set
 72s   python3-packaging python3-pandas python3-pandas-lib python3-parso
 72s   python3-pexpect python3-pil python3-pil.imagetk python3-pint
 72s   python3-platformdirs python3-plotly python3-pluggy python3-pooch
 72s   python3-procrunner python3-prompt-toolkit python3-psutil python3-ptyprocess
 72s   python3-pure-eval python3-pycbf python3-pyfai python3-pymol python3-pyopencl
 72s   python3-pyqt5 python3-pyqt5.qtopengl python3-pyqt5.qtsvg python3-pyqt5.sip
 72s   python3-pytest python3-pytest-mock python3-pytest-xdist python3-pytools
 72s   python3-pytz python3-qtconsole python3-qtpy python3-scipy python3-silx
 72s   python3-six python3-sklearn python3-sklearn-lib python3-stack-data
 72s   python3-sympy python3-tabulate python3-tenacity python3-threadpoolctl
 72s   python3-tk python3-tornado python3-tqdm python3-traitlets python3-typeshed
 72s   python3-tz python3-ufolib2 python3-unicodedata2 python3-wcwidth
 72s   python3-wxgtk4.0 python3-zmq python3.13-dev python3.13-tk
 72s   sphinx-rtd-theme-common tk8.6-blt2.5 unicode-data x11-common zlib1g-dev
 72s 0 upgraded, 345 newly installed, 0 to remove and 0 not upgraded.
 72s Need to get 342 MB of archives.
 72s After this operation, 1725 MB of additional disk space will be used.
 72s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-lato all 2.015-1 [2781 kB]
 72s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-5 [148 kB]
 72s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB]
 72s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250404-0ubuntu1 [926 kB]
 73s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB]
 73s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:2.2.3+ds-5 [5702 kB]
 73s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-2 [8004 B]
 73s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB]
 73s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
 73s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB]
 73s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB]
 73s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB]
 73s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB]
 73s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB]
 73s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB]
 73s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-2 [161 kB]
 73s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 gtk-update-icon-cache amd64 4.18.4+ds-1 [54.1 kB]
 73s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 hicolor-icon-theme all 0.18-2 [13.3 kB]
 73s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 adwaita-icon-theme all 48.0-1 [578 kB]
 73s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 at-spi2-common all 2.56.1-1 [9142 B]
 73s Get:21 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB]
 73s Get:22 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B]
 73s Get:23 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-310 amd64 1.14.5+repack-3 [1519 kB]
 73s Get:24 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [62.6 kB]
 73s Get:25 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B]
 73s Get:26 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py-serial amd64 3.13.0-1 [1230 kB]
 74s Get:27 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py all 3.13.0-1 [7978 B]
 74s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250404-0ubuntu1 [151 kB]
 74s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10 [7966 B]
 74s Get:30 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.3build1 [178 kB]
 74s Get:31 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpsm2-2 amd64 11.2.185-2.1 [193 kB]
 74s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 librdmacm1t64 amd64 56.0-4ubuntu1 [71.5 kB]
 74s Get:33 http://ftpmaster.internal/ubuntu plucky/universe amd64 libfabric1 amd64 1.17.0-3.1 [789 kB]
 74s Get:34 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhwloc15 amd64 2.12.0-1 [194 kB]
 74s Get:35 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmunge2 amd64 0.5.16-1 [16.5 kB]
 74s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libpciaccess0 amd64 0.17-3build1 [18.6 kB]
 74s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libxnvctrl0 amd64 510.47.03-0ubuntu4 [12.6 kB]
 74s Get:38 http://ftpmaster.internal/ubuntu plucky/universe amd64 ocl-icd-libopencl1 amd64 2.3.2-1build1 [38.5 kB]
 74s Get:39 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhwloc-plugins amd64 2.12.0-1 [16.0 kB]
 74s Get:40 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpmix2t64 amd64 5.0.6-5 [714 kB]
 74s Get:41 http://ftpmaster.internal/ubuntu plucky/universe amd64 libllvm17t64 amd64 1:17.0.6-21 [26.0 MB]
 75s Get:42 http://ftpmaster.internal/ubuntu plucky/universe amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3build2 [14.4 MB]
 75s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhsakmt1 amd64 5.7.0-1build1 [62.9 kB]
 75s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhsa-runtime64-1 amd64 5.7.1-2build1 [491 kB]
 75s Get:45 http://ftpmaster.internal/ubuntu plucky/universe amd64 libamdhip64-5 amd64 5.7.1-5build1 [9702 kB]
 75s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libibumad3 amd64 56.0-4ubuntu1 [31.2 kB]
 75s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libibmad5 amd64 56.0-4ubuntu1 [43.9 kB]
 75s Get:48 http://ftpmaster.internal/ubuntu plucky/universe amd64 libucx0 amd64 1.18.1+ds-2 [1293 kB]
 75s Get:49 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenmpi40 amd64 5.0.7-1 [2526 kB]
 75s Get:50 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-openmpi-310 amd64 1.14.5+repack-3 [1584 kB]
 75s Get:51 http://ftpmaster.internal/ubuntu plucky/universe amd64 bitshuffle amd64 0.5.2-1build2 [154 kB]
 75s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB]
 75s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
 75s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
 75s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2.2ubuntu1 [37.8 kB]
 75s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2.2ubuntu1 [164 kB]
 75s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB]
 75s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB]
 75s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu4 [21.8 kB]
 75s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B]
 75s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB]
 75s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-8 [694 kB]
 75s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-8 [4824 B]
 75s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250404-0ubuntu1 [29.5 kB]
 75s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250404-0ubuntu1 [3076 kB]
 76s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250404-0ubuntu1 [1362 kB]
 76s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250404-0ubuntu1 [2760 kB]
 76s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250404-0ubuntu1 [1211 kB]
 76s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250404-0ubuntu1 [1687 kB]
 76s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250404-0ubuntu1 [153 kB]
 76s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-19ubuntu2 [2815 kB]
 76s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-19ubuntu2 [2510 kB]
 76s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libgc1 amd64 1:8.2.8-1 [102 kB]
 76s Get:74 http://ftpmaster.internal/ubuntu plucky/universe amd64 libobjc4 amd64 15-20250404-0ubuntu1 [47.8 kB]
 76s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 libobjc-14-dev amd64 14.2.0-19ubuntu2 [195 kB]
 76s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libclang-common-18-dev amd64 1:18.1.8-17 [739 kB]
 76s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 llvm-18-linker-tools amd64 1:18.1.8-17 [1311 kB]
 76s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libclang1-18 amd64 1:18.1.8-17 [7755 kB]
 76s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 clang-18 amd64 1:18.1.8-17 [80.1 kB]
 76s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 libdconf1 amd64 0.40.0-5 [39.8 kB]
 76s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 dconf-service amd64 0.40.0-5 [28.4 kB]
 76s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 dconf-gsettings-backend amd64 0.40.0-5 [22.7 kB]
 76s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB]
 76s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB]
 76s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
 76s Get:86 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-katex all 0.16.10+~cs6.1.0-2 [775 kB]
 76s Get:87 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-katex all 0.16.10+~cs6.1.0-2 [220 kB]
 76s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB]
 76s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB]
 77s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pytz all 2025.1-3 [162 kB]
 77s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2025.1-3 [1866 B]
 77s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB]
 77s Get:93 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fastjsonschema all 2.21.1-1 [20.4 kB]
 77s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB]
 77s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB]
 77s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-jupyter-core all 5.7.2-5 [28.1 kB]
 77s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nbformat all 5.9.1-1 [41.2 kB]
 77s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tenacity all 9.0.0-0ubuntu1 [17.0 kB]
 77s Get:99 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-plotly all 5.20.0+dfsg-1 [2766 kB]
 77s Get:100 http://ftpmaster.internal/ubuntu plucky/universe amd64 libann-cctbx0 amd64 1.1.2+doc-9build1 [32.7 kB]
 77s Get:101 http://ftpmaster.internal/ubuntu plucky/universe amd64 libann-cctbx-dev amd64 1.1.2+doc-9build1 [45.1 kB]
 77s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost1.83-dev amd64 1.83.0-4.2ubuntu1 [10.7 MB]
 78s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost-python1.83.0 amd64 1.83.0-4.2ubuntu1 [314 kB]
 78s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1-dev amd64 2.7.1-1 [148 kB]
 78s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB]
 78s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-dev amd64 3.13.3-1 [5507 kB]
 78s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-dev amd64 3.13.3-1 [10.8 kB]
 78s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-dev amd64 3.13.3-1 [508 kB]
 78s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB]
 78s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 8.1.3-5 [31.0 kB]
 78s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dev amd64 3.13.3-1 [26.7 kB]
 78s Get:112 http://ftpmaster.internal/ubuntu plucky/universe amd64 libboost-python1.83-dev amd64 1.83.0-4.2ubuntu1 [338 kB]
 78s Get:113 http://ftpmaster.internal/ubuntu plucky/universe amd64 libboost-python-dev amd64 1.83.0.2ubuntu1 [4516 B]
 78s Get:114 http://ftpmaster.internal/ubuntu plucky/universe amd64 libccp4-data all 8.0.0-4 [65.2 kB]
 78s Get:115 http://ftpmaster.internal/ubuntu plucky/universe amd64 libccp4c0t64 amd64 8.0.0-4 [104 kB]
 78s Get:116 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmmdb2-0 amd64 2.0.22-1 [363 kB]
