0s autopkgtest [20:31:53]: starting date and time: 2024-11-23 20:31:53+0000 0s autopkgtest [20:31:53]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [20:31:53]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.upbqee53/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults --apt-upgrade augur --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-arm64-30.secgroup --name adt-plucky-arm64-augur-20241123-203153-juju-7f2275-prod-proposed-migration-environment-20-0d48682b-8d72-4257-b432-5f20ce84b6bc --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 64s autopkgtest [20:32:57]: testbed dpkg architecture: arm64 65s autopkgtest [20:32:58]: testbed apt version: 2.9.8 65s autopkgtest [20:32:58]: @@@@@@@@@@@@@@@@@@@@ test bed setup 65s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 66s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [9704 B] 66s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [54.8 kB] 66s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [930 kB] 66s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.6 kB] 66s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [87.1 kB] 66s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [57.8 kB] 66s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [796 kB] 66s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [19.3 kB] 66s Fetched 2043 kB in 1s (2324 kB/s) 66s Reading package lists... 69s Reading package lists... 69s Building dependency tree... 69s Reading state information... 70s Calculating upgrade... 70s The following package was automatically installed and is no longer required: 70s libsgutils2-1.46-2 70s Use 'sudo apt autoremove' to remove it. 70s The following NEW packages will be installed: 70s libsgutils2-1.48 70s The following packages will be upgraded: 70s bash bpftrace curl debconf debconf-i18n distro-info fwupd-signed 70s gir1.2-girepository-2.0 gir1.2-glib-2.0 hostname libaudit-common libaudit1 70s libcurl3t64-gnutls libcurl4t64 libgirepository-1.0-1 libglib2.0-0t64 70s libglib2.0-data libpam-modules libpam-modules-bin libpam-runtime libpam0g 70s libplymouth5 libpython3-stdlib libselinux1 libsemanage-common libsemanage2 70s linux-base lxd-installer openssh-client openssh-server openssh-sftp-server 70s plymouth plymouth-theme-ubuntu-text python3 python3-blinker python3-dbus 70s python3-debconf python3-gi python3-jsonschema-specifications python3-minimal 70s python3-rpds-py python3-yaml sg3-utils sg3-utils-udev vim-common vim-tiny 70s xxd 70s 47 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 70s Need to get 11.7 MB of archives. 70s After this operation, 2983 kB of additional disk space will be used. 70s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 bash arm64 5.2.32-1ubuntu2 [791 kB] 71s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 hostname arm64 3.25 [11.0 kB] 71s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libaudit-common all 1:4.0.2-2ubuntu1 [6578 B] 71s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libaudit1 arm64 1:4.0.2-2ubuntu1 [54.2 kB] 71s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 debconf-i18n all 1.5.87ubuntu1 [204 kB] 71s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB] 71s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB] 71s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB] 71s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-debconf all 1.5.87ubuntu1 [4156 B] 71s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 debconf all 1.5.87ubuntu1 [124 kB] 71s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 libpam0g arm64 1.5.3-7ubuntu4 [68.6 kB] 71s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libselinux1 arm64 3.7-3ubuntu1 [81.6 kB] 71s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libpam-modules-bin arm64 1.5.3-7ubuntu4 [50.4 kB] 71s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libpam-modules arm64 1.5.3-7ubuntu4 [285 kB] 71s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 openssh-sftp-server arm64 1:9.9p1-3ubuntu2 [36.8 kB] 71s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 openssh-server arm64 1:9.9p1-3ubuntu2 [524 kB] 71s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 openssh-client arm64 1:9.9p1-3ubuntu2 [920 kB] 71s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 libpam-runtime all 1.5.3-7ubuntu4 [40.8 kB] 71s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 libsemanage-common all 3.7-2build1 [7186 B] 71s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libsemanage2 arm64 3.7-2build1 [92.2 kB] 71s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 distro-info arm64 1.12 [19.4 kB] 71s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 gir1.2-girepository-2.0 arm64 1.82.0-2 [25.2 kB] 71s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 gir1.2-glib-2.0 arm64 2.82.2-3 [182 kB] 71s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libglib2.0-0t64 arm64 2.82.2-3 [1560 kB] 71s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 libgirepository-1.0-1 arm64 1.82.0-2 [83.0 kB] 71s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libglib2.0-data all 2.82.2-3 [51.7 kB] 71s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-dbus arm64 1.3.2-5build4 [109 kB] 71s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-gi arm64 3.50.0-3build1 [279 kB] 71s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-yaml arm64 6.0.2-1build1 [164 kB] 71s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 vim-tiny arm64 2:9.1.0861-1ubuntu1 [805 kB] 71s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 vim-common all 2:9.1.0861-1ubuntu1 [395 kB] 71s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 xxd arm64 2:9.1.0861-1ubuntu1 [67.3 kB] 71s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libplymouth5 arm64 24.004.60-2ubuntu3 [141 kB] 71s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 plymouth-theme-ubuntu-text arm64 24.004.60-2ubuntu3 [9914 B] 71s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 plymouth arm64 24.004.60-2ubuntu3 [135 kB] 71s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 bpftrace arm64 0.21.2-2ubuntu3 [1854 kB] 71s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 curl arm64 8.9.1-2ubuntu3 [235 kB] 71s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libcurl4t64 arm64 8.9.1-2ubuntu3 [365 kB] 71s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 fwupd-signed arm64 1.55+1.7-1 [30.9 kB] 71s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 libcurl3t64-gnutls arm64 8.9.1-2ubuntu3 [359 kB] 71s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 libsgutils2-1.48 arm64 1.48-0ubuntu1 [118 kB] 71s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 linux-base all 4.10.1ubuntu1 [34.8 kB] 71s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 lxd-installer all 10 [5264 B] 71s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-blinker all 1.9.0-1 [10.7 kB] 71s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-rpds-py arm64 0.21.0-2ubuntu1 [302 kB] 71s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jsonschema-specifications all 2023.12.1-2 [9116 B] 71s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 sg3-utils arm64 1.48-0ubuntu1 [999 kB] 71s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 sg3-utils-udev all 1.48-0ubuntu1 [6608 B] 72s Preconfiguring packages ... 