0s autopkgtest [18:00:20]: starting date and time: 2026-01-22 18:00:20+0000 0s autopkgtest [18:00:20]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [18:00:20]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.xbk146cq/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults --apt-upgrade lefse --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python3-defaults/3.14.2-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@sto01-9.secgroup --name adt-resolute-amd64-lefse-20260122-180020-juju-7f2275-prod-proposed-migration-environment-15-41478270-7702-471c-b27b-88e980d7264f --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-amd64-lefse-20260122-180020-juju-7f2275-prod-proposed-migration-environment-15-41478270-7702-471c-b27b-88e980d7264f from image adt/ubuntu-resolute-amd64-server-20260122.img (UUID d51ec989-51d3-406a-bc50-4c9902afb6a4)... 73s autopkgtest [18:01:33]: testbed dpkg architecture: amd64 73s autopkgtest [18:01:33]: testbed apt version: 3.1.12 73s autopkgtest [18:01:33]: @@@@@@@@@@@@@@@@@@@@ test bed setup 74s autopkgtest [18:01:34]: testbed release detected to be: None 74s autopkgtest [18:01:34]: updating testbed package index (apt update) 74s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 74s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 74s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 74s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 74s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [80.9 kB] 75s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [815 kB] 75s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [19.2 kB] 75s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [2820 B] 75s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [91.2 kB] 75s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [111 kB] 75s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [3240 B] 75s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted i386 Packages [3696 B] 75s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 Packages [12.3 kB] 75s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [120 B] 75s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [668 kB] 75s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [347 kB] 75s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [20.4 kB] 75s Get:18 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [5548 B] 75s Get:19 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [2912 B] 75s Get:20 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [568 B] 76s Fetched 2309 kB in 1s (2152 kB/s) 76s Reading package lists... 77s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 77s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 77s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 77s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 78s Reading package lists... 78s Reading package lists... 78s Building dependency tree... 78s Reading state information... 78s Calculating upgrade... 78s The following packages were automatically installed and are no longer required: 78s python3.13 python3.13-minimal 78s Use 'sudo apt autoremove' to remove them. 78s The following NEW packages will be installed: 78s libpython3.14-minimal libpython3.14-stdlib linux-headers-6.18.0-9 78s linux-headers-6.18.0-9-generic linux-image-6.18.0-9-generic 78s linux-modules-6.18.0-9-generic linux-tools-6.18.0-9 78s linux-tools-6.18.0-9-generic python3.14 python3.14-minimal 78s The following packages will be upgraded: 78s bpftool libpython3-stdlib linux-generic linux-headers-generic 78s linux-headers-virtual linux-image-generic linux-image-virtual linux-libc-dev 78s linux-perf linux-tools-common linux-virtual python3 python3-gdbm 78s python3-minimal 78s 14 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. 78s Need to get 220 MB of archives. 78s After this operation, 336 MB of additional disk space will be used. 78s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-minimal amd64 3.14.2-1 [920 kB] 78s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.14-minimal amd64 3.14.2-1 [2563 kB] 78s Get:3 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3-gdbm amd64 3.14.2-1 [11.1 kB] 78s Get:4 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3-minimal amd64 3.14.2-1 [28.2 kB] 78s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3 amd64 3.14.2-1 [22.9 kB] 78s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-stdlib amd64 3.14.2-1 [2398 kB] 78s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.14 amd64 3.14.2-1 [816 kB] 78s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 libpython3-stdlib amd64 3.14.2-1 [10.9 kB] 78s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 bpftool amd64 7.7.0+6.18.0-9.9 [1256 kB] 78s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-modules-6.18.0-9-generic amd64 6.18.0-9.9 [168 MB] 81s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-6.18.0-9-generic amd64 6.18.0-9.9 [16.5 MB] 82s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-generic amd64 6.18.0-9.9+1 [1696 B] 82s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-generic amd64 6.18.0-9.9+1 [12.2 kB] 82s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-virtual amd64 6.18.0-9.9+1 [1692 B] 82s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-virtual amd64 6.18.0-9.9+1 [12.1 kB] 82s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-virtual amd64 6.18.0-9.9+1 [1648 B] 82s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.18.0-9 all 6.18.0-9.9 [14.9 MB] 82s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.18.0-9-generic amd64 6.18.0-9.9 [4290 kB] 82s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-generic amd64 6.18.0-9.9+1 [12.0 kB] 82s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-libc-dev amd64 6.18.0-9.9 [1860 kB] 83s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-perf amd64 6.18.0-9.9 [4480 kB] 83s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-common all 6.18.0-9.9 [377 kB] 83s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.18.0-9 amd64 6.18.0-9.9 [1510 kB] 83s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.18.0-9-generic amd64 6.18.0-9.9 [1608 B] 83s dpkg-preconfigure: unable to re-open stdin: No such file or directory 83s Fetched 220 MB in 5s (45.4 MB/s) 83s Selecting previously unselected package libpython3.14-minimal:amd64. 