 78s Get:117 http://ftpmaster.internal/ubuntu plucky/universe amd64 libccp4f0t64 amd64 8.0.0-4 [228 kB]
 78s Get:118 http://ftpmaster.internal/ubuntu plucky/universe amd64 libccp4-dev amd64 8.0.0-4 [42.4 kB]
 78s Get:119 http://ftpmaster.internal/ubuntu plucky/universe amd64 libcbf1t64 amd64 0.9.7+dfsg1-5build1 [361 kB]
 78s Get:120 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libcctbx0 amd64 2024.10+ds2+~3.22.1+ds1-4build2 [2077 kB]
 78s Get:121 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libcctbx-dev amd64 2024.10+ds2+~3.22.1+ds1-4build2 [1192 kB]
 78s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-legacy-cgi all 2.6.2-1 [16.6 kB]
 78s Get:123 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pycbf amd64 0.9.7+dfsg1-5build1 [166 kB]
 78s Get:124 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-hdf5plugin all 5.0.0-1 [23.1 kB]
 78s Get:125 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
 78s Get:126 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.3-1 [171 kB]
 78s Get:127 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-7build1 [2934 kB]
 78s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-4 [80.3 kB]
 78s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB]
 78s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB]
 78s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.3-2 [218 kB]
 78s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB]
 78s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB]
 78s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.2-1 [17.2 kB]
 78s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB]
 78s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB]
 78s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 11.1.0-5build1 [583 kB]
 78s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-tk amd64 3.13.3-1 [107 kB]
 78s Get:139 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.13.3-1 [9856 B]
 78s Get:140 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 11.1.0-5build1 [9828 B]
 78s Get:141 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.1-1build1 [218 kB]
 78s Get:142 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B]
 78s Get:143 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build4 [367 kB]
 78s Get:144 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-7 [90.8 kB]
 78s Get:145 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu4 [176 kB]
 79s Get:146 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.2-1 [1407 kB]
 79s Get:147 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.4.0+dfsg-1build1 [27.0 kB]
 79s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB]
 79s Get:149 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.14.1-4ubuntu2 [18.7 MB]
 79s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB]
 79s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-5 [4229 kB]
 79s Get:152 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.17.0+dfsg1-1 [33.5 kB]
 79s Get:153 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-unicodedata2 amd64 15.1.0+ds-1build3 [360 kB]
 79s Get:154 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.13.3-1 [882 B]
 79s Get:155 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB]
 80s Get:156 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.55.3-2build1 [1536 kB]
 80s Get:157 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-resources all 6.5.2-1 [24.5 kB]
 80s Get:158 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-3build1 [55.6 kB]
 80s Get:159 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB]
 80s Get:160 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB]
 80s Get:161 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-7build1 [17.4 MB]
 80s Get:162 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB]
 80s Get:163 http://ftpmaster.internal/ubuntu plucky/main amd64 sphinx-rtd-theme-common all 3.0.2+dfsg-2 [1014 kB]
 80s Get:164 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mrcfile all 1.5.4-2 [116 kB]
 80s Get:165 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-natsort all 8.0.2-2 [33.8 kB]
 80s Get:166 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-flexcache all 0.3-2 [13.4 kB]
 80s Get:167 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-flexparser all 0.4-1 [43.8 kB]
 80s Get:168 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pint all 0.24.4-1 [203 kB]
 80s Get:169 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nxmx all 0.0.4-1 [16.4 kB]
 80s Get:170 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ordered-set all 4.1.0-1 [9778 B]
 80s Get:171 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-procrunner all 2.3.3-2 [12.0 kB]
 81s Get:172 http://ftpmaster.internal/ubuntu plucky/main amd64 libglvnd0 amd64 1.7.0-1build1 [69.6 kB]
 81s Get:173 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-server0 amd64 1.23.1-3 [37.2 kB]
 81s Get:174 http://ftpmaster.internal/ubuntu plucky/main amd64 libdrm-intel1 amd64 2.4.124-2 [68.9 kB]
 81s Get:175 http://ftpmaster.internal/ubuntu plucky/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [7944 B]
 81s Get:176 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-dri3-0 amd64 1.17.0-2 [7508 B]
 81s Get:177 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-present0 amd64 1.17.0-2 [6064 B]
 81s Get:178 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-randr0 amd64 1.17.0-2 [17.9 kB]
 81s Get:179 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-sync1 amd64 1.17.0-2 [9312 B]
 81s Get:180 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xfixes0 amd64 1.17.0-2 [10.2 kB]
 81s Get:181 http://ftpmaster.internal/ubuntu plucky/main amd64 libxshmfence1 amd64 1.3-1build5 [4764 B]
 81s Get:182 http://ftpmaster.internal/ubuntu plucky/main amd64 mesa-libgallium amd64 25.0.3-1ubuntu2 [12.1 MB]
 81s Get:183 http://ftpmaster.internal/ubuntu plucky/main amd64 libgbm1 amd64 25.0.3-1ubuntu2 [33.4 kB]
 81s Get:184 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-client0 amd64 1.23.1-3 [29.7 kB]
 81s Get:185 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B]
 81s Get:186 http://ftpmaster.internal/ubuntu plucky/main amd64 libegl-mesa0 amd64 25.0.3-1ubuntu2 [136 kB]
 81s Get:187 http://ftpmaster.internal/ubuntu plucky/main amd64 libegl1 amd64 1.7.0-1build1 [28.7 kB]
 81s Get:188 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-glx0 amd64 1.17.0-2 [24.8 kB]
 81s Get:189 http://ftpmaster.internal/ubuntu plucky/main amd64 libxxf86vm1 amd64 1:1.1.4-1build4 [9282 B]
 81s Get:190 http://ftpmaster.internal/ubuntu plucky/main amd64 libvulkan1 amd64 1.4.304.0-1 [147 kB]
 81s Get:191 http://ftpmaster.internal/ubuntu plucky/main amd64 libgl1-mesa-dri amd64 25.0.3-1ubuntu2 [35.7 kB]
 81s Get:192 http://ftpmaster.internal/ubuntu plucky/main amd64 libglx-mesa0 amd64 25.0.3-1ubuntu2 [146 kB]
 81s Get:193 http://ftpmaster.internal/ubuntu plucky/main amd64 libglx0 amd64 1.7.0-1build1 [38.6 kB]
 81s Get:194 http://ftpmaster.internal/ubuntu plucky/main amd64 libgl1 amd64 1.7.0-1build1 [102 kB]
 81s Get:195 http://ftpmaster.internal/ubuntu plucky/main amd64 libopengl0 amd64 1.7.0-1build1 [32.8 kB]
 81s Get:196 http://ftpmaster.internal/ubuntu plucky/main amd64 libglu1-mesa amd64 9.0.2-1.1build1 [152 kB]
 81s Get:197 http://ftpmaster.internal/ubuntu plucky/main amd64 libxi6 amd64 2:1.8.2-1 [32.4 kB]
 81s Get:198 http://ftpmaster.internal/ubuntu plucky/universe amd64 libglut3.12 amd64 3.4.0-4 [111 kB]
 81s Get:199 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-opengl all 3.1.9+dfsg-1syncable1 [631 kB]
 81s Get:200 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5.sip amd64 12.17.0-1build1 [76.5 kB]
 81s Get:201 http://ftpmaster.internal/ubuntu plucky/universe amd64 libdouble-conversion3 amd64 3.3.1-1 [41.7 kB]
 81s Get:202 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-16-0 amd64 10.45-1 [268 kB]
 81s Get:203 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5core5t64 amd64 5.15.15+dfsg-4ubuntu1 [2038 kB]
 82s Get:204 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5dbus5t64 amd64 5.15.15+dfsg-4ubuntu1 [221 kB]
 82s Get:205 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-2.2ubuntu1 [180 kB]
 82s Get:206 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB]
 82s Get:207 http://ftpmaster.internal/ubuntu plucky/main amd64 libmtdev1t64 amd64 1.1.7-1 [16.3 kB]
 82s Get:208 http://ftpmaster.internal/ubuntu plucky/main amd64 libwacom-common all 2.14.0-1 [103 kB]
 82s Get:209 http://ftpmaster.internal/ubuntu plucky/main amd64 libwacom9 amd64 2.14.0-1 [27.3 kB]
 82s Get:210 http://ftpmaster.internal/ubuntu plucky/main amd64 libinput-bin amd64 1.27.1-1 [23.4 kB]
 82s Get:211 http://ftpmaster.internal/ubuntu plucky/main amd64 libinput10 amd64 1.27.1-1 [155 kB]
 82s Get:212 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmd4c0 amd64 0.5.2-2 [50.1 kB]
 82s Get:213 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5network5t64 amd64 5.15.15+dfsg-4ubuntu1 [725 kB]
 82s Get:214 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB]
 82s Get:215 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-icccm4 amd64 0.4.2-1 [11.1 kB]
 82s Get:216 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-util1 amd64 0.4.1-1 [11.2 kB]
 82s Get:217 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-image0 amd64 0.4.0-2build1 [10.8 kB]
 82s Get:218 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-keysyms1 amd64 0.4.1-1 [8738 B]
 82s Get:219 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB]
 82s Get:220 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render-util0 amd64 0.3.10-1 [10.8 kB]
 82s Get:221 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shape0 amd64 1.17.0-2 [6092 B]
 82s Get:222 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xinerama0 amd64 1.17.0-2 [5412 B]
 82s Get:223 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xinput0 amd64 1.17.0-2 [33.2 kB]
 82s Get:224 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xkb1 amd64 1.17.0-2 [32.3 kB]
 82s Get:225 http://ftpmaster.internal/ubuntu plucky/main amd64 libxkbcommon-x11-0 amd64 1.7.0-2 [15.2 kB]
 82s Get:226 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5gui5t64 amd64 5.15.15+dfsg-4ubuntu1 [3791 kB]
 82s Get:227 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5widgets5t64 amd64 5.15.15+dfsg-4ubuntu1 [2560 kB]
 82s Get:228 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5xml5t64 amd64 5.15.15+dfsg-4ubuntu1 [124 kB]
 82s Get:229 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5designer5 amd64 5.15.15-6build1 [2827 kB]
 82s Get:230 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5sql5t64 amd64 5.15.15+dfsg-4ubuntu1 [122 kB]
 82s Get:231 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5help5 amd64 5.15.15-6build1 [162 kB]
 82s Get:232 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common-data amd64 0.8-16ubuntu2 [31.0 kB]
 82s Get:233 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common3 amd64 0.8-16ubuntu2 [23.6 kB]
 82s Get:234 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-client3 amd64 0.8-16ubuntu2 [27.5 kB]
 82s Get:235 http://ftpmaster.internal/ubuntu plucky/main amd64 libcups2t64 amd64 2.4.12-0ubuntu1 [292 kB]