72s Fetched 11.7 MB in 1s (9808 kB/s) 72s (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 ... 80002 files and directories currently installed.) 72s Preparing to unpack .../bash_5.2.32-1ubuntu2_arm64.deb ... 72s Unpacking bash (5.2.32-1ubuntu2) over (5.2.32-1ubuntu1) ... 72s Setting up bash (5.2.32-1ubuntu2) ... 72s update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode 72s (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 ... 80002 files and directories currently installed.) 72s Preparing to unpack .../hostname_3.25_arm64.deb ... 72s Unpacking hostname (3.25) over (3.23+nmu2ubuntu2) ... 72s Setting up hostname (3.25) ... 72s (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 ... 80002 files and directories currently installed.) 72s Preparing to unpack .../libaudit-common_1%3a4.0.2-2ubuntu1_all.deb ... 72s Unpacking libaudit-common (1:4.0.2-2ubuntu1) over (1:4.0.1-1ubuntu2) ... 73s Setting up libaudit-common (1:4.0.2-2ubuntu1) ... 73s (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 ... 80002 files and directories currently installed.) 73s Preparing to unpack .../libaudit1_1%3a4.0.2-2ubuntu1_arm64.deb ... 73s Unpacking libaudit1:arm64 (1:4.0.2-2ubuntu1) over (1:4.0.1-1ubuntu2) ... 73s Setting up libaudit1:arm64 (1:4.0.2-2ubuntu1) ... 73s (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 ... 80002 files and directories currently installed.) 73s Preparing to unpack .../debconf-i18n_1.5.87ubuntu1_all.deb ... 73s Unpacking debconf-i18n (1.5.87ubuntu1) over (1.5.86ubuntu1) ... 73s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ... 73s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 73s Setting up python3-minimal (3.12.7-1) ... 73s (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 ... 80002 files and directories currently installed.) 73s Preparing to unpack .../python3_3.12.7-1_arm64.deb ... 73s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 73s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ... 73s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 73s Preparing to unpack .../python3-debconf_1.5.87ubuntu1_all.deb ... 73s Unpacking python3-debconf (1.5.87ubuntu1) over (1.5.86ubuntu1) ... 73s Preparing to unpack .../debconf_1.5.87ubuntu1_all.deb ... 73s Unpacking debconf (1.5.87ubuntu1) over (1.5.86ubuntu1) ... 73s Setting up debconf (1.5.87ubuntu1) ... 74s (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 ... 80002 files and directories currently installed.) 74s Preparing to unpack .../libpam0g_1.5.3-7ubuntu4_arm64.deb ... 74s Unpacking libpam0g:arm64 (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ... 74s Setting up libpam0g:arm64 (1.5.3-7ubuntu4) ... 74s (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 ... 80002 files and directories currently installed.) 74s Preparing to unpack .../libselinux1_3.7-3ubuntu1_arm64.deb ... 74s Unpacking libselinux1:arm64 (3.7-3ubuntu1) over (3.5-2ubuntu5) ... 74s Setting up libselinux1:arm64 (3.7-3ubuntu1) ... 74s (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 ... 80002 files and directories currently installed.) 74s Preparing to unpack .../libpam-modules-bin_1.5.3-7ubuntu4_arm64.deb ... 74s Unpacking libpam-modules-bin (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ... 74s Setting up libpam-modules-bin (1.5.3-7ubuntu4) ... 74s pam_namespace.service is a disabled or a static unit not running, not starting it. 74s (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 ... 80002 files and directories currently installed.) 74s Preparing to unpack .../libpam-modules_1.5.3-7ubuntu4_arm64.deb ... 74s Unpacking libpam-modules:arm64 (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ... 74s Setting up libpam-modules:arm64 (1.5.3-7ubuntu4) ... 74s (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 ... 80002 files and directories currently installed.) 74s Preparing to unpack .../openssh-sftp-server_1%3a9.9p1-3ubuntu2_arm64.deb ... 74s Unpacking openssh-sftp-server (1:9.9p1-3ubuntu2) over (1:9.7p1-7ubuntu5) ... 74s Preparing to unpack .../openssh-server_1%3a9.9p1-3ubuntu2_arm64.deb ... 75s Unpacking openssh-server (1:9.9p1-3ubuntu2) over (1:9.7p1-7ubuntu5) ... 75s Preparing to unpack .../openssh-client_1%3a9.9p1-3ubuntu2_arm64.deb ... 75s Unpacking openssh-client (1:9.9p1-3ubuntu2) over (1:9.7p1-7ubuntu5) ... 75s Preparing to unpack .../libpam-runtime_1.5.3-7ubuntu4_all.deb ... 75s Unpacking libpam-runtime (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ... 75s Setting up libpam-runtime (1.5.3-7ubuntu4) ... 75s (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 ... 80004 files and directories currently installed.) 75s Preparing to unpack .../libsemanage-common_3.7-2build1_all.deb ... 75s Unpacking libsemanage-common (3.7-2build1) over (3.5-1build6) ... 75s Setting up libsemanage-common (3.7-2build1) ... 75s (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 ... 80003 files and directories currently installed.) 75s Preparing to unpack .../libsemanage2_3.7-2build1_arm64.deb ... 75s Unpacking libsemanage2:arm64 (3.7-2build1) over (3.5-1build6) ... 75s Setting up libsemanage2:arm64 (3.7-2build1) ... 75s (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 ... 80003 files and directories currently installed.) 75s Preparing to unpack .../00-distro-info_1.12_arm64.deb ... 75s Unpacking distro-info (1.12) over (1.9) ... 75s Preparing to unpack .../01-gir1.2-girepository-2.0_1.82.0-2_arm64.deb ... 75s Unpacking gir1.2-girepository-2.0:arm64 (1.82.0-2) over (1.80.1-4) ... 75s Preparing to unpack .../02-gir1.2-glib-2.0_2.82.2-3_arm64.deb ... 75s Unpacking gir1.2-glib-2.0:arm64 (2.82.2-3) over (2.82.1-0ubuntu1) ... 75s Preparing to unpack .../03-libglib2.0-0t64_2.82.2-3_arm64.deb ... 75s Unpacking libglib2.0-0t64:arm64 (2.82.2-3) over (2.82.1-0ubuntu1) ... 75s Preparing to unpack .../04-libgirepository-1.0-1_1.82.0-2_arm64.deb ... 75s Unpacking libgirepository-1.0-1:arm64 (1.82.0-2) over (1.80.1-4) ... 75s Preparing to unpack .../05-libglib2.0-data_2.82.2-3_all.deb ... 75s Unpacking libglib2.0-data (2.82.2-3) over (2.82.1-0ubuntu1) ... 75s Preparing to unpack .../06-python3-dbus_1.3.2-5build4_arm64.deb ... 76s Unpacking python3-dbus (1.3.2-5build4) over (1.3.2-5build3) ... 76s Preparing to unpack .../07-python3-gi_3.50.0-3build1_arm64.deb ... 76s Unpacking python3-gi (3.50.0-3build1) over (3.50.0-3) ... 76s Preparing to unpack .../08-python3-yaml_6.0.2-1build1_arm64.deb ... 76s Unpacking python3-yaml (6.0.2-1build1) over (6.0.2-1) ... 76s Preparing to unpack .../09-vim-tiny_2%3a9.1.0861-1ubuntu1_arm64.deb ... 76s Unpacking vim-tiny (2:9.1.0861-1ubuntu1) over (2:9.1.0777-1ubuntu1) ... 76s Preparing to unpack .../10-vim-common_2%3a9.1.0861-1ubuntu1_all.deb ... 76s Unpacking vim-common (2:9.1.0861-1ubuntu1) over (2:9.1.0777-1ubuntu1) ... 76s Preparing to unpack .../11-xxd_2%3a9.1.0861-1ubuntu1_arm64.deb ... 76s Unpacking xxd (2:9.1.0861-1ubuntu1) over (2:9.1.0777-1ubuntu1) ... 76s Preparing to unpack .../12-libplymouth5_24.004.60-2ubuntu3_arm64.deb ... 76s Unpacking libplymouth5:arm64 (24.004.60-2ubuntu3) over (24.004.60-1ubuntu11) ... 76s Preparing to unpack .../13-plymouth-theme-ubuntu-text_24.004.60-2ubuntu3_arm64.deb ... 