83s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 83885 files and directories currently installed.) 83s Preparing to unpack .../libpython3.14-minimal_3.14.2-1_amd64.deb ... 83s Unpacking libpython3.14-minimal:amd64 (3.14.2-1) ... 83s Selecting previously unselected package python3.14-minimal. 83s Preparing to unpack .../python3.14-minimal_3.14.2-1_amd64.deb ... 83s Unpacking python3.14-minimal (3.14.2-1) ... 83s Preparing to unpack .../python3-gdbm_3.14.2-1_amd64.deb ... 83s Unpacking python3-gdbm (3.14.2-1) over (3.13.9-1) ... 83s Setting up libpython3.14-minimal:amd64 (3.14.2-1) ... 83s Setting up python3.14-minimal (3.14.2-1) ... 84s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84227 files and directories currently installed.) 84s Preparing to unpack .../python3-minimal_3.14.2-1_amd64.deb ... 84s Unpacking python3-minimal (3.14.2-1) over (3.13.7-1) ... 84s Setting up python3-minimal (3.14.2-1) ... 84s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84227 files and directories currently installed.) 84s Preparing to unpack .../00-python3_3.14.2-1_amd64.deb ... 84s running python pre-rtupdate hooks for python3.14... 84s Unpacking python3 (3.14.2-1) over (3.13.7-1) ... 84s Selecting previously unselected package libpython3.14-stdlib:amd64. 84s Preparing to unpack .../01-libpython3.14-stdlib_3.14.2-1_amd64.deb ... 84s Unpacking libpython3.14-stdlib:amd64 (3.14.2-1) ... 84s Selecting previously unselected package python3.14. 84s Preparing to unpack .../02-python3.14_3.14.2-1_amd64.deb ... 84s Unpacking python3.14 (3.14.2-1) ... 84s Preparing to unpack .../03-libpython3-stdlib_3.14.2-1_amd64.deb ... 84s Unpacking libpython3-stdlib:amd64 (3.14.2-1) over (3.13.7-1) ... 84s Preparing to unpack .../04-bpftool_7.7.0+6.18.0-9.9_amd64.deb ... 84s Unpacking bpftool (7.7.0+6.18.0-9.9) over (7.7.0+6.18.0-8.8) ... 84s Selecting previously unselected package linux-modules-6.18.0-9-generic. 84s Preparing to unpack .../05-linux-modules-6.18.0-9-generic_6.18.0-9.9_amd64.deb ... 84s Unpacking linux-modules-6.18.0-9-generic (6.18.0-9.9) ... 85s Selecting previously unselected package linux-image-6.18.0-9-generic. 85s Preparing to unpack .../06-linux-image-6.18.0-9-generic_6.18.0-9.9_amd64.deb ... 85s Unpacking linux-image-6.18.0-9-generic (6.18.0-9.9) ... 85s Preparing to unpack .../07-linux-generic_6.18.0-9.9+1_amd64.deb ... 85s Unpacking linux-generic (6.18.0-9.9+1) over (6.18.0-8.8) ... 85s Preparing to unpack .../08-linux-image-generic_6.18.0-9.9+1_amd64.deb ... 85s Unpacking linux-image-generic (6.18.0-9.9+1) over (6.18.0-8.8) ... 85s Preparing to unpack .../09-linux-virtual_6.18.0-9.9+1_amd64.deb ... 85s Unpacking linux-virtual (6.18.0-9.9+1) over (6.18.0-8.8) ... 85s Preparing to unpack .../10-linux-image-virtual_6.18.0-9.9+1_amd64.deb ... 85s Unpacking linux-image-virtual (6.18.0-9.9+1) over (6.18.0-8.8) ... 85s Preparing to unpack .../11-linux-headers-virtual_6.18.0-9.9+1_amd64.deb ... 85s Unpacking linux-headers-virtual (6.18.0-9.9+1) over (6.18.0-8.8) ... 85s Selecting previously unselected package linux-headers-6.18.0-9. 85s Preparing to unpack .../12-linux-headers-6.18.0-9_6.18.0-9.9_all.deb ... 85s Unpacking linux-headers-6.18.0-9 (6.18.0-9.9) ... 87s Selecting previously unselected package linux-headers-6.18.0-9-generic. 87s Preparing to unpack .../13-linux-headers-6.18.0-9-generic_6.18.0-9.9_amd64.deb ... 87s Unpacking linux-headers-6.18.0-9-generic (6.18.0-9.9) ... 87s Preparing to unpack .../14-linux-headers-generic_6.18.0-9.9+1_amd64.deb ... 87s Unpacking linux-headers-generic (6.18.0-9.9+1) over (6.18.0-8.8) ... 87s Preparing to unpack .../15-linux-libc-dev_6.18.0-9.9_amd64.deb ... 87s Unpacking linux-libc-dev:amd64 (6.18.0-9.9) over (6.18.0-8.8) ... 87s Preparing to unpack .../16-linux-perf_6.18.0-9.9_amd64.deb ... 87s Unpacking linux-perf (6.18.0-9.9) over (6.18.0-8.8) ... 87s Preparing to unpack .../17-linux-tools-common_6.18.0-9.9_all.deb ... 87s Unpacking linux-tools-common (6.18.0-9.9) over (6.18.0-8.8) ... 87s Selecting previously unselected package linux-tools-6.18.0-9. 87s Preparing to unpack .../18-linux-tools-6.18.0-9_6.18.0-9.9_amd64.deb ... 87s Unpacking linux-tools-6.18.0-9 (6.18.0-9.9) ... 87s Selecting previously unselected package linux-tools-6.18.0-9-generic. 87s Preparing to unpack .../19-linux-tools-6.18.0-9-generic_6.18.0-9.9_amd64.deb ... 87s Unpacking linux-tools-6.18.0-9-generic (6.18.0-9.9) ... 87s Setting up libpython3.14-stdlib:amd64 (3.14.2-1) ... 87s Setting up bpftool (7.7.0+6.18.0-9.9) ... 87s Setting up linux-libc-dev:amd64 (6.18.0-9.9) ... 87s Setting up linux-perf (6.18.0-9.9) ... 87s Setting up linux-headers-6.18.0-9 (6.18.0-9.9) ... 87s Setting up linux-modules-6.18.0-9-generic (6.18.0-9.9) ... 89s Setting up python3.14 (3.14.2-1) ... 89s Setting up linux-image-6.18.0-9-generic (6.18.0-9.9) ... 90s I: /boot/vmlinuz is now a symlink to vmlinuz-6.18.0-9-generic 90s I: /boot/initrd.img is now a symlink to initrd.img-6.18.0-9-generic 90s Setting up linux-tools-common (6.18.0-9.9) ... 90s Setting up libpython3-stdlib:amd64 (3.14.2-1) ... 90s Setting up linux-headers-6.18.0-9-generic (6.18.0-9.9) ... 90s Setting up linux-image-generic (6.18.0-9.9+1) ... 91s Setting up python3-gdbm (3.14.2-1) ... 91s Setting up linux-tools-6.18.0-9 (6.18.0-9.9) ... 91s Setting up python3 (3.14.2-1) ... 91s running python rtupdate hooks for python3.14... 