 82s Get:236 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5printsupport5t64 amd64 5.15.15+dfsg-4ubuntu1 [208 kB]
 82s Get:237 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5test5t64 amd64 5.15.15+dfsg-4ubuntu1 [149 kB]
 82s Get:238 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5 amd64 5.15.11+dfsg-2 [2725 kB]
 82s Get:239 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5opengl5t64 amd64 5.15.15+dfsg-4ubuntu1 [150 kB]
 82s Get:240 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5.qtopengl amd64 5.15.11+dfsg-2 [128 kB]
 82s Get:241 http://ftpmaster.internal/ubuntu plucky/universe amd64 libglew2.2 amd64 2.2.0-4build1 [187 kB]
 82s Get:242 http://ftpmaster.internal/ubuntu plucky/universe amd64 libnetcdf22 amd64 1:4.9.3-1 [574 kB]
 83s Get:243 http://ftpmaster.internal/ubuntu plucky/universe amd64 pymol-data all 3.1.0+dfsg-1 [1394 kB]
 83s Get:244 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pymol amd64 3.1.0+dfsg-1 [4171 kB]
 83s Get:245 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.17.0-1 [13.2 kB]
 83s Get:246 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-tqdm all 4.67.1-3 [91.6 kB]
 83s Get:247 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-32-0 amd64 10.45-1 [251 kB]
 83s Get:248 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxbase3.2-1t64 amd64 3.2.6+dfsg-2ubuntu1 [980 kB]
 83s Get:249 http://ftpmaster.internal/ubuntu plucky/main amd64 libatk1.0-0t64 amd64 2.56.1-1 [55.4 kB]
 83s Get:250 http://ftpmaster.internal/ubuntu plucky/main amd64 libatspi2.0-0t64 amd64 2.56.1-1 [91.9 kB]
 83s Get:251 http://ftpmaster.internal/ubuntu plucky/main amd64 libatk-bridge2.0-0t64 amd64 2.56.1-1 [69.0 kB]
 83s Get:252 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB]
 83s Get:253 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.4-1 [662 kB]
 83s Get:254 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo-gobject2 amd64 1.18.4-1 [127 kB]
 83s Get:255 http://ftpmaster.internal/ubuntu plucky/main amd64 libcolord2 amd64 1.4.7-3 [155 kB]
 83s Get:256 http://ftpmaster.internal/ubuntu plucky/main amd64 libepoxy0 amd64 1.5.10-2 [218 kB]
 83s Get:257 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB]
 83s Get:258 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB]
 83s Get:259 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB]
 83s Get:260 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.56.3-1 [256 kB]
 83s Get:261 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.56.3-1 [52.9 kB]
 83s Get:262 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.56.3-1 [29.1 kB]
 83s Get:263 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-cursor0 amd64 1.23.1-3 [10.9 kB]
 83s Get:264 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-egl1 amd64 1.23.1-3 [6168 B]
 83s Get:265 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcomposite1 amd64 1:0.4.6-1 [6642 B]
 83s Get:266 http://ftpmaster.internal/ubuntu plucky/main amd64 libxfixes3 amd64 1:6.0.0-2build1 [10.8 kB]
 83s Get:267 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcursor1 amd64 1:1.2.3-1 [23.1 kB]
 83s Get:268 http://ftpmaster.internal/ubuntu plucky/main amd64 libxdamage1 amd64 1:1.1.6-1build1 [6150 B]
 83s Get:269 http://ftpmaster.internal/ubuntu plucky/main amd64 libxinerama1 amd64 2:1.1.4-3build1 [6396 B]
 83s Get:270 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrandr2 amd64 2:1.5.4-1 [19.6 kB]
 83s Get:271 http://ftpmaster.internal/ubuntu plucky/main amd64 libgtk-3-common all 3.24.49-2ubuntu1 [1424 kB]
 83s Get:272 http://ftpmaster.internal/ubuntu plucky/main amd64 libgtk-3-0t64 amd64 3.24.49-2ubuntu1 [3172 kB]
 83s Get:273 http://ftpmaster.internal/ubuntu plucky/main amd64 libnotify4 amd64 0.8.4-1 [26.9 kB]
 83s Get:274 http://ftpmaster.internal/ubuntu plucky/main amd64 libxtst6 amd64 2:1.2.5-1 [13.0 kB]
 83s Get:275 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxgtk3.2-1t64 amd64 3.2.6+dfsg-2ubuntu1 [4967 kB]
 83s Get:276 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxgtk-gl3.2-1t64 amd64 3.2.6+dfsg-2ubuntu1 [53.9 kB]
 83s Get:277 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-wxgtk4.0 amd64 4.2.2+dfsg-3build1 [7838 kB]
 84s Get:278 http://ftpmaster.internal/ubuntu plucky/universe amd64 libantlr3c-3.4-0 amd64 3.4+dfsg-4build2 [44.9 kB]
 84s Get:279 http://ftpmaster.internal/ubuntu plucky/universe amd64 libboost-numpy1.83.0 amd64 1.83.0-4.2ubuntu1 [243 kB]
 84s Get:280 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost-thread1.83.0 amd64 1.83.0-4.2ubuntu1 [278 kB]
 84s Get:281 http://ftpmaster.internal/ubuntu plucky/universe amd64 libboost-timer1.83.0 amd64 1.83.0-4.2ubuntu1 [241 kB]
 84s Get:282 http://ftpmaster.internal/ubuntu plucky/universe amd64 libssm2 amd64 1.4.0-2build1 [87.7 kB]
 84s Get:283 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-cctbx amd64 2024.10+ds2+~3.22.1+ds1-4build2 [29.0 MB]
 85s Get:284 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-8build1 [5332 kB]
 85s Get:285 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-8build1 [3112 kB]
 85s Get:286 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-psutil amd64 5.9.8-2build3 [196 kB]
 85s Get:287 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fabio amd64 2024.9.0-7 [669 kB]
 85s Get:288 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-numexpr amd64 2.10.2-1build2 [131 kB]
 85s Get:289 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-mako all 1.3.8-2 [63.5 kB]
 85s Get:290 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpocl2-common all 6.0-4 [82.8 kB]
 85s Get:291 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpocl2t64 amd64 6.0-4 [9731 kB]
 85s Get:292 http://ftpmaster.internal/ubuntu plucky/universe amd64 pocl-opencl-icd amd64 6.0-4 [7166 B]
 85s Get:293 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytools all 2024.1.14-1 [68.4 kB]
 85s Get:294 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyopencl amd64 2024.1-3build1 [604 kB]
 85s Get:295 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5svg5 amd64 5.15.15-2 [153 kB]
 85s Get:296 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5.qtsvg amd64 5.15.11+dfsg-2 [30.1 kB]
 85s Get:297 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-comm all 0.2.1-1 [7016 B]
 85s Get:298 http://ftpmaster.internal/ubuntu plucky/main amd64 libbabeltrace1 amd64 1.5.11-4build2 [186 kB]
 85s Get:299 http://ftpmaster.internal/ubuntu plucky/main amd64 libipt2 amd64 2.1.2-1 [58.9 kB]
 85s Get:300 http://ftpmaster.internal/ubuntu plucky/main amd64 libsource-highlight-common all 3.1.9-4.3build1 [64.2 kB]
 85s Get:301 http://ftpmaster.internal/ubuntu plucky/main amd64 libsource-highlight4t64 amd64 3.1.9-4.3build1 [258 kB]
 86s Get:302 http://ftpmaster.internal/ubuntu plucky/main amd64 gdb amd64 16.2-8ubuntu1 [4488 kB]
 86s Get:303 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-coverage amd64 7.6.0+dfsg1-2build1 [153 kB]
 86s Get:304 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-debugpy amd64 1.8.8+ds-2ubuntu1 [1145 kB]
 86s Get:305 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-parso all 0.8.4-1 [67.6 kB]
 86s Get:306 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-typeshed all 0.0~git20241223.ea91db2-1 [1548 kB]
 86s Get:307 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-jedi all 0.19.1+ds1-1 [693 kB]
 86s Get:308 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib-inline all 0.1.6-2 [8784 B]
 86s Get:309 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-wcwidth all 0.2.13+dfsg1-1 [26.3 kB]
 86s Get:310 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-prompt-toolkit all 3.0.50-1 [257 kB]
 86s Get:311 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-asttokens all 3.0.0-1 [20.4 kB]
 86s Get:312 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-executing all 2.2.0-0.1 [25.0 kB]
 86s Get:313 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pure-eval all 0.2.3-1 [11.4 kB]
 86s Get:314 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-stack-data all 0.6.3-1 [22.0 kB]
 86s Get:315 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-ptyprocess all 0.7.0-6 [14.8 kB]
 86s Get:316 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pexpect all 4.9-3 [48.1 kB]
 86s Get:317 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ipython all 8.30.0-2 [569 kB]
 86s Get:318 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tornado amd64 6.4.2-1 [299 kB]
 86s Get:319 http://ftpmaster.internal/ubuntu plucky/universe amd64 libnorm1t64 amd64 1.5.9+dfsg-3.1build1 [154 kB]
 87s Get:320 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpgm-5.3-0t64 amd64 5.3.128~dfsg-2.1build1 [167 kB]
 87s Get:321 http://ftpmaster.internal/ubuntu plucky/main amd64 libsodium23 amd64 1.0.18-1build3 [161 kB]
 87s Get:322 http://ftpmaster.internal/ubuntu plucky/universe amd64 libzmq5 amd64 4.3.5-1build2 [260 kB]
 87s Get:323 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-zmq amd64 26.2.1-1build1 [191 kB]
 87s Get:324 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-jupyter-client all 8.6.3-2 [78.5 kB]
 87s Get:325 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-nest-asyncio all 1.5.4-1 [6256 B]
 87s Get:326 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ipykernel all 6.29.5-2 [82.7 kB]
 87s Get:327 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-qtpy all 2.4.2-9 [57.6 kB]
 87s Get:328 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-qtconsole all 5.6.1-4 [84.7 kB]
 87s Get:329 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pooch all 1.8.2-1 [49.9 kB]
 87s Get:330 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-silx amd64 2.2.1+dfsg-3 [2616 kB]
 87s Get:331 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfai amd64 2025.03-1 [3244 kB]
 87s Get:332 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.4.2-3 [205 kB]
 87s Get:333 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB]
 87s Get:334 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-8 [4359 kB]
 87s Get:335 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn all 1.4.2+dfsg-8 [2258 kB]
 88s Get:336 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tabulate all 0.9.0-1 [45.3 kB]
 88s Get:337 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-dials amd64 3.22.1+dfsg3-1build1 [4158 kB]
 88s Get:338 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 dials amd64 3.22.1+dfsg3-1build1 [7972 B]
 88s Get:339 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B]
 88s Get:340 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB]
 88s Get:341 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.5-1 [252 kB]
 88s Get:342 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-dials-data all 2.4.0-2 [110 kB]
 88s Get:343 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-execnet all 2.1.1-1 [33.4 kB]
 88s Get:344 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest-mock all 3.14.0-2 [11.7 kB]
 88s Get:345 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest-xdist all 3.6.1-1 [33.8 kB]
 89s Fetched 342 MB in 16s (21.2 MB/s)
 89s Selecting previously unselected package fonts-lato.
 89s (Reading database ... 
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(Reading database ... 115893 files and directories currently installed.)