76s Unpacking plymouth-theme-ubuntu-text (24.004.60-2ubuntu3) over (24.004.60-1ubuntu11) ... 76s Preparing to unpack .../14-plymouth_24.004.60-2ubuntu3_arm64.deb ... 76s Unpacking plymouth (24.004.60-2ubuntu3) over (24.004.60-1ubuntu11) ... 76s Preparing to unpack .../15-bpftrace_0.21.2-2ubuntu3_arm64.deb ... 76s Unpacking bpftrace (0.21.2-2ubuntu3) over (0.21.2-2ubuntu2) ... 76s Preparing to unpack .../16-curl_8.9.1-2ubuntu3_arm64.deb ... 76s Unpacking curl (8.9.1-2ubuntu3) over (8.9.1-2ubuntu2) ... 76s Preparing to unpack .../17-libcurl4t64_8.9.1-2ubuntu3_arm64.deb ... 76s Unpacking libcurl4t64:arm64 (8.9.1-2ubuntu3) over (8.9.1-2ubuntu2) ... 76s Preparing to unpack .../18-fwupd-signed_1.55+1.7-1_arm64.deb ... 76s Unpacking fwupd-signed (1.55+1.7-1) over (1.54+1.6-1build1) ... 76s Preparing to unpack .../19-libcurl3t64-gnutls_8.9.1-2ubuntu3_arm64.deb ... 76s Unpacking libcurl3t64-gnutls:arm64 (8.9.1-2ubuntu3) over (8.9.1-2ubuntu2) ... 76s Selecting previously unselected package libsgutils2-1.48:arm64. 76s Preparing to unpack .../20-libsgutils2-1.48_1.48-0ubuntu1_arm64.deb ... 76s Unpacking libsgutils2-1.48:arm64 (1.48-0ubuntu1) ... 76s Preparing to unpack .../21-linux-base_4.10.1ubuntu1_all.deb ... 76s Unpacking linux-base (4.10.1ubuntu1) over (4.5ubuntu9) ... 76s Preparing to unpack .../22-lxd-installer_10_all.deb ... 76s Unpacking lxd-installer (10) over (9) ... 76s Preparing to unpack .../23-python3-blinker_1.9.0-1_all.deb ... 77s Unpacking python3-blinker (1.9.0-1) over (1.8.2-1) ... 77s Preparing to unpack .../24-python3-rpds-py_0.21.0-2ubuntu1_arm64.deb ... 77s Unpacking python3-rpds-py (0.21.0-2ubuntu1) over (0.20.0-0ubuntu3) ... 77s Preparing to unpack .../25-python3-jsonschema-specifications_2023.12.1-2_all.deb ... 77s Unpacking python3-jsonschema-specifications (2023.12.1-2) over (2023.12.1-1ubuntu1) ... 77s Preparing to unpack .../26-sg3-utils_1.48-0ubuntu1_arm64.deb ... 77s Unpacking sg3-utils (1.48-0ubuntu1) over (1.46-3ubuntu5) ... 77s Preparing to unpack .../27-sg3-utils-udev_1.48-0ubuntu1_all.deb ... 77s Unpacking sg3-utils-udev (1.48-0ubuntu1) over (1.46-3ubuntu5) ... 77s Setting up distro-info (1.12) ... 77s Setting up linux-base (4.10.1ubuntu1) ... 77s Setting up libcurl4t64:arm64 (8.9.1-2ubuntu3) ... 77s Setting up bpftrace (0.21.2-2ubuntu3) ... 77s Setting up openssh-client (1:9.9p1-3ubuntu2) ... 77s Setting up libcurl3t64-gnutls:arm64 (8.9.1-2ubuntu3) ... 77s Setting up fwupd-signed (1.55+1.7-1) ... 77s Setting up libsgutils2-1.48:arm64 (1.48-0ubuntu1) ... 77s Setting up debconf-i18n (1.5.87ubuntu1) ... 77s Setting up xxd (2:9.1.0861-1ubuntu1) ... 77s Setting up libglib2.0-0t64:arm64 (2.82.2-3) ... 77s No schema files found: doing nothing. 77s Setting up libglib2.0-data (2.82.2-3) ... 77s Setting up vim-common (2:9.1.0861-1ubuntu1) ... 77s Setting up gir1.2-glib-2.0:arm64 (2.82.2-3) ... 77s Setting up lxd-installer (10) ... 78s Setting up libplymouth5:arm64 (24.004.60-2ubuntu3) ... 78s Setting up libgirepository-1.0-1:arm64 (1.82.0-2) ... 78s Setting up curl (8.9.1-2ubuntu3) ... 78s Setting up libpython3-stdlib:arm64 (3.12.7-1) ... 78s Setting up sg3-utils (1.48-0ubuntu1) ... 78s Setting up openssh-sftp-server (1:9.9p1-3ubuntu2) ... 78s Setting up openssh-server (1:9.9p1-3ubuntu2) ... 78s Installing new version of config file /etc/ssh/moduli ... 78s Replacing config file /etc/ssh/sshd_config with new version 79s Setting up plymouth (24.004.60-2ubuntu3) ... 79s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 79s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 95s flash-kernel: deferring update (trigger activated) 95s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 95s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 95s Setting up python3 (3.12.7-1) ... 96s Setting up vim-tiny (2:9.1.0861-1ubuntu1) ... 96s Setting up sg3-utils-udev (1.48-0ubuntu1) ... 96s update-initramfs: deferring update (trigger activated) 96s Setting up plymouth-theme-ubuntu-text (24.004.60-2ubuntu3) ... 96s update-initramfs: deferring update (trigger activated) 96s Setting up gir1.2-girepository-2.0:arm64 (1.82.0-2) ... 96s Setting up python3-gi (3.50.0-3build1) ... 96s Setting up python3-rpds-py (0.21.0-2ubuntu1) ... 96s Setting up python3-jsonschema-specifications (2023.12.1-2) ... 96s Setting up python3-blinker (1.9.0-1) ... 96s Setting up python3-dbus (1.3.2-5build4) ... 96s Setting up python3-debconf (1.5.87ubuntu1) ... 97s Setting up python3-yaml (6.0.2-1build1) ... 97s Processing triggers for man-db (2.13.0-1) ... 98s Processing triggers for debianutils (5.21) ... 99s Processing triggers for install-info (7.1.1-1) ... 99s Processing triggers for initramfs-tools (0.142ubuntu35) ... 99s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 99s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 112s System running in EFI mode, skipping. 114s Processing triggers for libc-bin (2.40-1ubuntu3) ... 114s Processing triggers for ufw (0.36.2-8) ... 114s Processing triggers for flash-kernel (3.107ubuntu13) ... 114s System running in EFI mode, skipping. 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s The following packages will be REMOVED: 114s libsgutils2-1.46-2* 114s 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. 114s After this operation, 314 kB disk space will be freed. 114s (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 ... 80037 files and directories currently installed.) 114s Removing libsgutils2-1.46-2:arm64 (1.46-3ubuntu5) ... 114s Processing triggers for libc-bin (2.40-1ubuntu3) ... 115s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 115s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 115s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 115s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 116s Reading package lists... 116s Reading package lists... 117s Building dependency tree... 117s Reading state information... 117s Calculating upgrade... 118s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 118s Reading package lists... 118s Building dependency tree... 118s Reading state information... 119s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 119s autopkgtest [20:33:52]: rebooting testbed after setup commands that affected boot 123s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 145s autopkgtest [20:34:18]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 148s autopkgtest [20:34:21]: @@@@@@@@@@@@@@@@@@@@ apt-source augur 150s Get:1 http://ftpmaster.internal/ubuntu plucky/universe augur 24.4.0-1 (dsc) [2754 B] 150s Get:2 http://ftpmaster.internal/ubuntu plucky/universe augur 24.4.0-1 (tar) [6802 kB] 150s Get:3 http://ftpmaster.internal/ubuntu plucky/universe augur 24.4.0-1 (diff) [16.5 kB] 151s gpgv: Signature made Wed May 22 16:59:51 2024 UTC 151s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 151s gpgv: issuer "emollier@debian.org" 151s gpgv: Can't check signature: No public key 151s dpkg-source: warning: cannot verify inline signature for ./augur_24.4.0-1.dsc: no acceptable signature found 151s autopkgtest [20:34:24]: testing package augur version 24.4.0-1 151s autopkgtest [20:34:24]: build not needed 153s autopkgtest [20:34:26]: test run-unit-test: preparing testbed 155s Reading package lists... 