91s running python post-rtupdate hooks for python3.14... 91s Setting up linux-headers-generic (6.18.0-9.9+1) ... 91s Setting up linux-image-virtual (6.18.0-9.9+1) ... 91s Setting up linux-headers-virtual (6.18.0-9.9+1) ... 91s Setting up linux-generic (6.18.0-9.9+1) ... 91s Setting up linux-tools-6.18.0-9-generic (6.18.0-9.9) ... 91s Setting up linux-virtual (6.18.0-9.9+1) ... 91s Processing triggers for man-db (2.13.1-1) ... 91s Processing triggers for systemd (259-1ubuntu2) ... 91s Processing triggers for linux-image-6.18.0-9-generic (6.18.0-9.9) ... 91s /etc/kernel/postinst.d/initramfs-tools: 91s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic 95s /etc/kernel/postinst.d/zz-update-grub: 95s Sourcing file `/etc/default/grub' 95s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 95s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 95s Generating grub configuration file ... 95s Found linux image: /boot/vmlinuz-6.18.0-9-generic 95s Found initrd image: /boot/initrd.img-6.18.0-9-generic 95s Found linux image: /boot/vmlinuz-6.18.0-8-generic 95s Found initrd image: /boot/initrd.img-6.18.0-8-generic 95s Warning: os-prober will not be executed to detect other bootable partitions. 95s Systems on them will not be added to the GRUB boot configuration. 95s Check GRUB_DISABLE_OS_PROBER documentation entry. 95s Adding boot menu entry for UEFI Firmware Settings ... 95s done 95s autopkgtest [18:01:55]: upgrading testbed (apt dist-upgrade and autopurge) 96s Reading package lists... 96s Building dependency tree... 96s Reading state information... 96s Calculating upgrade... 96s The following packages were automatically installed and are no longer required: 96s python3.13 python3.13-minimal 96s Use 'sudo apt autoremove' to remove them. 96s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 96s Reading package lists... 96s Building dependency tree... 96s Reading state information... 96s Solving dependencies... 96s The following packages will be REMOVED: 96s python3.13* python3.13-minimal* 96s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 96s After this operation, 7860 kB disk space will be freed. 96s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 124951 files and directories currently installed.) 96s Removing python3.13 (3.13.11-1) ... 97s Removing python3.13-minimal (3.13.11-1) ... 97s Processing triggers for man-db (2.13.1-1) ... 97s Processing triggers for systemd (259-1ubuntu2) ... 97s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 124924 files and directories currently installed.) 97s Purging configuration files for python3.13-minimal (3.13.11-1) ... 98s autopkgtest [18:01:58]: rebooting testbed after setup commands that affected boot 160s autopkgtest [18:03:00]: testbed running kernel: Linux 6.18.0-9-generic #9-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 12 16:49:02 UTC 2026 162s autopkgtest [18:03:02]: @@@@@@@@@@@@@@@@@@@@ apt-source lefse 163s Get:1 http://ftpmaster.internal/ubuntu resolute/universe lefse 1.1.2-2 (dsc) [1944 B] 163s Get:2 http://ftpmaster.internal/ubuntu resolute/universe lefse 1.1.2-2 (tar) [64.1 kB] 163s Get:3 http://ftpmaster.internal/ubuntu resolute/universe lefse 1.1.2-2 (diff) [12.9 kB] 163s gpgv: Signature made Wed Dec 4 19:15:55 2024 UTC 163s gpgv: using RSA key 52D5BD0E7D4DB084E34B5865D4A41CFADDB20DB5 163s gpgv: Can't check signature: No public key 163s dpkg-source: warning: cannot verify inline signature for ./lefse_1.1.2-2.dsc: no acceptable signature found 163s autopkgtest [18:03:03]: testing package lefse version 1.1.2-2 163s autopkgtest [18:03:03]: build not needed 164s autopkgtest [18:03:04]: test run-unit-test: preparing testbed 164s Reading package lists... 164s Building dependency tree... 164s Reading state information... 164s Solving dependencies... 164s The following NEW packages will be installed: 164s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx 164s lefse libaec0 libblas3 libcairo2 libdatrie1 libdeflate0 libfontconfig1 164s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-310 164s libhdf5-hl-310 libice6 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 164s liblapack3 liblcms2-2 liblerc4 liblzf1 libopenjp2-7 libpango-1.0-0 164s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0 164s libqhull-r8.0 libraqm0 libsharpyuv0 libsm6 libsz2 libtcl8.6 libthai-data 164s libthai0 libtiff6 libtk8.6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 164s libxcb-shm0 libxft2 libxrender1 libxslt1.1 libxss1 libxt6t64 libzopfli1 164s python-matplotlib-data python3-biom-format python3-brotli python3-click 164s python3-contourpy python3-cycler python3-decorator python3-fonttools 164s python3-h5py python3-h5py-serial python3-kiwisolver python3-lxml python3-lz4 164s python3-matplotlib python3-mpmath python3-numpy python3-numpy-dev 164s python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk 164s python3-pytz python3-rpy2 python3-scipy python3-sympy python3-tk 164s python3-tzlocal python3-ufolib2 python3-unicodedata2 python3-zopfli 164s python3.13-tk python3.14-tk r-base-core r-cran-codetools r-cran-coin 164s r-cran-lattice r-cran-libcoin r-cran-mass r-cran-matrix r-cran-matrixstats 164s r-cran-modeltools r-cran-multcomp r-cran-mvtnorm r-cran-sandwich 164s r-cran-survival r-cran-th.data r-cran-zoo unicode-data unzip x11-common 164s xdg-utils zip 164s 0 upgraded, 107 newly installed, 0 to remove and 0 not upgraded. 164s Need to get 153 MB of archives. 