 89s Preparing to unpack .../000-fonts-lato_2.015-1_all.deb ...
 89s Unpacking fonts-lato (2.015-1) ...
 89s Selecting previously unselected package python3-numpy-dev:amd64.
 89s Preparing to unpack .../001-python3-numpy-dev_1%3a2.2.3+ds-5_amd64.deb ...
 89s Unpacking python3-numpy-dev:amd64 (1:2.2.3+ds-5) ...
 89s Selecting previously unselected package libblas3:amd64.
 89s Preparing to unpack .../002-libblas3_3.12.1-2_amd64.deb ...
 89s Unpacking libblas3:amd64 (3.12.1-2) ...
 89s Selecting previously unselected package libgfortran5:amd64.
 89s Preparing to unpack .../003-libgfortran5_15-20250404-0ubuntu1_amd64.deb ...
 89s Unpacking libgfortran5:amd64 (15-20250404-0ubuntu1) ...
 89s Selecting previously unselected package liblapack3:amd64.
 89s Preparing to unpack .../004-liblapack3_3.12.1-2_amd64.deb ...
 89s Unpacking liblapack3:amd64 (3.12.1-2) ...
 89s Selecting previously unselected package python3-numpy.
 89s Preparing to unpack .../005-python3-numpy_1%3a2.2.3+ds-5_amd64.deb ...
 89s Unpacking python3-numpy (1:2.2.3+ds-5) ...
 90s Selecting previously unselected package libgdk-pixbuf2.0-common.
 90s Preparing to unpack .../006-libgdk-pixbuf2.0-common_2.42.12+dfsg-2_all.deb ...
 90s Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-2) ...
 90s Selecting previously unselected package libjpeg-turbo8:amd64.
 90s Preparing to unpack .../007-libjpeg-turbo8_2.1.5-3ubuntu2_amd64.deb ...
 90s Unpacking libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ...
 90s Selecting previously unselected package libjpeg8:amd64.
 90s Preparing to unpack .../008-libjpeg8_8c-2ubuntu11_amd64.deb ...
 90s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ...
 90s Selecting previously unselected package libdeflate0:amd64.
 90s Preparing to unpack .../009-libdeflate0_1.23-1_amd64.deb ...
 90s Unpacking libdeflate0:amd64 (1.23-1) ...
 90s Selecting previously unselected package libjbig0:amd64.
 90s Preparing to unpack .../010-libjbig0_2.1-6.1ubuntu2_amd64.deb ...
 90s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ...
 90s Selecting previously unselected package liblerc4:amd64.
 90s Preparing to unpack .../011-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ...
 90s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ...
 90s Selecting previously unselected package libsharpyuv0:amd64.
 90s Preparing to unpack .../012-libsharpyuv0_1.5.0-0.1_amd64.deb ...
 90s Unpacking libsharpyuv0:amd64 (1.5.0-0.1) ...
 90s Selecting previously unselected package libwebp7:amd64.
 90s Preparing to unpack .../013-libwebp7_1.5.0-0.1_amd64.deb ...
 90s Unpacking libwebp7:amd64 (1.5.0-0.1) ...
 90s Selecting previously unselected package libtiff6:amd64.
 90s Preparing to unpack .../014-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ...
 90s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ...
 90s Selecting previously unselected package libgdk-pixbuf-2.0-0:amd64.
 90s Preparing to unpack .../015-libgdk-pixbuf-2.0-0_2.42.12+dfsg-2_amd64.deb ...
 90s Unpacking libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-2) ...
 90s Selecting previously unselected package gtk-update-icon-cache.
 90s Preparing to unpack .../016-gtk-update-icon-cache_4.18.4+ds-1_amd64.deb ...
 90s No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed.
 90s No diversion 'diversion of /usr/share/man/man8/update-icon-caches.8.gz to /usr/share/man/man8/update-icon-caches.gtk2.8.gz by libgtk-3-bin', none removed.
 90s Unpacking gtk-update-icon-cache (4.18.4+ds-1) ...
 90s Selecting previously unselected package hicolor-icon-theme.
 90s Preparing to unpack .../017-hicolor-icon-theme_0.18-2_all.deb ...
 90s Unpacking hicolor-icon-theme (0.18-2) ...
 90s Selecting previously unselected package adwaita-icon-theme.
 90s Preparing to unpack .../018-adwaita-icon-theme_48.0-1_all.deb ...
 90s Unpacking adwaita-icon-theme (48.0-1) ...
 90s Selecting previously unselected package at-spi2-common.
 90s Preparing to unpack .../019-at-spi2-common_2.56.1-1_all.deb ...
 90s Unpacking at-spi2-common (2.56.1-1) ...
 90s Selecting previously unselected package libaec0:amd64.
 90s Preparing to unpack .../020-libaec0_1.1.3-1_amd64.deb ...
 90s Unpacking libaec0:amd64 (1.1.3-1) ...
 90s Selecting previously unselected package libsz2:amd64.
 90s Preparing to unpack .../021-libsz2_1.1.3-1_amd64.deb ...
 90s Unpacking libsz2:amd64 (1.1.3-1) ...
 90s Selecting previously unselected package libhdf5-310:amd64.
 90s Preparing to unpack .../022-libhdf5-310_1.14.5+repack-3_amd64.deb ...
 90s Unpacking libhdf5-310:amd64 (1.14.5+repack-3) ...
 90s Selecting previously unselected package libhdf5-hl-310:amd64.
 90s Preparing to unpack .../023-libhdf5-hl-310_1.14.5+repack-3_amd64.deb ...
 90s Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-3) ...
 90s Selecting previously unselected package liblzf1:amd64.
 90s Preparing to unpack .../024-liblzf1_3.6-4_amd64.deb ...
 90s Unpacking liblzf1:amd64 (3.6-4) ...
 90s Selecting previously unselected package python3-h5py-serial.
 90s Preparing to unpack .../025-python3-h5py-serial_3.13.0-1_amd64.deb ...
 90s Unpacking python3-h5py-serial (3.13.0-1) ...
 91s Selecting previously unselected package python3-h5py.
 91s Preparing to unpack .../026-python3-h5py_3.13.0-1_all.deb ...
 91s Unpacking python3-h5py (3.13.0-1) ...
 91s Selecting previously unselected package libgomp1:amd64.
 91s Preparing to unpack .../027-libgomp1_15-20250404-0ubuntu1_amd64.deb ...
 91s Unpacking libgomp1:amd64 (15-20250404-0ubuntu1) ...
 91s Selecting previously unselected package libevent-pthreads-2.1-7t64:amd64.
 91s Preparing to unpack .../028-libevent-pthreads-2.1-7t64_2.1.12-stable-10_amd64.deb ...
 91s Unpacking libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ...
 91s Selecting previously unselected package libpsm-infinipath1.
 91s Preparing to unpack .../029-libpsm-infinipath1_3.3+20.604758e7-6.3build1_amd64.deb ...
 91s Unpacking libpsm-infinipath1 (3.3+20.604758e7-6.3build1) ...
 91s Selecting previously unselected package libpsm2-2.
 91s Preparing to unpack .../030-libpsm2-2_11.2.185-2.1_amd64.deb ...
 91s Unpacking libpsm2-2 (11.2.185-2.1) ...
 91s Selecting previously unselected package librdmacm1t64:amd64.
 91s Preparing to unpack .../031-librdmacm1t64_56.0-4ubuntu1_amd64.deb ...
 91s Unpacking librdmacm1t64:amd64 (56.0-4ubuntu1) ...
 91s Selecting previously unselected package libfabric1:amd64.
 91s Preparing to unpack .../032-libfabric1_1.17.0-3.1_amd64.deb ...
 91s Unpacking libfabric1:amd64 (1.17.0-3.1) ...
 91s Selecting previously unselected package libhwloc15:amd64.
 91s Preparing to unpack .../033-libhwloc15_2.12.0-1_amd64.deb ...
 91s Unpacking libhwloc15:amd64 (2.12.0-1) ...
 91s Selecting previously unselected package libmunge2:amd64.
 91s Preparing to unpack .../034-libmunge2_0.5.16-1_amd64.deb ...
 91s Unpacking libmunge2:amd64 (0.5.16-1) ...
 91s Selecting previously unselected package libpciaccess0:amd64.
 91s Preparing to unpack .../035-libpciaccess0_0.17-3build1_amd64.deb ...
 91s Unpacking libpciaccess0:amd64 (0.17-3build1) ...
 91s Selecting previously unselected package libxnvctrl0:amd64.
 91s Preparing to unpack .../036-libxnvctrl0_510.47.03-0ubuntu4_amd64.deb ...
 91s Unpacking libxnvctrl0:amd64 (510.47.03-0ubuntu4) ...
 91s Selecting previously unselected package ocl-icd-libopencl1:amd64.
 91s Preparing to unpack .../037-ocl-icd-libopencl1_2.3.2-1build1_amd64.deb ...
 91s Unpacking ocl-icd-libopencl1:amd64 (2.3.2-1build1) ...
 91s Selecting previously unselected package libhwloc-plugins:amd64.
 91s Preparing to unpack .../038-libhwloc-plugins_2.12.0-1_amd64.deb ...
 91s Unpacking libhwloc-plugins:amd64 (2.12.0-1) ...
 91s Selecting previously unselected package libpmix2t64:amd64.
 91s Preparing to unpack .../039-libpmix2t64_5.0.6-5_amd64.deb ...
 91s Unpacking libpmix2t64:amd64 (5.0.6-5) ...
 91s Selecting previously unselected package libllvm17t64:amd64.
 91s Preparing to unpack .../040-libllvm17t64_1%3a17.0.6-21_amd64.deb ...
 91s Unpacking libllvm17t64:amd64 (1:17.0.6-21) ...
 92s Selecting previously unselected package libamd-comgr2:amd64.
 92s Preparing to unpack .../041-libamd-comgr2_6.0+git20231212.4510c28+dfsg-3build2_amd64.deb ...
 92s Unpacking libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3build2) ...
 92s Selecting previously unselected package libhsakmt1:amd64.
 92s Preparing to unpack .../042-libhsakmt1_5.7.0-1build1_amd64.deb ...
 92s Unpacking libhsakmt1:amd64 (5.7.0-1build1) ...
 92s Selecting previously unselected package libhsa-runtime64-1.
 92s Preparing to unpack .../043-libhsa-runtime64-1_5.7.1-2build1_amd64.deb ...
 92s Unpacking libhsa-runtime64-1 (5.7.1-2build1) ...
 92s Selecting previously unselected package libamdhip64-5.