156s Building dependency tree... 156s Reading state information... 156s Starting pkgProblemResolver with broken count: 0 156s Starting 2 pkgProblemResolver with broken count: 0 156s Done 157s The following additional packages will be installed: 157s augur blt fasttree flake8 fontconfig-config fonts-dejavu-core 157s fonts-dejavu-mono fonts-lyx fonts-urw-base35 libamd3 libblas3 libcairo2 157s libcamd3 libccolamd3 libcholmod5 libcolamd3 libdeflate0 libdsdp-5.8t64 157s libfftw3-double3 libfontconfig1 libfontenc1 libgfortran5 libglpk40 libgomp1 157s libgraphite2-3 libgsl28 libgslcblas0 libharfbuzz0b libimagequant0 libjbig0 157s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui liblapack3 liblbfgsb0 157s liblcms2-2 liblerc4 libltdl7 libopenjp2-7 libpixman-1-0 157s libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 libraqm0 157s libsharpyuv0 libsuitesparseconfig7 libtcl8.6 libtiff6 libtk8.6 libumfpack6 157s libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 157s libxrender1 libxslt1.1 libxss1 mafft mypy pigz python-matplotlib-data 157s python3-all python3-appdirs python3-asttokens python3-bcbio-gff 157s python3-biopython python3-boto3 python3-botocore python3-brotli 157s python3-cairo python3-contourpy python3-cvxopt python3-cycler 157s python3-dateutil python3-decorator python3-dendropy python3-executing 157s python3-flake8 python3-fonttools python3-freetype python3-freezegun 157s python3-fs python3-importlib-metadata python3-iniconfig python3-ipdb 157s python3-ipython python3-isodate python3-jedi python3-jmespath 157s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 157s python3-matplotlib-inline python3-mccabe python3-mpmath python3-mypy 157s python3-mypy-extensions python3-networkx python3-numpy python3-packaging 157s python3-pandas python3-pandas-lib python3-parso python3-pexpect python3-pil 157s python3-pil.imagetk python3-pluggy python3-prompt-toolkit python3-psutil 157s python3-ptyprocess python3-pure-eval python3-pycodestyle python3-pyfaidx 157s python3-pyfastx python3-pyflakes python3-pygtrie python3-pytest 157s python3-pytest-mock python3-reportlab python3-rlpycairo python3-s3transfer 157s python3-schedule python3-scipy python3-seaborn python3-six 157s python3-stack-data python3-sympy python3-tk python3-traitlets 157s python3-treetime python3-typeshed python3-tz python3-ufolib2 157s python3-unicodedata2 python3-wcwidth python3-xopen python3-zstandard 157s python3.12-tk python3.13 python3.13-minimal python3.13-tk raxml seqmagick 157s sgml-base tk8.6-blt2.5 unicode-data vcftools w3c-sgml-lib x11-common 157s xfonts-encodings xfonts-utils xml-core 157s Suggested packages: 157s blt-demo fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre libfftw3-bin 157s libfftw3-dev libiodbc2-dev default-libmysqlclient-dev gsl-ref-psdoc 157s | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libjs-jquery-ui-docs 157s liblcms2-utils tcl8.6 tk8.6 mypy-doc bwa clustalo clustalw dialign dssp 157s emboss muscle3 phylip phyml prank probcons python3-mysqldb python3-mmtf 157s python3-rdflib python3-psycopg2 samtools t-coffee wise python-cvxopt-doc 157s python-cycler-doc python-ipython-doc python-lxml-doc cm-super-minimal dvipng 157s ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 157s librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi-cairo 157s python3-gobject python3-pyqt5 python3-sip python3-tornado 157s texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 157s python3-gdal python3-pydot python3-pygraphviz gcc gfortran python-numpy-doc 157s python3-dev python-pandas-doc python3-statsmodels python-pexpect-doc 157s python-pil-doc python-pygtrie-doc python-pytest-mock-doc pdf-viewer 157s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 157s python-scipy-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg 157s python-traitlets-doc python-zstandard-doc python3.13-venv python3.13-doc 157s binfmt-support sgml-base-doc debhelper 157s Recommended packages: 157s iqtree javascript-common blast2 libwww-perl lynx ruby python-biopython-doc 157s ncbi-blast+ python3-bs4 python3-cssselect python3-html5lib python3-orjson 157s python3-bottleneck python3-numexpr python3-odf python3-openpyxl 157s python3-tables python3-olefile pyflakes3 fonts-dejavu-extra g++ 157s | c++-compiler isympy-common tabix 157s The following NEW packages will be installed: 157s augur autopkgtest-satdep blt fasttree flake8 fontconfig-config 157s fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-urw-base35 libamd3 157s libblas3 libcairo2 libcamd3 libccolamd3 libcholmod5 libcolamd3 libdeflate0 157s libdsdp-5.8t64 libfftw3-double3 libfontconfig1 libfontenc1 libgfortran5 157s libglpk40 libgomp1 libgraphite2-3 libgsl28 libgslcblas0 libharfbuzz0b 157s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui 157s liblapack3 liblbfgsb0 liblcms2-2 liblerc4 libltdl7 libopenjp2-7 157s libpixman-1-0 libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0 157s libraqm0 libsharpyuv0 libsuitesparseconfig7 libtcl8.6 libtiff6 libtk8.6 157s libumfpack6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 157s libxft2 libxrender1 libxslt1.1 libxss1 mafft mypy pigz 157s python-matplotlib-data python3-all python3-appdirs python3-asttokens 157s python3-bcbio-gff python3-biopython python3-boto3 python3-botocore 157s python3-brotli python3-cairo python3-contourpy python3-cvxopt python3-cycler 157s python3-dateutil python3-decorator python3-dendropy python3-executing 157s python3-flake8 python3-fonttools python3-freetype python3-freezegun 157s python3-fs python3-importlib-metadata python3-iniconfig python3-ipdb 157s python3-ipython python3-isodate python3-jedi python3-jmespath 157s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 157s python3-matplotlib-inline python3-mccabe python3-mpmath python3-mypy 157s python3-mypy-extensions python3-networkx python3-numpy python3-packaging 157s python3-pandas python3-pandas-lib python3-parso python3-pexpect python3-pil 157s python3-pil.imagetk python3-pluggy python3-prompt-toolkit python3-psutil 157s python3-ptyprocess python3-pure-eval python3-pycodestyle python3-pyfaidx 157s python3-pyfastx python3-pyflakes python3-pygtrie python3-pytest 157s python3-pytest-mock python3-reportlab python3-rlpycairo python3-s3transfer 157s python3-schedule python3-scipy python3-seaborn python3-six 157s python3-stack-data python3-sympy python3-tk python3-traitlets 157s python3-treetime python3-typeshed python3-tz python3-ufolib2 157s python3-unicodedata2 python3-wcwidth python3-xopen python3-zstandard 157s python3.12-tk python3.13 python3.13-minimal python3.13-tk raxml seqmagick 157s sgml-base tk8.6-blt2.5 unicode-data vcftools w3c-sgml-lib x11-common 157s xfonts-encodings xfonts-utils xml-core 157s 0 upgraded, 157 newly installed, 0 to remove and 0 not upgraded. 157s Need to get 135 MB/135 MB of archives. 