164s After this operation, 525 MB of additional disk space will be used. 164s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy-dev amd64 1:2.3.5+ds-3 [147 kB] 164s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB] 164s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 15.2.0-11ubuntu1 [939 kB] 165s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB] 165s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy amd64 1:2.3.5+ds-3 [8129 kB] 165s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8build1 [502 kB] 165s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8build1 [834 kB] 165s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.15.0-2.4ubuntu1 [38.1 kB] 165s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.15.0-2.4ubuntu1 [143 kB] 165s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig amd64 2.15.0-2.4ubuntu1 [178 kB] 165s Get:11 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-lyx all 2.5.0~RC2-3 [171 kB] 165s Get:12 http://ftpmaster.internal/ubuntu resolute/universe amd64 libaec0 amd64 1.1.4-2 [22.9 kB] 165s Get:13 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsz2 amd64 1.1.4-2 [5516 B] 165s Get:14 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-310 amd64 1.14.5+repack-4 [1432 kB] 165s Get:15 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-hl-310 amd64 1.14.5+repack-4 [59.8 kB] 165s Get:16 http://ftpmaster.internal/ubuntu resolute/universe amd64 liblzf1 amd64 3.6-4build1 [7490 B] 165s Get:17 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-h5py-serial amd64 3.15.1-4 [1586 kB] 165s Get:18 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-h5py all 3.15.1-4 [11.3 kB] 165s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-click all 8.2.0+0.really.8.1.8-1build1 [80.2 kB] 165s Get:20 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytz all 2025.2-5 [32.4 kB] 165s Get:21 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pandas-lib amd64 2.3.3+dfsg-3 [6929 kB] 165s Get:22 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pandas all 2.3.3+dfsg-3 [2948 kB] 165s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-decorator all 5.2.1-2 [28.1 kB] 165s Get:24 http://ftpmaster.internal/ubuntu resolute/universe amd64 libqhull-r8.0 amd64 2020.2-8 [197 kB] 165s Get:25 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-scipy amd64 1.16.3-3 [18.8 MB] 166s Get:26 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-biom-format amd64 2.1.17-1 [220 kB] 166s Get:27 http://ftpmaster.internal/ubuntu resolute/universe amd64 python-matplotlib-data all 3.10.7+dfsg1-1 [2930 kB] 166s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 15.2.0-11ubuntu1 [151 kB] 166s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 166s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu2 [152 kB] 166s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 166s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 liblcms2-2 amd64 2.17-1 [170 kB] 166s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libopenjp2-7 amd64 2.5.4-1 [188 kB] 166s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-11ubuntu1 [73.7 kB] 166s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.3.0-4 [529 kB] 166s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libraqm0 amd64 0.10.3-1 [15.4 kB] 166s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2 [49.9 kB] 166s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu3 [30.0 kB] 166s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu2 [207 kB] 166s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1build1 [17.6 kB] 166s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1build1 [264 kB] 166s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB] 166s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpdemux2 amd64 1.5.0-0.1build1 [12.8 kB] 166s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpmux3 amd64 1.5.0-0.1build1 [26.4 kB] 166s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-pil amd64 12.0.0-1ubuntu1 [494 kB] 166s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1 [1036 kB] 166s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB] 166s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libxft2 amd64 2.3.6-1build2 [45.1 kB] 166s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB] 166s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 libxss1 amd64 1:1.2.3-1build4 [7084 B] 166s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libtk8.6 amd64 8.6.17-1 [823 kB] 166s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.13-tk amd64 3.13.11-1 [108 kB] 166s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.14-tk amd64 3.14.2-1 [109 kB] 166s Get:54 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3-tk amd64 3.14.2-1 [11.2 kB] 166s Get:55 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pil.imagetk amd64 12.0.0-1ubuntu1 [9700 B] 166s Get:56 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-contourpy amd64 1.3.3-1 [255 kB] 166s Get:57 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-cycler all 0.12.1-2 [9850 B] 166s Get:58 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-brotli amd64 1.1.0-2build6 [340 kB] 166s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libxslt1.1 amd64 1.1.43-0.3 [172 kB] 166s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-lxml amd64 6.0.2-1 [2333 kB] 166s Get:61 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-lz4 amd64 4.4.5+dfsg-1 [27.7 kB] 166s Get:62 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-mpmath all 1.3.0-2 [423 kB] 166s Get:63 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-sympy all 1.14.0-2 [4306 kB] 166s Get:64 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-ufolib2 all 0.18.1+dfsg1-1 [33.7 kB] 166s Get:65 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-unicodedata2 amd64 16.0.0+ds-1build1 [400 kB] 166s Get:66 http://ftpmaster.internal/ubuntu resolute/universe amd64 libzopfli1 amd64 1.0.3-3 [141 kB] 166s Get:67 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-zopfli amd64 0.4.0-1 [11.1 kB] 166s Get:68 http://ftpmaster.internal/ubuntu resolute/universe amd64 unicode-data all 16.0.0-1build1 [9543 kB] 166s Get:69 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-fonttools amd64 4.61.1-3 [1742 kB] 166s Get:70 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-kiwisolver