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105s Selecting previously unselected package libopengl0:amd64.
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105s Selecting previously unselected package libglu1-mesa:amd64.
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105s Selecting previously unselected package libglut3.12:amd64.
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105s Selecting previously unselected package python3-pyqt5.sip.
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105s Selecting previously unselected package libdouble-conversion3:amd64.
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105s Selecting previously unselected package libpcre2-16-0:amd64.
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105s Selecting previously unselected package libqt5core5t64:amd64.
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107s Selecting previously unselected package libavahi-client3:amd64.
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107s Selecting previously unselected package libcups2t64:amd64.
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107s Selecting previously unselected package libqt5printsupport5t64:amd64.
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107s Selecting previously unselected package libqt5opengl5t64:amd64.
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107s Selecting previously unselected package libglew2.2:amd64.
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107s Selecting previously unselected package libnetcdf22:amd64.
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108s Selecting previously unselected package libpcre2-32-0:amd64.
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108s Selecting previously unselected package libwxbase3.2-1t64:amd64.
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108s Selecting previously unselected package libatk1.0-0t64:amd64.
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108s Selecting previously unselected package libatspi2.0-0t64:amd64.
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108s Selecting previously unselected package libpixman-1-0:amd64.
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108s Selecting previously unselected package libxcomposite1:amd64.
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109s Selecting previously unselected package libgtk-3-0t64:amd64.
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109s Selecting previously unselected package libwxgtk3.2-1t64:amd64.
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109s Selecting previously unselected package libwxgtk-gl3.2-1t64:amd64.
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109s Selecting previously unselected package python3-wxgtk4.0.
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109s Selecting previously unselected package libantlr3c-3.4-0:amd64.
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109s Selecting previously unselected package libboost-numpy1.83.0.
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109s Selecting previously unselected package libboost-timer1.83.0:amd64.
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110s Selecting previously unselected package python3-cctbx.
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111s Selecting previously unselected package python3-pandas-lib:amd64.
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111s Selecting previously unselected package python3-pandas.
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111s Selecting previously unselected package python3-psutil.
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111s Selecting previously unselected package python3-fabio.
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111s Selecting previously unselected package python3-mako.
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111s Selecting previously unselected package libpocl2-common.
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111s Selecting previously unselected package libpocl2t64:amd64.
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112s Selecting previously unselected package pocl-opencl-icd:amd64.
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112s Selecting previously unselected package python3-pytools.
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112s Selecting previously unselected package python3-pyopencl.
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112s Selecting previously unselected package libqt5svg5:amd64.
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112s Selecting previously unselected package python3-pyqt5.qtsvg.
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112s Selecting previously unselected package libbabeltrace1:amd64.
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112s Selecting previously unselected package libsource-highlight4t64:amd64.
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115s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ...
115s Setting up libboost-python1.83.0 (1.83.0-4.2ubuntu1) ...
115s Setting up libxcb-dri3-0:amd64 (1.17.0-2) ...
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115s Setting up python3-iniconfig (1.1.1-2) ...
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116s Setting up libnorm1t64:amd64 (1.5.9+dfsg-3.1build1) ...
116s Setting up libsharpyuv0:amd64 (1.5.0-0.1) ...
116s Setting up libwayland-server0:amd64 (1.23.1-3) ...
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116s Setting up libpciaccess0:amd64 (0.17-3build1) ...
116s Setting up python3-pure-eval (0.2.3-1) ...
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116s Setting up fonts-lato (2.015-1) ...
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116s Setting up libsodium23:amd64 (1.0.18-1build3) ...
116s Setting up libxdamage1:amd64 (1:1.1.6-1build1) ...
116s Setting up libxcb-xfixes0:amd64 (1.17.0-2) ...
116s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu1) ...
116s Setting up libantlr3c-3.4-0:amd64 (3.4+dfsg-4build2) ...
116s Setting up hicolor-icon-theme (0.18-2) ...
116s Setting up libjs-mathjax (2.7.9+dfsg-1) ...
116s Setting up libxi6:amd64 (2:1.8.2-1) ...
116s Setting up libxcb-xinput0:amd64 (1.17.0-2) ...
116s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ...
116s Setting up libdatrie1:amd64 (0.2.13-3build1) ...
116s Setting up python3-joblib (1.4.2-3) ...
116s Setting up python3-parso (0.8.4-1) ...
116s Setting up python3-importlib-resources (6.5.2-1) ...
117s Setting up libmmdb2-0:amd64 (2.0.22-1) ...
117s Setting up libboost-timer1.83.0:amd64 (1.83.0-4.2ubuntu1) ...
117s Setting up python3-lz4 (4.4.0+dfsg-1build1) ...
117s Setting up libxcb-render0:amd64 (1.17.0-2) ...
117s Setting up python3-asttokens (3.0.0-1) ...
117s Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ...
117s Setting up libglvnd0:amd64 (1.7.0-1build1) ...
117s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ...
117s Setting up python3-unicodedata2 (15.1.0+ds-1build3) ...
117s Setting up fonts-lyx (2.4.3-1) ...
117s Setting up libxcb-glx0:amd64 (1.17.0-2) ...
117s Setting up python3-tenacity (9.0.0-0ubuntu1) ...
117s Setting up python3-tqdm (4.67.1-3) ...
117s Setting up libdrm-intel1:amd64 (2.4.124-2) ...
117s Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-2) ...
117s Setting up python3-threadpoolctl (3.1.0-1) ...
117s Setting up libxcb-keysyms1:amd64 (0.4.1-1) ...
117s Setting up libxcb-shape0:amd64 (1.17.0-2) ...
117s Setting up x11-common (1:7.7+23ubuntu4) ...
118s Setting up libibumad3:amd64 (56.0-4ubuntu1) ...
118s Setting up libdeflate0:amd64 (1.23-1) ...
118s Setting up libboost-thread1.83.0:amd64 (1.83.0-4.2ubuntu1) ...
118s Setting up python3-tabulate (0.9.0-1) ...
118s Setting up libqhull-r8.0:amd64 (2020.2-6build1) ...
118s Setting up libxcb-render-util0:amd64 (0.3.10-1) ...
118s Setting up python3-all (3.13.3-1) ...
118s Setting up python3-coverage (7.6.0+dfsg1-2build1) ...
118s Setting up python3-ordered-set (4.1.0-1) ...
118s Setting up python3-pytz (2025.1-3) ...
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118s Setting up libibmad5:amd64 (56.0-4ubuntu1) ...
118s Setting up libxcb-icccm4:amd64 (0.4.2-1) ...
118s Setting up libccp4-data (8.0.0-4) ...
118s Setting up libgomp1:amd64 (15-20250404-0ubuntu1) ...
118s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ...
118s Setting up libpcre2-16-0:amd64 (10.45-1) ...
118s Setting up libaec0:amd64 (1.1.3-1) ...
118s Setting up libcolord2:amd64 (1.4.7-3) ...
118s Setting up python3-platformdirs (4.3.6-1) ...
118s Setting up python3-psutil (5.9.8-2build3) ...
119s Setting up libsource-highlight-common (3.1.9-4.3build1) ...
119s Setting up libopengl0:amd64 (1.7.0-1build1) ...
119s Setting up python3-tz (2025.1-3) ...
119s Setting up python3-natsort (8.0.2-2) ...
119s Setting up libxcb-util1:amd64 (0.4.1-1) ...
119s Setting up libxxf86vm1:amd64 (1:1.1.4-1build4) ...
119s Setting up libxcb-xkb1:amd64 (1.17.0-2) ...
119s Setting up libxcb-image0:amd64 (0.4.0-2build1) ...
119s Setting up python3-fs (2.4.16-7) ...
119s Setting up libxnvctrl0:amd64 (510.47.03-0ubuntu4) ...
119s Setting up libxcb-present0:amd64 (1.17.0-2) ...
119s Setting up libdconf1:amd64 (0.40.0-5) ...
119s Setting up unicode-data (15.1.0-1) ...
119s Setting up python3-six (1.17.0-1) ...
119s Setting up libpgm-5.3-0t64:amd64 (5.3.128~dfsg-2.1build1) ...
119s Setting up libqt5core5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
119s Setting up python3-decorator (5.1.1-5) ...
119s Setting up libboost-numpy1.83.0 (1.83.0-4.2ubuntu1) ...
119s Setting up libpcre2-32-0:amd64 (10.45-1) ...
119s Setting up libblas3:amd64 (3.12.1-2) ...
119s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
119s Setting up python3-packaging (24.2-1) ...
119s Setting up libxcb-xinerama0:amd64 (1.17.0-2) ...
119s Setting up python3-flexparser (0.4-1) ...
119s Setting up libmunge2:amd64 (0.5.16-1) ...
119s Setting up libllvm17t64:amd64 (1:17.0.6-21) ...
119s Setting up libexpat1-dev:amd64 (2.7.1-1) ...
119s Setting up python3-wcwidth (0.2.13+dfsg1-1) ...
120s Setting up fonts-katex (0.16.10+~cs6.1.0-2) ...
120s Setting up libann-cctbx0 (1.1.2+doc-9build1) ...
120s Setting up libepoxy0:amd64 (1.5.10-2) ...
120s Setting up python3-typeshed (0.0~git20241223.ea91db2-1) ...
120s Setting up libxfixes3:amd64 (1:6.0.0-2build1) ...
120s Setting up libxcb-sync1:amd64 (1.17.0-2) ...
120s Setting up python3-executing (2.2.0-0.1) ...
120s Setting up python3-pooch (1.8.2-1) ...
120s Setting up python3-nest-asyncio (1.5.4-1) ...
120s Setting up python3-brotli (1.1.0-2build4) ...
120s Setting up libavahi-common-data:amd64 (0.8-16ubuntu2) ...
120s Setting up libatspi2.0-0t64:amd64 (2.56.1-1) ...
120s Setting up liblzf1:amd64 (3.6-4) ...
120s Setting up libpocl2-common (6.0-4) ...
120s Setting up libquadmath0:amd64 (15-20250404-0ubuntu1) ...
120s Setting up python3-cycler (0.12.1-1) ...
120s Setting up libxinerama1:amd64 (2:1.1.4-3build1) ...
120s Setting up libimagequant0:amd64 (2.18.0-1build1) ...
120s Setting up pymol-data (3.1.0+dfsg-1) ...
120s Setting up libxkbcommon-x11-0:amd64 (1.7.0-2) ...
120s Setting up fonts-dejavu-mono (2.37-8) ...
120s Setting up python3-kiwisolver (1.4.7-3build1) ...
120s Setting up libhwloc15:amd64 (2.12.0-1) ...