157s After this operation, 739 MB of additional disk space will be used. 157s Get:1 /tmp/autopkgtest.FrEcXh/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [756 B] 157s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB] 158s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB] 158s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 sgml-base all 1.31 [11.4 kB] 158s Get:5 http://ftpmaster.internal/ubuntu plucky/universe arm64 pigz arm64 2.8-1 [60.7 kB] 158s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 158s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB] 158s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 158s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11ubuntu1 [4149 kB] 158s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [987 kB] 158s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB] 158s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB] 158s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontenc1 arm64 1:1.1.8-1build1 [13.9 kB] 158s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 158s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 158s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-utils arm64 1:7.7+7 [95.6 kB] 158s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-urw-base35 all 20200910-8 [11.0 MB] 159s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-1.1ubuntu2 [37.4 kB] 159s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-1.1ubuntu2 [142 kB] 159s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB] 159s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB] 159s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B] 159s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.15-1 [774 kB] 159s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-tk arm64 3.12.7-3 [115 kB] 159s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-tk arm64 3.13.0-2 [105 kB] 159s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-7build1 [618 kB] 159s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 blt arm64 2.5.3+dfsg-7build1 [4840 B] 159s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tk arm64 3.12.7-1 [9752 B] 159s Get:29 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pil.imagetk arm64 10.4.0-1ubuntu2 [9590 B] 159s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB] 159s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB] 159s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB] 159s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 159s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB] 159s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libopenjp2-7 arm64 2.5.0-2ubuntu1 [182 kB] 159s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB] 159s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.0.1-1 [487 kB] 159s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libraqm0 arm64 0.10.1-1build1 [14.7 kB] 159s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.22-1 [46.2 kB] 159s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB] 159s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB] 159s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [16.3 kB] 159s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.4.0-0.1 [192 kB] 159s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB] 159s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpdemux2 arm64 1.4.0-0.1 [12.3 kB] 159s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpmux3 arm64 1.4.0-0.1 [25.1 kB] 159s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pil arm64 10.4.0-1ubuntu2 [473 kB] 159s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB] 159s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB] 159s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B] 159s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB] 159s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-cairo arm64 1.26.1-2build1 [139 kB] 159s Get:53 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-freetype all 2.5.1-1 [92.3 kB] 159s Get:54 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-rlpycairo all 0.3.0-3 [9130 B] 159s Get:55 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-reportlab all 4.2.5-1 [1107 kB] 159s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 xml-core all 0.19 [20.3 kB] 159s Get:57 http://ftpmaster.internal/ubuntu plucky/universe arm64 w3c-sgml-lib all 1.3-3 [280 kB] 160s Get:58 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-biopython arm64 1.84+dfsg-4build1 [1694 kB] 160s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-six all 1.16.0-7 [13.1 kB] 160s Get:60 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-bcbio-gff all 0.7.1-2 [33.9 kB] 160s Get:61 http://ftpmaster.internal/ubuntu plucky/main arm64 libsuitesparseconfig7 arm64 1:7.8.3+dfsg-2 [13.1 kB] 160s Get:62 http://ftpmaster.internal/ubuntu plucky/universe arm64 libamd3 arm64 1:7.8.3+dfsg-2 [26.1 kB] 160s Get:63 http://ftpmaster.internal/ubuntu plucky/universe arm64 libcamd3 arm64 1:7.8.3+dfsg-2 [22.6 kB] 160s Get:64 http://ftpmaster.internal/ubuntu plucky/universe arm64 libccolamd3 arm64 1:7.8.3+dfsg-2 [25.5 kB] 160s Get:65 http://ftpmaster.internal/ubuntu plucky/main arm64 libcolamd3 arm64 1:7.8.3+dfsg-2 [18.2 kB] 160s Get:66 http://ftpmaster.internal/ubuntu plucky/universe arm64 libcholmod5 arm64 1:7.8.3+dfsg-2 [614 kB] 160s Get:67 http://ftpmaster.internal/ubuntu plucky/universe arm64 libdsdp-5.8t64 arm64 5.8-10.1build1 [184 kB] 160s Get:68 http://ftpmaster.internal/ubuntu plucky/main arm64 libfftw3-double3 arm64 3.3.10-1ubuntu4 [392 kB] 160s Get:69 http://ftpmaster.internal/ubuntu plucky/main arm64 libltdl7 arm64 2.4.7-8 [40.6 kB] 160s Get:70 http://ftpmaster.internal/ubuntu plucky/universe arm64 libglpk40 arm64 5.0-1build2 [337 kB] 160s Get:71 http://ftpmaster.internal/ubuntu plucky/universe arm64 libgslcblas0 arm64 2.8+dfsg-5 [87.3 kB] 160s Get:72 http://ftpmaster.internal/ubuntu plucky/universe arm64 libgsl28 arm64 2.8+dfsg-5 [983 kB] 160s Get:73 http://ftpmaster.internal/ubuntu plucky/universe arm64 libumfpack6 arm64 1:7.8.3+dfsg-2 [249 kB] 160s Get:74 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cvxopt arm64 1.3.0+dfsg-1build8 [275 kB] 160s Get:75 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-isodate all 0.7.0-1 [18.6 kB] 160s Get:76 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 160s Get:77 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.2-1 [51.5 kB] 160s Get:78 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-dateutil all 2.9.0-3 [80.2 kB] 160s Get:79 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tz all 2024.1-2 [31.4 kB] 160s Get:80 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas-lib arm64 2.2.3+dfsg-5ubuntu1 [6921 kB] 161s Get:81 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas all 2.2.3+dfsg-5ubuntu1 [3112 kB] 161s Get:82 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 161s Get:83 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 161s Get:84 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyfastx arm64 2.1.0-2 [56.1 kB] 161s Get:85 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB] 161s Get:86 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB] 161s Get:87 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.13.1-5ubuntu1 [19.1 MB] 162s Get:88 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 162s Get:89 http://ftpmaster.internal/ubuntu plucky/universe arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 162s Get:90 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-lyx all 2.4.2.1-1 [171 kB] 162s Get:91 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-matplotlib-data