amd64 1.4.10~rc0-1 [65.5 kB] 166s Get:71 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-matplotlib amd64 3.10.7+dfsg1-1 [17.2 MB] 167s Get:72 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-tzlocal all 5.3.1-2 [20.8 kB] 167s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 zip amd64 3.0-15ubuntu2 [178 kB] 167s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 unzip amd64 6.0-29ubuntu1 [180 kB] 167s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper2 amd64 2.2.5-0.3build1 [17.3 kB] 167s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper-utils amd64 2.2.5-0.3build1 [15.6 kB] 167s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 xdg-utils all 1.2.1-2ubuntu2 [66.1 kB] 167s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.46.4-1 [287 kB] 167s Get:79 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2build1 [17.4 kB] 167s Get:80 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2build1 [6120 B] 167s Get:81 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-3 [579 kB] 167s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai-data all 0.1.30-1 [155 kB] 167s Get:83 http://ftpmaster.internal/ubuntu resolute/main amd64 libdatrie1 amd64 0.2.14-1 [19.8 kB] 167s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai0 amd64 0.1.30-1 [19.2 kB] 167s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 libpango-1.0-0 amd64 1.56.4-1 [240 kB] 167s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangoft2-1.0-0 amd64 1.56.4-1 [53.2 kB] 167s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangocairo-1.0-0 amd64 1.56.4-1 [29.0 kB] 167s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 libice6 amd64 2:1.1.1-1build1 [44.0 kB] 167s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 libsm6 amd64 2:1.2.6-1 [16.4 kB] 167s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 libxt6t64 amd64 1:1.2.1-1.3 [173 kB] 167s Get:91 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-core amd64 4.5.2-1ubuntu2 [28.8 MB] 167s Get:92 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-rpy2 amd64 3.6.4-2 [221 kB] 167s Get:93 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lattice amd64 0.22-7-1 [1367 kB] 167s Get:94 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrix amd64 1.7-4-1 [4220 kB] 168s Get:95 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-survival amd64 3.8-3-1 [8239 kB] 168s Get:96 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mvtnorm amd64 1.3-3-1 [923 kB] 168s Get:97 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-libcoin amd64 1.0-10-1 [767 kB] 168s Get:98 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB] 168s Get:99 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-modeltools all 0.2-24-1 [224 kB] 168s Get:100 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mass amd64 7.3-65-1 [1116 kB] 168s Get:101 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-th.data all 1.1-5-1 [8740 kB] 168s Get:102 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-zoo amd64 1.8-15-1 [1025 kB] 169s Get:103 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sandwich all 3.1-1-1 [1483 kB] 169s Get:104 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-codetools all 0.2-20-1build1 [91.1 kB] 169s Get:105 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-multcomp all 1.4-29-1 [617 kB] 169s Get:106 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-coin amd64 1.4-3-1 [1560 kB] 169s Get:107 http://ftpmaster.internal/ubuntu resolute/universe amd64 lefse all 1.1.2-2 [58.1 kB] 169s Preconfiguring packages ... 169s Fetched 153 MB in 5s (33.1 MB/s) 169s Selecting previously unselected package python3-numpy-dev:amd64. 169s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 124926 files and directories currently installed.) 169s Preparing to unpack .../000-python3-numpy-dev_1%3a2.3.5+ds-3_amd64.deb ... 169s Unpacking python3-numpy-dev:amd64 (1:2.3.5+ds-3) ... 169s Selecting previously unselected package libblas3:amd64. 169s Preparing to unpack .../001-libblas3_3.12.1-7ubuntu1_amd64.deb ... 169s Unpacking libblas3:amd64 (3.12.1-7ubuntu1) ... 169s Selecting previously unselected package libgfortran5:amd64. 169s Preparing to unpack .../002-libgfortran5_15.2.0-11ubuntu1_amd64.deb ... 169s Unpacking libgfortran5:amd64 (15.2.0-11ubuntu1) ... 169s Selecting previously unselected package liblapack3:amd64. 169s Preparing to unpack .../003-liblapack3_3.12.1-7ubuntu1_amd64.deb ... 169s Unpacking liblapack3:amd64 (3.12.1-7ubuntu1) ... 169s Selecting previously unselected package python3-numpy. 169s Preparing to unpack .../004-python3-numpy_1%3a2.3.5+ds-3_amd64.deb ... 169s Unpacking python3-numpy (1:2.3.5+ds-3) ... 169s Selecting previously unselected package fonts-dejavu-mono. 169s Preparing to unpack .../005-fonts-dejavu-mono_2.37-8build1_all.deb ... 169s Unpacking fonts-dejavu-mono (2.37-8build1) ... 169s Selecting previously unselected package fonts-dejavu-core. 169s Preparing to unpack .../006-fonts-dejavu-core_2.37-8build1_all.deb ... 169s Unpacking fonts-dejavu-core (2.37-8build1) ... 169s Selecting previously unselected package fontconfig-config. 169s Preparing to unpack .../007-fontconfig-config_2.15.0-2.4ubuntu1_amd64.deb ... 170s Unpacking fontconfig-config (2.15.0-2.4ubuntu1) ... 170s Selecting previously unselected package libfontconfig1:amd64. 170s Preparing to unpack .../008-libfontconfig1_2.15.0-2.4ubuntu1_amd64.deb ... 170s Unpacking libfontconfig1:amd64 (2.15.0-2.4ubuntu1) ... 170s Selecting previously unselected package fontconfig. 170s Preparing to unpack .../009-fontconfig_2.15.0-2.4ubuntu1_amd64.deb ... 170s Unpacking fontconfig (2.15.0-2.4ubuntu1) ... 170s Selecting previously unselected package fonts-lyx. 170s Preparing to unpack .../010-fonts-lyx_2.5.0~RC2-3_all.deb ... 170s Unpacking fonts-lyx (2.5.0~RC2-3) ... 170s Selecting previously unselected package libaec0:amd64. 