120s Setting up python3-numpy-dev:amd64 (1:2.2.3+ds-5) ...
120s Setting up libxrandr2:amd64 (2:1.5.4-1) ...
120s Setting up libtcl8.6:amd64 (8.6.16+dfsg-1) ...
120s Setting up libipt2 (2.1.2-1) ...
120s Setting up fonts-dejavu-core (2.37-8) ...
120s Setting up libclang-common-18-dev:amd64 (1:18.1.8-17) ...
120s Setting up libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ...
120s Setting up libgc1:amd64 (1:8.2.8-1) ...
120s Setting up libbabeltrace1:amd64 (1.5.11-4build2) ...
120s Setting up libgfortran5:amd64 (15-20250404-0ubuntu1) ...
120s Setting up libvulkan1:amd64 (1.4.304.0-1) ...
120s Setting up llvm-18-linker-tools (1:18.1.8-17) ...
120s Setting up python3-pluggy (1.5.0-1) ...
121s Setting up libwebp7:amd64 (1.5.0-0.1) ...
121s Setting up libubsan1:amd64 (15-20250404-0ubuntu1) ...
121s Setting up python3-fastjsonschema (2.21.1-1) ...
121s Setting up python3-legacy-cgi (2.6.2-1) ...
121s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ...
121s Setting up python3-pyqt5.sip (12.17.0-1build1) ...
121s Setting up libmtdev1t64:amd64 (1.1.7-1) ...
121s Setting up ocl-icd-libopencl1:amd64 (2.3.2-1build1) ...
121s Setting up libxshmfence1:amd64 (1.3-1build5) ...
121s Setting up libhwasan0:amd64 (15-20250404-0ubuntu1) ...
121s Setting up at-spi2-common (2.56.1-1) ...
121s Setting up libccp4c0t64:amd64 (8.0.0-4) ...
121s Setting up libxcb-randr0:amd64 (1.17.0-2) ...
121s Setting up python3-traitlets (5.14.3+really5.14.3-1) ...
121s Setting up libasan8:amd64 (15-20250404-0ubuntu1) ...
121s Setting up libxslt1.1:amd64 (1.1.39-0exp1ubuntu4) ...
121s Setting up libpsm2-2 (11.2.185-2.1) ...
121s Setting up libqt5sql5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
121s Setting up libmd4c0:amd64 (0.5.2-2) ...
121s Setting up librdmacm1t64:amd64 (56.0-4ubuntu1) ...
121s Setting up python3-qtpy (2.4.2-9) ...
121s Setting up libopenjp2-7:amd64 (2.5.3-2) ...
121s Setting up libharfbuzz0b:amd64 (10.2.0-1) ...
121s Setting up libthai-data (0.1.29-2build1) ...
121s Setting up python3-dateutil (2.9.0-4) ...
121s Setting up libjs-katex (0.16.10+~cs6.1.0-2) ...
121s Setting up python3-flexcache (0.3-2) ...
121s Setting up libglu1-mesa:amd64 (9.0.2-1.1build1) ...
121s Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3build2) ...
121s Setting up libwayland-egl1:amd64 (1.23.1-3) ...
121s Setting up libxss1:amd64 (1:1.2.3-1build3) ...
121s Setting up libpsm-infinipath1 (3.3+20.604758e7-6.3build1) ...
121s update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode
121s Setting up libtsan2:amd64 (15-20250404-0ubuntu1) ...
121s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
121s Setting up libwxbase3.2-1t64:amd64 (3.2.6+dfsg-2ubuntu1) ...
121s Setting up python3-mpmath (1.3.0-1) ...
122s Setting up python3-execnet (2.1.1-1) ...
122s Setting up python-matplotlib-data (3.8.3-7build1) ...
122s Setting up libwebpmux3:amd64 (1.5.0-0.1) ...
122s Setting up libxcomposite1:amd64 (1:0.4.6-1) ...
122s Setting up python3-stack-data (0.6.3-1) ...
122s Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ...
122s Setting up sphinx-rtd-theme-common (3.0.2+dfsg-2) ...
122s Setting up python3-procrunner (2.3.3-2) ...
122s Setting up python3-jupyter-core (5.7.2-5) ...
122s Setting up liblsan0:amd64 (15-20250404-0ubuntu1) ...
122s Setting up libhsakmt1:amd64 (5.7.0-1build1) ...
122s Setting up libsz2:amd64 (1.1.3-1) ...
122s Setting up libjs-bootstrap (3.4.1+dfsg-3) ...
122s Setting up libitm1:amd64 (15-20250404-0ubuntu1) ...
122s Setting up python3-mako (1.3.8-2) ...
122s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ...
122s Setting up libann-cctbx-dev (1.1.2+doc-9build1) ...
122s Setting up python3-ptyprocess (0.7.0-6) ...
123s Setting up libwacom-common (2.14.0-1) ...
123s Setting up libwayland-client0:amd64 (1.23.1-3) ...
123s Setting up libjpeg8:amd64 (8c-2ubuntu11) ...
123s Setting up python3-prompt-toolkit (3.0.50-1) ...
123s Setting up libfabric1:amd64 (1.17.0-3.1) ...
123s Setting up python3-sympy (1.13.3-5) ...
128s Setting up libice6:amd64 (2:1.1.1-1) ...
128s Setting up mesa-libgallium:amd64 (25.0.3-1ubuntu2) ...
128s Setting up liblapack3:amd64 (3.12.1-2) ...
128s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
128s Setting up libqt5dbus5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
128s Setting up libssm2:amd64 (1.4.0-2build1) ...
128s Setting up libatk1.0-0t64:amd64 (2.56.1-1) ...
128s Setting up libzmq5:amd64 (4.3.5-1build2) ...
128s Setting up python3-jedi (0.19.1+ds1-1) ...
128s Setting up libgbm1:amd64 (25.0.3-1ubuntu2) ...
128s Setting up libwacom9:amd64 (2.14.0-1) ...
128s Setting up fontconfig-config (2.15.0-2.2ubuntu1) ...
129s Setting up python3-pytest (8.3.5-1) ...
129s Setting up libxtst6:amd64 (2:1.2.5-1) ...
129s Setting up libwebpdemux2:amd64 (1.5.0-0.1) ...
129s Setting up libxcursor1:amd64 (1:1.2.3-1) ...
129s Setting up libgl1-mesa-dri:amd64 (25.0.3-1ubuntu2) ...
129s Setting up libqt5network5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
129s Setting up libavahi-common3:amd64 (0.8-16ubuntu2) ...
129s Setting up libqt5xml5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
129s Setting up libobjc4:amd64 (15-20250404-0ubuntu1) ...
129s Setting up dconf-service (0.40.0-5) ...
129s Setting up libsource-highlight4t64:amd64 (3.1.9-4.3build1) ...
129s Setting up python3-nbformat (5.9.1-1) ...
129s Setting up libqt5test5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
129s Setting up libhwloc-plugins:amd64 (2.12.0-1) ...
129s Setting up libccp4f0t64:amd64 (8.0.0-4) ...
129s Setting up libinput-bin (1.27.1-1) ...
129s Setting up python3-matplotlib-inline (0.1.6-2) ...
129s Setting up python3-comm (0.2.1-1) ...
129s Setting up python3-pint (0.24.4-1) ...
130s Setting up libthai0:amd64 (0.1.29-2build1) ...
130s Setting up libegl-mesa0:amd64 (25.0.3-1ubuntu2) ...
130s Setting up gdb (16.2-8ubuntu1) ...
130s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
130s Setting up python3-pexpect (4.9-3) ...
130s Setting up python3-zmq (26.2.1-1build1) ...
130s Setting up libraqm0:amd64 (0.10.2-1) ...
130s Setting up libpython3.13-dev:amd64 (3.13.3-1) ...
130s Setting up libpmix2t64:amd64 (5.0.6-5) ...
130s Setting up python3-plotly (5.20.0+dfsg-1) ...
135s Setting up python3-numpy (1:2.2.3+ds-5) ...
137s Setting up libjs-sphinxdoc (8.1.3-5) ...
137s Setting up libhdf5-310:amd64 (1.14.5+repack-3) ...
137s Setting up python3-pytest-mock (3.14.0-2) ...
137s Setting up python3-lxml:amd64 (5.3.2-1) ...
137s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ...
137s Setting up libwayland-cursor0:amd64 (1.23.1-3) ...
137s Setting up libhsa-runtime64-1 (5.7.1-2build1) ...
137s Setting up libegl1:amd64 (1.7.0-1build1) ...
137s Setting up python3-jupyter-client (8.6.3-2) ...
138s Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-2) ...
138s Setting up python3-contourpy (1.3.1-1build1) ...
138s Setting up libfontconfig1:amd64 (2.15.0-2.2ubuntu1) ...
138s Setting up libgcc-14-dev:amd64 (14.2.0-19ubuntu2) ...
138s Setting up python3-dials-data (2.4.0-2) ...
138s Setting up libstdc++-14-dev:amd64 (14.2.0-19ubuntu2) ...
138s Setting up libsm6:amd64 (2:1.2.4-1) ...
138s Setting up libavahi-client3:amd64 (0.8-16ubuntu2) ...
138s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ...
138s Setting up python3-mrcfile (1.5.4-2) ...
138s Setting up libatk-bridge2.0-0t64:amd64 (2.56.1-1) ...
138s Setting up libinput10:amd64 (1.27.1-1) ...
138s Setting up gtk-update-icon-cache (4.18.4+ds-1) ...
138s Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ...
138s Setting up fontconfig (2.15.0-2.2ubuntu1) ...
140s Regenerating fonts cache... done.
140s Setting up libxft2:amd64 (2.3.6-1build1) ...
140s Setting up libboost1.83-dev:amd64 (1.83.0-4.2ubuntu1) ...
140s Setting up libglx-mesa0:amd64 (25.0.3-1ubuntu2) ...
140s Setting up python3-scipy (1.14.1-4ubuntu2) ...
143s Setting up libpython3-dev:amd64 (3.13.3-1) ...
143s Setting up libcbf1t64:amd64 (0.9.7+dfsg1-5build1) ...
143s Setting up python3-pytest-xdist (3.6.1-1) ...
143s Setting up libglx0:amd64 (1.7.0-1build1) ...
143s Setting up dconf-gsettings-backend:amd64 (0.40.0-5) ...
143s Setting up libccp4-dev:amd64 (8.0.0-4) ...
143s Setting up python3.13-dev (3.13.3-1) ...
143s Setting up libtk8.6:amd64 (8.6.16-1) ...