all 3.8.3-3ubuntu1 [2928 kB] 162s Get:92 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-contourpy arm64 1.3.0-2build1 [220 kB] 162s Get:93 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cycler all 0.12.1-1 [9716 B] 162s Get:94 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-brotli arm64 1.1.0-2build3 [342 kB] 162s Get:95 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-appdirs all 1.4.4-4 [10.9 kB] 162s Get:96 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fs all 2.4.16-4 [91.3 kB] 162s Get:97 http://ftpmaster.internal/ubuntu plucky/main arm64 libxslt1.1 arm64 1.1.39-0exp1ubuntu1 [167 kB] 162s Get:98 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-lxml arm64 5.3.0-1build1 [1591 kB] 162s Get:99 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-lz4 arm64 4.0.2+dfsg-1build5 [27.5 kB] 162s Get:100 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mpmath all 1.3.0-1 [425 kB] 162s Get:101 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sympy all 1.13.3-1 [4228 kB] 162s Get:102 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 162s Get:103 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-unicodedata2 arm64 15.1.0+ds-1build2 [360 kB] 163s Get:104 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB] 163s Get:105 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB] 163s Get:106 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B] 163s Get:107 http://ftpmaster.internal/ubuntu plucky/universe arm64 unicode-data all 15.1.0-1 [8878 kB] 163s Get:108 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fonttools arm64 4.55.0-3 [1618 kB] 163s Get:109 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-kiwisolver arm64 1.4.7-2build1 [62.0 kB] 163s Get:110 http://ftpmaster.internal/ubuntu plucky/universe arm64 libqhull-r8.0 arm64 2020.2-6build1 [189 kB] 163s Get:111 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-matplotlib arm64 3.8.3-3ubuntu1 [4612 kB] 164s Get:112 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-treetime all 0.11.4-1 [941 kB] 164s Get:113 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-xopen all 1.7.0-2 [17.0 kB] 164s Get:114 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jmespath all 1.0.1-1 [21.3 kB] 164s Get:115 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-botocore all 1.34.46+repack-1ubuntu1 [6211 kB] 164s Get:116 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-s3transfer all 0.10.1-1ubuntu2 [54.3 kB] 164s Get:117 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-boto3 all 1.34.46+dfsg-1ubuntu1 [72.5 kB] 164s Get:118 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-dendropy all 4.6.1-1 [278 kB] 164s Get:119 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-schedule all 1.2.2-1 [12.2 kB] 164s Get:120 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-seaborn all 0.13.2-4 [225 kB] 164s Get:121 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-zstandard arm64 0.23.0-2build1 [350 kB] 164s Get:122 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pygtrie all 2.2-2 [16.0 kB] 164s Get:123 http://ftpmaster.internal/ubuntu plucky/universe arm64 seqmagick all 0.8.6-3 [38.6 kB] 164s Get:124 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-parso all 0.8.3-1 [67.2 kB] 164s Get:125 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-typeshed all 0.0~git20231111.6764465-3 [1274 kB] 164s Get:126 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-jedi all 0.19.1+ds1-1 [693 kB] 164s Get:127 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB] 164s Get:128 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-matplotlib-inline all 0.1.6-2 [8784 B] 164s Get:129 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-wcwidth all 0.2.13+dfsg1-1 [26.3 kB] 164s Get:130 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-prompt-toolkit all 3.0.48-1 [256 kB] 164s Get:131 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-asttokens all 2.4.1-2 [20.8 kB] 164s Get:132 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-executing all 2.1.0-0.1 [24.4 kB] 164s Get:133 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pure-eval all 0.2.3-1 [11.4 kB] 164s Get:134 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-stack-data all 0.6.3-1 [22.0 kB] 164s Get:135 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-ptyprocess all 0.7.0-6 [14.8 kB] 164s Get:136 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pexpect all 4.9-3 [48.1 kB] 164s Get:137 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ipython all 8.29.0-1 [569 kB] 165s Get:138 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ipdb all 0.13.13-2 [15.4 kB] 165s Get:139 http://ftpmaster.internal/ubuntu plucky/universe arm64 mafft arm64 7.505-1 [756 kB] 165s Get:140 http://ftpmaster.internal/ubuntu plucky/universe arm64 raxml arm64 8.2.13+dfsg-1 [999 kB] 165s Get:141 http://ftpmaster.internal/ubuntu plucky/universe arm64 fasttree arm64 2.1.11-2 [164 kB] 165s Get:142 http://ftpmaster.internal/ubuntu plucky/universe arm64 vcftools arm64 0.1.16-3 [375 kB] 165s Get:143 http://ftpmaster.internal/ubuntu plucky/universe arm64 augur all 24.4.0-1 [238 kB] 165s Get:144 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mccabe all 0.7.0-1 [8678 B] 165s Get:145 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pycodestyle all 2.12.1-1 [30.1 kB] 165s Get:146 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyflakes all 3.2.0-2 [52.9 kB] 165s Get:147 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-flake8 all 7.1.1-2 [44.1 kB] 165s Get:148 http://ftpmaster.internal/ubuntu plucky/universe arm64 flake8 all 7.1.1-2 [6444 B] 165s Get:149 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mypy-extensions all 1.0.0-1 [6148 B] 165s Get:150 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-psutil arm64 5.9.8-2build3 [196 kB] 165s Get:151 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mypy arm64 1.13.0-1build1 [14.8 MB] 166s Get:152 http://ftpmaster.internal/ubuntu plucky/universe arm64 mypy all 1.13.0-1build1 [24.9 kB] 166s Get:153 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-freezegun all 1.5.1-1.1 [15.9 kB] 166s Get:154 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 166s Get:155 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 166s Get:156 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.3-1 [251 kB] 166s Get:157 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest-mock all 3.14.0-2 [11.7 kB] 167s Fetched 135 MB in 9s (14.9 MB/s) 167s Selecting previously unselected package libpython3.13-minimal:arm64. 167s (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 ... 80032 files and directories currently installed.) 167s Preparing to unpack .../000-libpython3.13-minimal_3.13.0-2_arm64.deb ... 167s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ... 167s Selecting previously unselected package python3.13-minimal. 167s Preparing to unpack .../001-python3.13-minimal_3.13.0-2_arm64.deb ... 167s Unpacking python3.13-minimal (3.13.0-2) ... 167s Selecting previously unselected package sgml-base. 167s Preparing to unpack .../002-sgml-base_1.31_all.deb ... 167s Unpacking sgml-base (1.31) ... 