170s Preparing to unpack .../011-libaec0_1.1.4-2_amd64.deb ... 170s Unpacking libaec0:amd64 (1.1.4-2) ... 170s Selecting previously unselected package libsz2:amd64. 170s Preparing to unpack .../012-libsz2_1.1.4-2_amd64.deb ... 170s Unpacking libsz2:amd64 (1.1.4-2) ... 170s Selecting previously unselected package libhdf5-310:amd64. 170s Preparing to unpack .../013-libhdf5-310_1.14.5+repack-4_amd64.deb ... 170s Unpacking libhdf5-310:amd64 (1.14.5+repack-4) ... 170s Selecting previously unselected package libhdf5-hl-310:amd64. 170s Preparing to unpack .../014-libhdf5-hl-310_1.14.5+repack-4_amd64.deb ... 170s Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-4) ... 170s Selecting previously unselected package liblzf1:amd64. 170s Preparing to unpack .../015-liblzf1_3.6-4build1_amd64.deb ... 170s Unpacking liblzf1:amd64 (3.6-4build1) ... 170s Selecting previously unselected package python3-h5py-serial. 170s Preparing to unpack .../016-python3-h5py-serial_3.15.1-4_amd64.deb ... 170s Unpacking python3-h5py-serial (3.15.1-4) ... 170s Selecting previously unselected package python3-h5py. 170s Preparing to unpack .../017-python3-h5py_3.15.1-4_all.deb ... 170s Unpacking python3-h5py (3.15.1-4) ... 170s Selecting previously unselected package python3-click. 170s Preparing to unpack .../018-python3-click_8.2.0+0.really.8.1.8-1build1_all.deb ... 170s Unpacking python3-click (8.2.0+0.really.8.1.8-1build1) ... 170s Selecting previously unselected package python3-pytz. 170s Preparing to unpack .../019-python3-pytz_2025.2-5_all.deb ... 170s Unpacking python3-pytz (2025.2-5) ... 170s Selecting previously unselected package python3-pandas-lib:amd64. 170s Preparing to unpack .../020-python3-pandas-lib_2.3.3+dfsg-3_amd64.deb ... 170s Unpacking python3-pandas-lib:amd64 (2.3.3+dfsg-3) ... 170s Selecting previously unselected package python3-pandas. 170s Preparing to unpack .../021-python3-pandas_2.3.3+dfsg-3_all.deb ... 170s Unpacking python3-pandas (2.3.3+dfsg-3) ... 170s Selecting previously unselected package python3-decorator. 170s Preparing to unpack .../022-python3-decorator_5.2.1-2_all.deb ... 170s Unpacking python3-decorator (5.2.1-2) ... 170s Selecting previously unselected package libqhull-r8.0:amd64. 170s Preparing to unpack .../023-libqhull-r8.0_2020.2-8_amd64.deb ... 170s Unpacking libqhull-r8.0:amd64 (2020.2-8) ... 170s Selecting previously unselected package python3-scipy. 170s Preparing to unpack .../024-python3-scipy_1.16.3-3_amd64.deb ... 170s Unpacking python3-scipy (1.16.3-3) ... 170s Selecting previously unselected package python3-biom-format. 170s Preparing to unpack .../025-python3-biom-format_2.1.17-1_amd64.deb ... 170s Unpacking python3-biom-format (2.1.17-1) ... 170s Selecting previously unselected package python-matplotlib-data. 170s Preparing to unpack .../026-python-matplotlib-data_3.10.7+dfsg1-1_all.deb ... 170s Unpacking python-matplotlib-data (3.10.7+dfsg1-1) ... 170s Selecting previously unselected package libgomp1:amd64. 170s Preparing to unpack .../027-libgomp1_15.2.0-11ubuntu1_amd64.deb ... 170s Unpacking libgomp1:amd64 (15.2.0-11ubuntu1) ... 170s Selecting previously unselected package libimagequant0:amd64. 170s Preparing to unpack .../028-libimagequant0_2.18.0-1build1_amd64.deb ... 170s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 170s Selecting previously unselected package libjpeg-turbo8:amd64. 170s Preparing to unpack .../029-libjpeg-turbo8_2.1.5-4ubuntu2_amd64.deb ... 170s Unpacking libjpeg-turbo8:amd64 (2.1.5-4ubuntu2) ... 170s Selecting previously unselected package libjpeg8:amd64. 170s Preparing to unpack .../030-libjpeg8_8c-2ubuntu11_amd64.deb ... 170s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 170s Selecting previously unselected package liblcms2-2:amd64. 170s Preparing to unpack .../031-liblcms2-2_2.17-1_amd64.deb ... 170s Unpacking liblcms2-2:amd64 (2.17-1) ... 170s Selecting previously unselected package libopenjp2-7:amd64. 170s Preparing to unpack .../032-libopenjp2-7_2.5.4-1_amd64.deb ... 170s Unpacking libopenjp2-7:amd64 (2.5.4-1) ... 170s Selecting previously unselected package libgraphite2-3:amd64. 170s Preparing to unpack .../033-libgraphite2-3_1.3.14-11ubuntu1_amd64.deb ... 170s Unpacking libgraphite2-3:amd64 (1.3.14-11ubuntu1) ... 170s Selecting previously unselected package libharfbuzz0b:amd64. 170s Preparing to unpack .../034-libharfbuzz0b_12.3.0-4_amd64.deb ... 170s Unpacking libharfbuzz0b:amd64 (12.3.0-4) ... 170s Selecting previously unselected package libraqm0:amd64. 170s Preparing to unpack .../035-libraqm0_0.10.3-1_amd64.deb ... 170s Unpacking libraqm0:amd64 (0.10.3-1) ... 170s Selecting previously unselected package libdeflate0:amd64. 170s Preparing to unpack .../036-libdeflate0_1.23-2_amd64.deb ... 170s Unpacking libdeflate0:amd64 (1.23-2) ... 170s Selecting previously unselected package libjbig0:amd64. 170s Preparing to unpack .../037-libjbig0_2.1-6.1ubuntu3_amd64.deb ... 170s Unpacking libjbig0:amd64 (2.1-6.1ubuntu3) ... 170s Selecting previously unselected package liblerc4:amd64. 171s Preparing to unpack .../038-liblerc4_4.0.0+ds-5ubuntu2_amd64.deb ... 171s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu2) ... 171s Selecting previously unselected package libsharpyuv0:amd64. 171s Preparing to unpack .../039-libsharpyuv0_1.5.0-0.1build1_amd64.deb ... 171s Unpacking libsharpyuv0:amd64 (1.5.0-0.1build1) ... 171s Selecting previously unselected package libwebp7:amd64. 171s Preparing to unpack .../040-libwebp7_1.5.0-0.1build1_amd64.deb ... 171s Unpacking libwebp7:amd64 (1.5.0-0.1build1) ... 171s Selecting previously unselected package libtiff6:amd64. 171s Preparing to unpack .../041-libtiff6_4.7.0-3ubuntu3_amd64.deb ... 171s Unpacking libtiff6:amd64 (4.7.0-3ubuntu3) ... 171s Selecting previously unselected package libwebpdemux2:amd64. 171s Preparing to unpack .../042-libwebpdemux2_1.5.0-0.1build1_amd64.deb ... 