143s Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-8build1) ...
143s Setting up libpango-1.0-0:amd64 (1.56.3-1) ...
143s Setting up libnetcdf22:amd64 (1:4.9.3-1) ...
143s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-8) ...
143s Setting up python3-h5py-serial (3.13.0-1) ...
143s Setting up libobjc-14-dev:amd64 (14.2.0-19ubuntu2) ...
143s Setting up python3-debugpy (1.8.8+ds-2ubuntu1) ...
144s Setting up libcairo2:amd64 (1.18.4-1) ...
144s Setting up python3.13-tk (3.13.3-1) ...
144s Setting up python3-pil:amd64 (11.1.0-5build1) ...
144s Setting up libgl1:amd64 (1.7.0-1build1) ...
144s Setting up python3-pandas (2.2.3+dfsg-8build1) ...
148s Setting up libamdhip64-5 (5.7.1-5build1) ...
148s Setting up adwaita-icon-theme (48.0-1) ...
148s update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode
148s Setting up python3-ipython (8.30.0-2) ...
149s Setting up libglut3.12:amd64 (3.4.0-4) ...
149s Setting up libnotify4:amd64 (0.8.4-1) ...
149s Setting up python3-dev (3.13.3-1) ...
149s Setting up libboost-python1.83-dev (1.83.0-4.2ubuntu1) ...
149s Setting up python3-pycbf (0.9.7+dfsg1-5build1) ...
149s Setting up python3-ipykernel (6.29.5-2) ...
149s Setting up python3-h5py (3.13.0-1) ...
149s Setting up python3-sklearn (1.4.2+dfsg-8) ...
151s Setting up python3-numexpr (2.10.2-1build2) ...
151s Setting up python3-pytools (2024.1.14-1) ...
151s Setting up libglew2.2:amd64 (2.2.0-4build1) ...
151s Setting up python3-hdf5plugin (5.0.0-1) ...
151s Setting up libcairo-gobject2:amd64 (1.18.4-1) ...
151s Setting up libpangoft2-1.0-0:amd64 (1.56.3-1) ...
151s Setting up python3-nxmx (0.0.4-1) ...
151s Setting up libcups2t64:amd64 (2.4.12-0ubuntu1) ...
151s Setting up libgtk-3-common (3.24.49-2ubuntu1) ...
151s Setting up libpangocairo-1.0-0:amd64 (1.56.3-1) ...
151s Setting up libcctbx0 (2024.10+ds2+~3.22.1+ds1-4build2) ...
151s Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ...
151s Setting up libucx0:amd64 (1.18.1+ds-2) ...
151s Setting up blt (2.5.3+dfsg-8) ...
151s Setting up python3-tk:amd64 (3.13.3-1) ...
151s Setting up clang-18 (1:18.1.8-17) ...
151s Setting up python3-opengl (3.1.9+dfsg-1syncable1) ...
152s /usr/lib/python3/dist-packages/OpenGL/GL/AMD/vertex_shader_tessellator.py:30: SyntaxWarning: invalid escape sequence '\ '
152s   |\ |\
153s Setting up python3-qtconsole (5.6.1-4) ...
153s Setting up libboost-python-dev (1.83.0.2ubuntu1) ...
153s Setting up libqt5gui5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
153s Setting up python3-pil.imagetk:amd64 (11.1.0-5build1) ...
153s Setting up libcctbx-dev (2024.10+ds2+~3.22.1+ds1-4build2) ...
153s Setting up libopenmpi40:amd64 (5.0.7-1) ...
153s Setting up libqt5widgets5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
153s Setting up libpocl2t64:amd64 (6.0-4) ...
153s Setting up libqt5svg5:amd64 (5.15.15-2) ...
153s Setting up libhdf5-openmpi-310:amd64 (1.14.5+repack-3) ...
153s Setting up libqt5help5:amd64 (5.15.15-6build1) ...
153s Setting up pocl-opencl-icd:amd64 (6.0-4) ...
153s Setting up libqt5opengl5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
153s Setting up python3-pyopencl (2024.1-3build1) ...
153s Setting up libqt5printsupport5t64:amd64 (5.15.15+dfsg-4ubuntu1) ...
153s Setting up bitshuffle (0.5.2-1build2) ...
153s Setting up libqt5designer5:amd64 (5.15.15-6build1) ...
153s Setting up python3-pyqt5 (5.15.11+dfsg-2) ...
153s Setting up python3-pyqt5.qtsvg (5.15.11+dfsg-2) ...
153s Setting up python3-pyqt5.qtopengl (5.15.11+dfsg-2) ...
153s Setting up python3-pymol (3.1.0+dfsg-1) ...
154s Setting up python3-fonttools (4.55.3-2build1) ...
155s Setting up python3-ufolib2 (0.17.0+dfsg1-1) ...
155s Setting up python3-matplotlib (3.8.3-7build1) ...
156s Setting up python3-fabio (2024.9.0-7) ...
157s Setting up python3-silx (2.2.1+dfsg-3) ...
158s Setting up python3-pyfai (2025.03-1) ...
159s Processing triggers for libc-bin (2.41-6ubuntu1) ...
159s Processing triggers for man-db (2.13.0-1) ...
160s Processing triggers for libglib2.0-0t64:amd64 (2.84.1-1) ...
160s Setting up libgtk-3-0t64:amd64 (3.24.49-2ubuntu1) ...
160s Processing triggers for udev (257.4-1ubuntu3) ...
160s Setting up libwxgtk3.2-1t64:amd64 (3.2.6+dfsg-2ubuntu1) ...
160s Setting up libwxgtk-gl3.2-1t64:amd64 (3.2.6+dfsg-2ubuntu1) ...
160s Setting up python3-wxgtk4.0 (4.2.2+dfsg-3build1) ...
162s Setting up python3-cctbx (2024.10+ds2+~3.22.1+ds1-4build2) ...
164s /usr/lib/python3/dist-packages/iotbx/pdb/utils.py:18: SyntaxWarning: invalid escape sequence '\{'
164s   []_,.;:"&<>()/\{}'`~!@#$%*|+-
164s /usr/lib/python3/dist-packages/iotbx/pdb/utils.py:46: SyntaxWarning: invalid escape sequence '\/'
164s   special_characters = """[]_,.;:"&<>()\/\{}'`~!@#$%*|+-"""
173s /usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:724: SyntaxWarning: invalid escape sequence '\o'
173s   width=pairwise_differences_db, label='$\omega_{hkl}$'
173s /usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:739: SyntaxWarning: invalid escape sequence '\o'
173s   axes[0].set_ylabel('Distribution of $\omega_{hbk}$')
173s /usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:740: SyntaxWarning: invalid escape sequence '\o'
173s   axes[0].set_xlabel('Normalized PD ($\omega_{hbk}$)')
173s /usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:759: SyntaxWarning: invalid escape sequence '\o'
173s   axes[1].set_xlabel('Sorted Normalized PD ($\omega_{hbk}$)')
173s /usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:778: SyntaxWarning: invalid escape sequence '\s'
173s   axes[2].set_ylabel('Standard Deviation of $I_{hbk}/\sigma_{hbk}$')
173s /usr/lib/python3/dist-packages/xfel/merging/application/errors/error_modifier_mm24.py:807: SyntaxWarning: invalid escape sequence '\m'
173s   axes_sadd.set_ylabel('$s_{\mathrm{fac}}^2 \\times s_{\mathrm{add}}^2$')
173s Setting up python3-dials (3.22.1+dfsg3-1build1) ...
174s Setting up dials (3.22.1+dfsg3-1build1) ...
174s Processing triggers for libc-bin (2.41-6ubuntu1) ...