167s Selecting previously unselected package pigz. 167s Preparing to unpack .../003-pigz_2.8-1_arm64.deb ... 167s Unpacking pigz (2.8-1) ... 167s Selecting previously unselected package libblas3:arm64. 167s Preparing to unpack .../004-libblas3_3.12.0-3build2_arm64.deb ... 167s Unpacking libblas3:arm64 (3.12.0-3build2) ... 167s Selecting previously unselected package libgfortran5:arm64. 167s Preparing to unpack .../005-libgfortran5_14.2.0-8ubuntu1_arm64.deb ... 167s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ... 167s Selecting previously unselected package liblapack3:arm64. 167s Preparing to unpack .../006-liblapack3_3.12.0-3build2_arm64.deb ... 167s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 168s Selecting previously unselected package python3-numpy. 168s Preparing to unpack .../007-python3-numpy_1%3a1.26.4+ds-11ubuntu1_arm64.deb ... 168s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ... 168s Selecting previously unselected package libtcl8.6:arm64. 168s Preparing to unpack .../008-libtcl8.6_8.6.15+dfsg-2_arm64.deb ... 168s Unpacking libtcl8.6:arm64 (8.6.15+dfsg-2) ... 168s Selecting previously unselected package fonts-dejavu-mono. 168s Preparing to unpack .../009-fonts-dejavu-mono_2.37-8_all.deb ... 168s Unpacking fonts-dejavu-mono (2.37-8) ... 168s Selecting previously unselected package fonts-dejavu-core. 168s Preparing to unpack .../010-fonts-dejavu-core_2.37-8_all.deb ... 168s Unpacking fonts-dejavu-core (2.37-8) ... 168s Selecting previously unselected package libfontenc1:arm64. 168s Preparing to unpack .../011-libfontenc1_1%3a1.1.8-1build1_arm64.deb ... 168s Unpacking libfontenc1:arm64 (1:1.1.8-1build1) ... 168s Selecting previously unselected package x11-common. 168s Preparing to unpack .../012-x11-common_1%3a7.7+23ubuntu3_all.deb ... 168s Unpacking x11-common (1:7.7+23ubuntu3) ... 168s Selecting previously unselected package xfonts-encodings. 168s Preparing to unpack .../013-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 168s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 168s Selecting previously unselected package xfonts-utils. 168s Preparing to unpack .../014-xfonts-utils_1%3a7.7+7_arm64.deb ... 168s Unpacking xfonts-utils (1:7.7+7) ... 168s Selecting previously unselected package fonts-urw-base35. 168s Preparing to unpack .../015-fonts-urw-base35_20200910-8_all.deb ... 168s Unpacking fonts-urw-base35 (20200910-8) ... 168s Selecting previously unselected package fontconfig-config. 168s Preparing to unpack .../016-fontconfig-config_2.15.0-1.1ubuntu2_arm64.deb ... 169s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 169s Selecting previously unselected package libfontconfig1:arm64. 169s Preparing to unpack .../017-libfontconfig1_2.15.0-1.1ubuntu2_arm64.deb ... 169s Unpacking libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ... 169s Selecting previously unselected package libxrender1:arm64. 169s Preparing to unpack .../018-libxrender1_1%3a0.9.10-1.1build1_arm64.deb ... 169s Unpacking libxrender1:arm64 (1:0.9.10-1.1build1) ... 169s Selecting previously unselected package libxft2:arm64. 169s Preparing to unpack .../019-libxft2_2.3.6-1build1_arm64.deb ... 169s Unpacking libxft2:arm64 (2.3.6-1build1) ... 169s Selecting previously unselected package libxss1:arm64. 169s Preparing to unpack .../020-libxss1_1%3a1.2.3-1build3_arm64.deb ... 169s Unpacking libxss1:arm64 (1:1.2.3-1build3) ... 169s Selecting previously unselected package libtk8.6:arm64. 169s Preparing to unpack .../021-libtk8.6_8.6.15-1_arm64.deb ... 169s Unpacking libtk8.6:arm64 (8.6.15-1) ... 169s Selecting previously unselected package python3.12-tk. 169s Preparing to unpack .../022-python3.12-tk_3.12.7-3_arm64.deb ... 169s Unpacking python3.12-tk (3.12.7-3) ... 169s Selecting previously unselected package python3.13-tk. 169s Preparing to unpack .../023-python3.13-tk_3.13.0-2_arm64.deb ... 169s Unpacking python3.13-tk (3.13.0-2) ... 169s Selecting previously unselected package tk8.6-blt2.5. 169s Preparing to unpack .../024-tk8.6-blt2.5_2.5.3+dfsg-7build1_arm64.deb ... 169s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 169s Selecting previously unselected package blt. 169s Preparing to unpack .../025-blt_2.5.3+dfsg-7build1_arm64.deb ... 169s Unpacking blt (2.5.3+dfsg-7build1) ... 169s Selecting previously unselected package python3-tk:arm64. 169s Preparing to unpack .../026-python3-tk_3.12.7-1_arm64.deb ... 169s Unpacking python3-tk:arm64 (3.12.7-1) ... 169s Selecting previously unselected package python3-pil.imagetk:arm64. 169s Preparing to unpack .../027-python3-pil.imagetk_10.4.0-1ubuntu2_arm64.deb ... 169s Unpacking python3-pil.imagetk:arm64 (10.4.0-1ubuntu2) ... 169s Selecting previously unselected package libgomp1:arm64. 169s Preparing to unpack .../028-libgomp1_14.2.0-8ubuntu1_arm64.deb ... 169s Unpacking libgomp1:arm64 (14.2.0-8ubuntu1) ... 169s Selecting previously unselected package libimagequant0:arm64. 169s Preparing to unpack .../029-libimagequant0_2.18.0-1build1_arm64.deb ... 169s Unpacking libimagequant0:arm64 (2.18.0-1build1) ... 169s Selecting previously unselected package libjpeg-turbo8:arm64. 169s Preparing to unpack .../030-libjpeg-turbo8_2.1.5-3ubuntu2_arm64.deb ... 169s Unpacking libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ... 169s Selecting previously unselected package libjpeg8:arm64. 169s Preparing to unpack .../031-libjpeg8_8c-2ubuntu11_arm64.deb ... 169s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ... 169s Selecting previously unselected package liblcms2-2:arm64. 169s Preparing to unpack .../032-liblcms2-2_2.16-2_arm64.deb ... 169s Unpacking liblcms2-2:arm64 (2.16-2) ... 169s Selecting previously unselected package libopenjp2-7:arm64. 169s Preparing to unpack .../033-libopenjp2-7_2.5.0-2ubuntu1_arm64.deb ... 169s Unpacking libopenjp2-7:arm64 (2.5.0-2ubuntu1) ... 169s Selecting previously unselected package libgraphite2-3:arm64. 169s Preparing to unpack .../034-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ... 169s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 169s Selecting previously unselected package libharfbuzz0b:arm64. 169s Preparing to unpack .../035-libharfbuzz0b_10.0.1-1_arm64.deb ... 169s Unpacking libharfbuzz0b:arm64 (10.0.1-1) ... 169s Selecting previously unselected package libraqm0:arm64. 169s Preparing to unpack .../036-libraqm0_0.10.1-1build1_arm64.deb ... 169s Unpacking libraqm0:arm64 (0.10.1-1build1) ... 169s Selecting previously unselected package libdeflate0:arm64. 169s Preparing to unpack .../037-libdeflate0_1.22-1_arm64.deb ... 169s Unpacking libdeflate0:arm64 (1.22-1) ... 169s Selecting previously unselected package libjbig0:arm64. 169s Preparing to unpack .../038-libjbig0_2.1-6.1ubuntu2_arm64.deb ... 169s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ... 169s Selecting previously unselected package liblerc4:arm64. 170s Preparing to unpack .../039-liblerc4_4.0.0+ds-5ubuntu1_arm64.deb ... 170s Unpacking liblerc4:arm64 (4.0.0+ds-5ubuntu1) ... 170s Selecting previously unselected package libsharpyuv0:arm64. 170s Preparing to unpack .../040-libsharpyuv0_1.4.0-0.1_arm64.deb ... 170s Unpacking libsharpyuv0:arm64 (1.4.0-0.1) ... 170s Selecting previously unselected package libwebp7:arm64. 