171s Unpacking libwebpdemux2:amd64 (1.5.0-0.1build1) ... 171s Selecting previously unselected package libwebpmux3:amd64. 171s Preparing to unpack .../043-libwebpmux3_1.5.0-0.1build1_amd64.deb ... 171s Unpacking libwebpmux3:amd64 (1.5.0-0.1build1) ... 171s Selecting previously unselected package python3-pil:amd64. 171s Preparing to unpack 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unpack .../077-libpixman-1-0_0.46.4-1_amd64.deb ... 172s Unpacking libpixman-1-0:amd64 (0.46.4-1) ... 172s Selecting previously unselected package libxcb-render0:amd64. 172s Preparing to unpack .../078-libxcb-render0_1.17.0-2build1_amd64.deb ... 172s Unpacking libxcb-render0:amd64 (1.17.0-2build1) ... 172s Selecting previously unselected package libxcb-shm0:amd64. 172s Preparing to unpack .../079-libxcb-shm0_1.17.0-2build1_amd64.deb ... 172s Unpacking libxcb-shm0:amd64 (1.17.0-2build1) ... 172s Selecting previously unselected package libcairo2:amd64. 172s Preparing to unpack .../080-libcairo2_1.18.4-3_amd64.deb ... 172s Unpacking libcairo2:amd64 (1.18.4-3) ... 172s Selecting previously unselected package libthai-data. 172s Preparing to unpack .../081-libthai-data_0.1.30-1_all.deb ... 172s Unpacking libthai-data (0.1.30-1) ... 172s Selecting previously unselected package libdatrie1:amd64. 172s Preparing to unpack .../082-libdatrie1_0.2.14-1_amd64.deb ... 172s Unpacking libdatrie1:amd64 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package libsm6:amd64. 172s Preparing to unpack .../088-libsm6_2%3a1.2.6-1_amd64.deb ... 172s Unpacking libsm6:amd64 (2:1.2.6-1) ... 172s Selecting previously unselected package libxt6t64:amd64. 172s Preparing to unpack .../089-libxt6t64_1%3a1.2.1-1.3_amd64.deb ... 172s Unpacking libxt6t64:amd64 (1:1.2.1-1.3) ... 172s Selecting previously unselected package r-base-core. 172s Preparing to unpack .../090-r-base-core_4.5.2-1ubuntu2_amd64.deb ... 172s Unpacking r-base-core (4.5.2-1ubuntu2) ... 172s Selecting previously unselected package python3-rpy2. 172s Preparing to unpack .../091-python3-rpy2_3.6.4-2_amd64.deb ... 172s Unpacking python3-rpy2 (3.6.4-2) ... 172s Selecting previously unselected package r-cran-lattice. 172s Preparing to unpack .../092-r-cran-lattice_0.22-7-1_amd64.deb ... 172s Unpacking r-cran-lattice (0.22-7-1) ... 172s Selecting previously unselected package r-cran-matrix. 172s Preparing to unpack .../093-r-cran-matrix_1.7-4-1_amd64.deb ... 172s Unpacking r-cran-matrix 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... 173s Setting up libqhull-r8.0:amd64 (2020.2-8) ... 173s Setting up python3-pytz (2025.2-5) ... 173s Setting up libxcb-shm0:amd64 (1.17.0-2build1) ... 173s Setting up libgomp1:amd64 (15.2.0-11ubuntu1) ... 173s Setting up python3-click (8.2.0+0.really.8.1.8-1build1) ... 173s Setting up libjbig0:amd64 (2.1-6.1ubuntu3) ... 173s Setting up libaec0:amd64 (1.1.4-2) ... 173s Setting up unicode-data (16.0.0-1build1) ... 173s Setting up python3-decorator (5.2.1-2) ... 173s Setting up zip (3.0-15ubuntu2) ... 173s Setting up libblas3:amd64 (3.12.1-7ubuntu1) ... 173s 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 173s Setting up libzopfli1 (1.0.3-3) ... 173s Setting up python3-brotli (1.1.0-2build6) ... 173s Setting up liblzf1:amd64 (3.6-4build1) ... 173s Setting up python3-cycler (0.12.1-2) ... 173s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 173s Setting up fonts-dejavu-mono (2.37-8build1) ... 173s Setting up python3-kiwisolver (1.4.10~rc0-1) ... 173s Setting up python3-numpy-dev:amd64 (1:2.3.5+ds-3) ... 173s Setting up libtcl8.6:amd64 (8.6.17+dfsg-1) ... 173s Setting up fonts-dejavu-core (2.37-8build1) ... 173s Setting up libjpeg-turbo8:amd64 (2.1.5-4ubuntu2) ... 173s Setting up libgfortran5:amd64 (15.2.0-11ubuntu1) ... 173s Setting up libwebp7:amd64 (1.5.0-0.1build1) ... 173s Setting up libxslt1.1:amd64 (1.1.43-0.3) ... 173s Setting up libopenjp2-7:amd64 (2.5.4-1) ... 173s Setting up libharfbuzz0b:amd64 (12.3.0-4) ... 173s Setting up libthai-data (0.1.30-1) ... 173s Setting up libxss1:amd64 (1:1.2.3-1build4) ... 173s Setting up libpaper2:amd64 (2.2.5-0.3build1) ... 173s Setting up python3-mpmath (1.3.0-2) ... 174s Setting up python3-tzlocal (5.3.1-2) ... 174s Setting up python-matplotlib-data (3.10.7+dfsg1-1) ... 174s Setting up libwebpmux3:amd64 (1.5.0-0.1build1) ... 174s Setting up xdg-utils (1.2.1-2ubuntu2) ... 174s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 174s Setting up libsz2:amd64 (1.1.4-2) ... 174s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 174s Setting up python3-sympy (1.14.0-2) ... 177s /usr/lib/python3/dist-packages/sympy/testing/runtests.py:283: SyntaxWarning: 'return' in a 'finally' block 177s return p.returncode 177s Setting up libice6:amd64 (2:1.1.1-1build1) ... 177s Setting up liblapack3:amd64 (3.12.1-7ubuntu1) ... 177s 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 177s Setting up fontconfig-config (2.15.0-2.4ubuntu1) ... 177s Setting up libwebpdemux2:amd64 (1.5.0-0.1build1) ... 177s Setting up libpaper-utils (2.2.5-0.3build1) ... 177s Setting up python3-zopfli (0.4.0-1) ... 178s Setting up libthai0:amd64 (0.1.30-1) ... 178s Setting up libraqm0:amd64 (0.10.3-1) ... 178s Setting up python3-numpy (1:2.3.5+ds-3) ... 179s Setting up libhdf5-310:amd64 (1.14.5+repack-4) ... 179s Setting up python3-lxml:amd64 (6.0.2-1) ... 179s Setting up libtiff6:amd64 (4.7.0-3ubuntu3) ... 179s Setting up python3-contourpy (1.3.3-1) ... 179s Setting up libfontconfig1:amd64 (2.15.0-2.4ubuntu1) ... 179s Setting up libsm6:amd64 (2:1.2.6-1) ... 179s Setting up libhdf5-hl-310:amd64 (1.14.5+repack-4) ... 179s Setting up fontconfig (2.15.0-2.4ubuntu1) ... 181s Regenerating fonts cache... done. 181s Setting up libxft2:amd64 (2.3.6-1build2) ... 181s Setting up python3-scipy (1.16.3-3) ... 183s Setting up libtk8.6:amd64 (8.6.17-1) ... 