175s autopkgtest [09:30:07]: test command1: set -efu ; for py in $(py3versions -r 2>/dev/null) ; do cp -r tests conftest.py "$AUTOPKGTEST_TMP" || true ; cd "$AUTOPKGTEST_TMP" ; echo "Testing dials with $py:" ; DIALS_DATA="$AUTOPKGTEST_TMP" $py -m pytest --verbosity=2 ; done
175s autopkgtest [09:30:07]: test command1: [-----------------------
175s Testing dials with python3.13:
176s ============================= test session starts ==============================
176s platform linux -- Python 3.13.3, pytest-8.3.5, pluggy-1.5.0 -- /usr/bin/python3.13
176s cachedir: .pytest_cache
176s rootdir: /tmp/autopkgtest.avaKYO/autopkgtest_tmp
176s plugins: dials-data-2.4.0, typeguard-4.4.2, xdist-3.6.1, mock-3.14.0
187s collecting ... collected 1272 items / 10 errors
187s 
187s ==================================== ERRORS ====================================
187s _ ERROR collecting tests/algorithms/indexing/lattice_search/test_lattice_search.py _
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/algorithms/indexing/lattice_search/test_lattice_search.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/algorithms/indexing/lattice_search/test_lattice_search.py:10: in <module>
187s     from dials.algorithms.indexing import lattice_search, stills_indexer
187s /usr/lib/python3/dist-packages/dials/algorithms/indexing/lattice_search/__init__.py:19: in <module>
187s     from .pinkindexer import PinkIndexer
187s /usr/lib/python3/dist-packages/dials/algorithms/indexing/lattice_search/pinkindexer.py:5: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s _______ ERROR collecting tests/algorithms/merging/test_french_wilson.py ________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/algorithms/merging/test_french_wilson.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/algorithms/merging/test_french_wilson.py:8: in <module>
187s     from dials.algorithms.merging import french_wilson, merge
187s /usr/lib/python3/dist-packages/dials/algorithms/merging/merge.py:49: in <module>
187s     from dials.util.export_mtz import MADMergedMTZWriter, MergedMTZWriter
187s /usr/lib/python3/dist-packages/dials/util/export_mtz.py:12: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s ___________ ERROR collecting tests/algorithms/merging/test_merge.py ____________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/algorithms/merging/test_merge.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/algorithms/merging/test_merge.py:8: in <module>
187s     from dials.algorithms.merging.merge import (
187s /usr/lib/python3/dist-packages/dials/algorithms/merging/merge.py:49: in <module>
187s     from dials.util.export_mtz import MADMergedMTZWriter, MergedMTZWriter
187s /usr/lib/python3/dist-packages/dials/util/export_mtz.py:12: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s ___________ ERROR collecting tests/algorithms/scaling/test_scale.py ____________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/algorithms/scaling/test_scale.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/algorithms/scaling/test_scale.py:22: in <module>
187s     from dials.algorithms.scaling.algorithm import ScalingAlgorithm, prepare_input
187s /usr/lib/python3/dist-packages/dials/algorithms/scaling/algorithm.py:37: in <module>
187s     from dials.command_line.cosym import cosym
187s /usr/lib/python3/dist-packages/dials/command_line/cosym.py:20: in <module>
187s     from dials.command_line.symmetry import (
187s /usr/lib/python3/dist-packages/dials/command_line/symmetry.py:19: in <module>
187s     from dials.algorithms.merging.merge import prepare_merged_reflection_table
187s /usr/lib/python3/dist-packages/dials/algorithms/merging/merge.py:49: in <module>
187s     from dials.util.export_mtz import MADMergedMTZWriter, MergedMTZWriter
187s /usr/lib/python3/dist-packages/dials/util/export_mtz.py:12: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s ______________ ERROR collecting tests/command_line/test_cosym.py _______________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/command_line/test_cosym.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/command_line/test_cosym.py:11: in <module>
187s     import dials.command_line.cosym as dials_cosym
187s /usr/lib/python3/dist-packages/dials/command_line/cosym.py:20: in <module>
187s     from dials.command_line.symmetry import (
187s /usr/lib/python3/dist-packages/dials/command_line/symmetry.py:19: in <module>
187s     from dials.algorithms.merging.merge import prepare_merged_reflection_table
187s /usr/lib/python3/dist-packages/dials/algorithms/merging/merge.py:49: in <module>
187s     from dials.util.export_mtz import MADMergedMTZWriter, MergedMTZWriter
187s /usr/lib/python3/dist-packages/dials/util/export_mtz.py:12: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s _________ ERROR collecting tests/command_line/test_damage_analysis.py __________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/command_line/test_damage_analysis.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/command_line/test_damage_analysis.py:12: in <module>
187s     from dials.command_line.damage_analysis import PychefRunner, phil_scope, run
187s /usr/lib/python3/dist-packages/dials/command_line/damage_analysis.py:48: in <module>
187s     from dials.command_line.symmetry import median_unit_cell
187s /usr/lib/python3/dist-packages/dials/command_line/symmetry.py:19: in <module>
187s     from dials.algorithms.merging.merge import prepare_merged_reflection_table
187s /usr/lib/python3/dist-packages/dials/algorithms/merging/merge.py:49: in <module>
187s     from dials.util.export_mtz import MADMergedMTZWriter, MergedMTZWriter
187s /usr/lib/python3/dist-packages/dials/util/export_mtz.py:12: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s ______________ ERROR collecting tests/command_line/test_export.py ______________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/command_line/test_export.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/command_line/test_export.py:8: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s ____________ ERROR collecting tests/command_line/test_ssx_index.py _____________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/command_line/test_ssx_index.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/libtbx/utils.py:1613: in __init__
187s     try: module = __import__(module_path)
187s /usr/lib/python3/dist-packages/dials/algorithms/indexing/lattice_search/__init__.py:19: in <module>
187s     from .pinkindexer import PinkIndexer
187s /usr/lib/python3/dist-packages/dials/algorithms/indexing/lattice_search/pinkindexer.py:5: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s 
187s During handling of the above exception, another exception occurred:
187s /usr/lib/python3/dist-packages/libtbx/utils.py:1613: in __init__
187s     try: module = __import__(module_path)
187s /usr/lib/python3/dist-packages/dials/command_line/index.py:57: in <module>
187s     phil_scope = iotbx.phil.parse(
187s /usr/lib/python3/dist-packages/iotbx/phil.py:79: in parse
187s     return libtbx.phil.parse(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2197: in parse
187s     result = result.process_includes(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2004: in process_includes
187s     result.append(object.process_includes(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:1994: in process_includes
187s     result.extend(process_include_scope(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2037: in process_include_scope
187s     imported = import_python_object(
187s /usr/lib/python3/dist-packages/libtbx/utils.py:1615: in __init__
187s     raise ImportError("%sno module %s%s or possibly import errors in "
187s E   ImportError: include scope: no module dials.algorithms.indexing.lattice_search (input line 5) or possibly import errors in module dials.algorithms.indexing.lattice_search
187s 
187s During handling of the above exception, another exception occurred:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/command_line/test_ssx_index.py:13: in <module>
187s     from dials.command_line.ssx_index import run
187s /usr/lib/python3/dist-packages/dials/command_line/ssx_index.py:80: in <module>
187s     phil_scope = phil.parse(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2197: in parse
187s     result = result.process_includes(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:1994: in process_includes
187s     result.extend(process_include_scope(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2037: in process_include_scope
187s     imported = import_python_object(
187s /usr/lib/python3/dist-packages/libtbx/utils.py:1615: in __init__
187s     raise ImportError("%sno module %s%s or possibly import errors in "
187s E   ImportError: include scope: no module dials.command_line.index (input line 20) or possibly import errors in module dials.command_line.index
187s __________ ERROR collecting tests/command_line/test_stills_process.py __________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/command_line/test_stills_process.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/libtbx/utils.py:1613: in __init__
187s     try: module = __import__(module_path)
187s /usr/lib/python3/dist-packages/dials/algorithms/indexing/lattice_search/__init__.py:19: in <module>
187s     from .pinkindexer import PinkIndexer
187s /usr/lib/python3/dist-packages/dials/algorithms/indexing/lattice_search/pinkindexer.py:5: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s 
187s During handling of the above exception, another exception occurred:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/command_line/test_stills_process.py:17: in <module>
187s     from dials.command_line.stills_process import Processor, phil_scope
187s /usr/lib/python3/dist-packages/dials/command_line/stills_process.py:343: in <module>
187s     phil_scope = parse(control_phil_str + dials_phil_str, process_includes=True).fetch(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2197: in parse
187s     result = result.process_includes(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2004: in process_includes
187s     result.append(object.process_includes(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:1994: in process_includes
187s     result.extend(process_include_scope(
187s /usr/lib/python3/dist-packages/libtbx/phil/__init__.py:2037: in process_include_scope
187s     imported = import_python_object(
187s /usr/lib/python3/dist-packages/libtbx/utils.py:1615: in __init__
187s     raise ImportError("%sno module %s%s or possibly import errors in "
187s E   ImportError: include scope: no module dials.algorithms.indexing.lattice_search (input line 158) or possibly import errors in module dials.algorithms.indexing.lattice_search
187s _____________ ERROR collecting tests/command_line/test_symmetry.py _____________
187s ImportError while importing test module '/tmp/autopkgtest.avaKYO/autopkgtest_tmp/tests/command_line/test_symmetry.py'.
187s Hint: make sure your test modules/packages have valid Python names.
187s Traceback:
187s /usr/lib/python3/dist-packages/_pytest/python.py:493: in importtestmodule
187s     mod = import_path(
187s /usr/lib/python3/dist-packages/_pytest/pathlib.py:587: in import_path
187s     importlib.import_module(module_name)
187s /usr/lib/python3.13/importlib/__init__.py:88: in import_module
187s     return _bootstrap._gcd_import(name[level:], package, level)
187s <frozen importlib._bootstrap>:1387: in _gcd_import
187s     ???
187s <frozen importlib._bootstrap>:1360: in _find_and_load
187s     ???
187s <frozen importlib._bootstrap>:1331: in _find_and_load_unlocked
187s     ???
187s <frozen importlib._bootstrap>:935: in _load_unlocked
187s     ???
187s /usr/lib/python3/dist-packages/_pytest/assertion/rewrite.py:185: in exec_module
187s     exec(co, module.__dict__)
187s tests/command_line/test_symmetry.py:19: in <module>
187s     from dials.command_line import symmetry
187s /usr/lib/python3/dist-packages/dials/command_line/symmetry.py:19: in <module>
187s     from dials.algorithms.merging.merge import prepare_merged_reflection_table
187s /usr/lib/python3/dist-packages/dials/algorithms/merging/merge.py:49: in <module>
187s     from dials.util.export_mtz import MADMergedMTZWriter, MergedMTZWriter
187s /usr/lib/python3/dist-packages/dials/util/export_mtz.py:12: in <module>
187s     import gemmi
187s E   ModuleNotFoundError: No module named 'gemmi'
187s =============================== warnings summary ===============================
187s ../../../usr/lib/python3/dist-packages/dials/extensions/__init__.py:3
187s   /usr/lib/python3/dist-packages/dials/extensions/__init__.py:3: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
187s     import pkg_resources
187s 
187s ../../../usr/lib/python3/dist-packages/pytools/persistent_dict.py:63
187s   /usr/lib/python3/dist-packages/pytools/persistent_dict.py:63: RecommendedHashNotFoundWarning: Unable to import recommended hash 'siphash24.siphash13', falling back to 'hashlib.sha256'. Run 'python3 -m pip install siphash24' to install the recommended hash.
187s     warn("Unable to import recommended hash 'siphash24.siphash13', "
187s 
187s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
187s =========================== short test summary info ============================
187s ERROR tests/algorithms/indexing/lattice_search/test_lattice_search.py
187s ERROR tests/algorithms/merging/test_french_wilson.py
187s ERROR tests/algorithms/merging/test_merge.py
187s ERROR tests/algorithms/scaling/test_scale.py
187s ERROR tests/command_line/test_cosym.py
187s ERROR tests/command_line/test_damage_analysis.py
187s ERROR tests/command_line/test_export.py
187s ERROR tests/command_line/test_ssx_index.py
187s ERROR tests/command_line/test_stills_process.py
187s ERROR tests/command_line/test_symmetry.py
187s !!!!!!!!!!!!!!!!!!! Interrupted: 10 errors during collection !!!!!!!!!!!!!!!!!!!
187s ======================= 2 warnings, 10 errors in 10.21s ========================
187s autopkgtest [09:30:19]: test command1: -----------------------]
188s autopkgtest [09:30:20]: test command1:  - - - - - - - - - - results - - - - - - - - - -
188s command1             FAIL non-zero exit status 2
188s autopkgtest [09:30:20]: @@@@@@@@@@@@@@@@@@@@ summary
188s command1             FAIL non-zero exit status 2
205s nova [W] Skipping flock for amd64
205s Creating nova instance adt-plucky-amd64-dials-20250414-092712-juju-7f2275-prod-proposed-migration-environment-23-35411be8-3676-47f7-b0da-a6a79c90b811 from image adt/ubuntu-plucky-amd64-server-20250413.img (UUID ce7bceb9-7fec-43e7-b671-8afcf6291286)...
205s nova [W] Timed out waiting for 3e5e95b9-5d2c-456f-90d4-17dc4b7dc3c4 to get deleted.