183s Setting up python3-pandas-lib:amd64 (2.3.3+dfsg-3) ... 183s Setting up libpango-1.0-0:amd64 (1.56.4-1) ... 183s Setting up python3-h5py-serial (3.15.1-4) ... 183s Setting up libcairo2:amd64 (1.18.4-3) ... 183s Setting up python3.13-tk (3.13.11-1) ... 183s Setting up python3-pil:amd64 (12.0.0-1ubuntu1) ... 183s Setting up python3-pandas (2.3.3+dfsg-3) ... 186s Setting up libxt6t64:amd64 (1:1.2.1-1.3) ... 186s Setting up python3-h5py (3.15.1-4) ... 186s Setting up libpangoft2-1.0-0:amd64 (1.56.4-1) ... 186s Setting up libpangocairo-1.0-0:amd64 (1.56.4-1) ... 186s Setting up python3.14-tk (3.14.2-1) ... 186s Setting up python3-tk (3.14.2-1) ... 186s Setting up python3-biom-format (2.1.17-1) ... 186s /usr/lib/python3/dist-packages/doc/sphinxext/numpydoc/numpydoc/docscrape.py:274: SyntaxWarning: "\w" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\w"? A raw string is also an option. 186s if re.compile('^([\w., ]+=)?\s*[\w\.]+\(.*\)$').match(summary_str): 186s /usr/lib/python3/dist-packages/doc/sphinxext/numpydoc/numpydoc/docscrape.py:316: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. 186s return [self['Signature'].replace('*','\*')] + [''] 186s /usr/lib/python3/dist-packages/doc/sphinxext/numpydoc/numpydoc/docscrape.py:438: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. 186s argspec = argspec.replace('*','\*') 186s /usr/lib/python3/dist-packages/doc/sphinxext/numpydoc/numpydoc/docscrape.py:456: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option. 186s signature = self['Signature'].replace('*', '\*') 186s Setting up python3-pil.imagetk:amd64 (12.0.0-1ubuntu1) ... 187s Setting up r-base-core (4.5.2-1ubuntu2) ... 187s Creating config file /etc/R/Renviron with new version 187s Setting up r-cran-lattice (0.22-7-1) ... 187s Setting up r-cran-modeltools (0.2-24-1) ... 187s Setting up python3-rpy2 (3.6.4-2) ... 187s Setting up r-cran-codetools (0.2-20-1build1) ... 187s Setting up r-cran-matrixstats (1.5.0-1) ... 187s Setting up r-cran-mass (7.3-65-1) ... 187s Setting up r-cran-mvtnorm (1.3-3-1) ... 187s Setting up r-cran-zoo (1.8-15-1) ... 187s Setting up r-cran-matrix (1.7-4-1) ... 187s Setting up r-cran-libcoin (1.0-10-1) ... 187s Setting up r-cran-sandwich (3.1-1-1) ... 187s Setting up r-cran-survival (3.8-3-1) ... 187s Setting up r-cran-th.data (1.1-5-1) ... 187s Setting up r-cran-multcomp (1.4-29-1) ... 187s Setting up r-cran-coin (1.4-3-1) ... 187s Setting up python3-fonttools (4.61.1-3) ... 188s Setting up python3-ufolib2 (0.18.1+dfsg1-1) ... 188s Setting up python3-matplotlib (3.10.7+dfsg1-1) ... 189s Setting up lefse (1.1.2-2) ... 189s Processing triggers for libc-bin (2.42-2ubuntu4) ... 189s Processing triggers for man-db (2.13.1-1) ... 189s Processing triggers for install-info (7.2-5) ... 190s autopkgtest [18:03:30]: test run-unit-test: [----------------------- 191s lefse_run.py comparative pass 192s lefse2circlader.py comparative pass 192s lefse_plot_cladogram.py comparative fail. Instead, I get: 193s /usr/lib/python3/dist-packages/pyparsing/core.py:5637: SyntaxWarning: 'return' in a 'finally' block 193s return f"{type(self).__name__}: {retString}" 193s usage: lefse_plot_cladogram.py [-h] [--clade_sep CLADE_SEP] 193s [--max_lev MAX_LEV] 193s [--max_point_size MAX_POINT_SIZE] 193s [--min_point_size MIN_POINT_SIZE] 193s [--point_edge_width MARKEREDGEWIDTH] 193s [--siblings_connector_width SIBLINGS_CONNECTOR_WIDTH] 193s [--parents_connector_width PARENTS_CONNECTOR_WIDTH] 193s [--radial_start_lev RADIAL_START_LEV] 193s [--labeled_start_lev LABELED_START_LEV] 193s [--labeled_stop_lev LABELED_STOP_LEV] 193s [--abrv_start_lev ABRV_START_LEV] 193s [--abrv_stop_lev ABRV_STOP_LEV] 193s [--expand_void_lev EXPAND_VOID_LEV] 193s [--class_legend_vis CLASS_LEGEND_VIS] 193s [--colored_connector COLORED_CONNECTORS] 193s [--alpha ALPHA] [--title TITLE] 193s [--sub_clade SUB_CLADE] 193s [--title_font_size TITLE_FONT_SIZE] 193s [--right_space_prop R_PROP] 193s [--left_space_prop L_PROP] 193s [--label_font_size LABEL_FONT_SIZE] 193s [--background_color {k,w}] 193s [--colored_labels {0,1}] 193s [--class_legend_font_size CLASS_LEGEND_FONT_SIZE] 193s [--dpi DPI] [--format {png,svg,pdf}] 193s [--all_feats ALL_FEATS] 193s INPUT_FILE OUTPUT_FILE 193s 193s Cladoplot 193s 193s positional arguments: 193s INPUT_FILE tab delimited input file 193s OUTPUT_FILE the file for the output image 193s 193s options: 193s -h, --help show this help message and exit 193s --clade_sep CLADE_SEP 193s --max_lev MAX_LEV 193s --max_point_size MAX_POINT_SIZE 193s --min_point_size MIN_POINT_SIZE 193s --point_edge_width MARKEREDGEWIDTH 193s --siblings_connector_width SIBLINGS_CONNECTOR_WIDTH 193s --parents_connector_width PARENTS_CONNECTOR_WIDTH 193s --radial_start_lev RADIAL_START_LEV 193s --labeled_start_lev LABELED_START_LEV 193s --labeled_stop_lev LABELED_STOP_LEV 193s --abrv_start_lev ABRV_START_LEV 193s --abrv_stop_lev ABRV_STOP_LEV 193s --expand_void_lev EXPAND_VOID_LEV 193s --class_legend_vis CLASS_LEGEND_VIS 193s --colored_connector COLORED_CONNECTORS 193s --alpha ALPHA 193s --title TITLE 193s --sub_clade SUB_CLADE 193s --title_font_size TITLE_FONT_SIZE 193s --right_space_prop R_PROP 193s --left_space_prop L_PROP 193s --label_font_size LABEL_FONT_SIZE 193s --background_color {k,w} 193s set the color of the background 193s --colored_labels {0,1} 193s draw the label with class color (1) or in black (0) 193s --class_legend_font_size CLASS_LEGEND_FONT_SIZE 193s --dpi DPI 193s --format {png,svg,pdf} 193s the format for the output file 193s --all_feats ALL_FEATS 193s autopkgtest [18:03:33]: test run-unit-test: -----------------------] 194s run-unit-test FAIL non-zero exit status 1 194s autopkgtest [18:03:34]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 194s autopkgtest [18:03:34]: @@@@@@@@@@@@@@@@@@@@ summary 194s run-unit-test FAIL non-zero exit status 1