170s Preparing to unpack .../041-libwebp7_1.4.0-0.1_arm64.deb ... 170s Unpacking libwebp7:arm64 (1.4.0-0.1) ... 170s Selecting previously unselected package libtiff6:arm64. 170s Preparing to unpack .../042-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ... 170s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 170s Selecting previously unselected package libwebpdemux2:arm64. 170s Preparing to unpack .../043-libwebpdemux2_1.4.0-0.1_arm64.deb ... 170s Unpacking libwebpdemux2:arm64 (1.4.0-0.1) ... 170s Selecting previously unselected package libwebpmux3:arm64. 170s Preparing to unpack .../044-libwebpmux3_1.4.0-0.1_arm64.deb ... 170s Unpacking libwebpmux3:arm64 (1.4.0-0.1) ... 170s Selecting previously unselected package python3-pil:arm64. 170s Preparing to unpack .../045-python3-pil_10.4.0-1ubuntu2_arm64.deb ... 170s Unpacking python3-pil:arm64 (10.4.0-1ubuntu2) ... 170s Selecting previously unselected package libpixman-1-0:arm64. 170s Preparing to unpack .../046-libpixman-1-0_0.44.0-3_arm64.deb ... 170s Unpacking libpixman-1-0:arm64 (0.44.0-3) ... 170s Selecting previously unselected package libxcb-render0:arm64. 170s Preparing to unpack .../047-libxcb-render0_1.17.0-2_arm64.deb ... 170s Unpacking libxcb-render0:arm64 (1.17.0-2) ... 170s Selecting previously unselected package libxcb-shm0:arm64. 170s Preparing to unpack .../048-libxcb-shm0_1.17.0-2_arm64.deb ... 170s Unpacking libxcb-shm0:arm64 (1.17.0-2) ... 170s Selecting previously unselected package libcairo2:arm64. 170s Preparing to unpack .../049-libcairo2_1.18.2-2_arm64.deb ... 170s Unpacking libcairo2:arm64 (1.18.2-2) ... 170s Selecting previously unselected package python3-cairo. 170s Preparing to unpack .../050-python3-cairo_1.26.1-2build1_arm64.deb ... 170s Unpacking python3-cairo (1.26.1-2build1) ... 170s Selecting previously unselected package python3-freetype. 170s Preparing to unpack .../051-python3-freetype_2.5.1-1_all.deb ... 170s Unpacking python3-freetype (2.5.1-1) ... 170s Selecting previously unselected package python3-rlpycairo. 170s Preparing to unpack .../052-python3-rlpycairo_0.3.0-3_all.deb ... 170s Unpacking python3-rlpycairo (0.3.0-3) ... 170s Selecting previously unselected package python3-reportlab. 170s Preparing to unpack .../053-python3-reportlab_4.2.5-1_all.deb ... 170s Unpacking python3-reportlab (4.2.5-1) ... 170s Selecting previously unselected package xml-core. 170s Preparing to unpack .../054-xml-core_0.19_all.deb ... 170s Unpacking xml-core (0.19) ... 170s Selecting previously unselected package w3c-sgml-lib. 170s Preparing to unpack .../055-w3c-sgml-lib_1.3-3_all.deb ... 170s Unpacking w3c-sgml-lib (1.3-3) ... 170s Selecting previously unselected package python3-biopython. 170s Preparing to unpack .../056-python3-biopython_1.84+dfsg-4build1_arm64.deb ... 170s Unpacking python3-biopython (1.84+dfsg-4build1) ... 170s Selecting previously unselected package python3-six. 170s Preparing to unpack .../057-python3-six_1.16.0-7_all.deb ... 170s Unpacking python3-six (1.16.0-7) ... 170s Selecting previously unselected package python3-bcbio-gff. 170s Preparing to unpack .../058-python3-bcbio-gff_0.7.1-2_all.deb ... 170s Unpacking python3-bcbio-gff (0.7.1-2) ... 170s Selecting previously unselected package libsuitesparseconfig7:arm64. 170s Preparing to unpack .../059-libsuitesparseconfig7_1%3a7.8.3+dfsg-2_arm64.deb ... 170s Unpacking libsuitesparseconfig7:arm64 (1:7.8.3+dfsg-2) ... 171s Selecting previously unselected package libamd3:arm64. 171s Preparing to unpack .../060-libamd3_1%3a7.8.3+dfsg-2_arm64.deb ... 171s Unpacking libamd3:arm64 (1:7.8.3+dfsg-2) ... 171s Selecting previously unselected package libcamd3:arm64. 171s Preparing to unpack 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(1:7.8.3+dfsg-2) ... 171s Selecting previously unselected package python3-cvxopt. 171s Preparing to unpack .../072-python3-cvxopt_1.3.0+dfsg-1build8_arm64.deb ... 171s Unpacking python3-cvxopt (1.3.0+dfsg-1build8) ... 171s Selecting previously unselected package python3-isodate. 171s Preparing to unpack .../073-python3-isodate_0.7.0-1_all.deb ... 171s Unpacking python3-isodate (0.7.0-1) ... 171s Selecting previously unselected package python3-networkx. 171s Preparing to unpack .../074-python3-networkx_3.2.1-4ubuntu1_all.deb ... 171s Unpacking python3-networkx (3.2.1-4ubuntu1) ... 172s Selecting previously unselected package python3-packaging. 172s Preparing to unpack .../075-python3-packaging_24.2-1_all.deb ... 172s Unpacking python3-packaging (24.2-1) ... 172s Selecting previously unselected package python3-dateutil. 172s Preparing to unpack .../076-python3-dateutil_2.9.0-3_all.deb ... 172s Unpacking python3-dateutil (2.9.0-3) ... 172s Selecting previously unselected package python3-tz. 172s Preparing to unpack .../077-python3-tz_2024.1-2_all.deb ... 172s Unpacking python3-tz (2024.1-2) ... 172s Selecting previously unselected package python3-pandas-lib:arm64. 172s Preparing to unpack .../078-python3-pandas-lib_2.2.3+dfsg-5ubuntu1_arm64.deb ... 172s Unpacking python3-pandas-lib:arm64 (2.2.3+dfsg-5ubuntu1) ... 172s Selecting previously unselected package python3-pandas. 172s Preparing to unpack .../079-python3-pandas_2.2.3+dfsg-5ubuntu1_all.deb ... 172s Unpacking python3-pandas (2.2.3+dfsg-5ubuntu1) ... 172s Selecting previously unselected package python3-importlib-metadata. 172s Preparing to unpack .../080-python3-importlib-metadata_8.5.0-1_all.deb ... 172s Unpacking python3-importlib-metadata (8.5.0-1) ... 172s Selecting previously unselected package python3-pyfaidx. 172s Preparing to unpack .../081-python3-pyfaidx_0.8.1.3-1_all.deb ... 172s Unpacking python3-pyfaidx (0.8.1.3-1) ... 172s Selecting previously unselected package python3-pyfastx. 172s Preparing to unpack .../082-python3-pyfastx_2.1.0-2_arm64.deb ... 172s Unpacking python3-pyfastx (2.1.0-2) ... 172s Selecting previously unselected package python3-decorator. 172s Preparing to unpack .../083-python3-decorator_5.1.1-5_all.deb ... 172s Unpacking python3-decorator (5.1.1-5) ... 172s Selecting previously unselected package liblbfgsb0:arm64. 172s Preparing to unpack .../084-liblbfgsb0_3.0+dfsg.4-1build1_arm64.deb ... 172s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 173s Selecting previously unselected package python3-scipy. 173s Preparing to unpack .../085-python3-scipy_1.13.1-5ubuntu1_arm64.deb ... 173s Unpacking python3-scipy (1.13.1-5ubuntu1) ... 173s Selecting previously unselected package libjs-jquery. 173s Preparing to unpack .../086-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 173s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 173s Selecting previously unselected package libjs-jquery-ui. 173s Preparing to unpack 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python3-brotli (1.1.0-2build3) ... 174s Selecting previously unselected package python3-appdirs. 174s Preparing to unpack .../093-python3-appdirs_1.4.4-4_all.deb ... 174s Unpacking python3-appdirs (1.4.4-4) ... 174s Selecting previously unselected package python3-fs. 174s Preparing to unpack .../094-python3-fs_2.4.16-4_all.deb ... 174s Unpacking python3-fs (2.4.16-4) ... 174s Selecting previously unselected package libxslt1.1:arm64. 174s Preparing to unpack .../095-libxslt1.1_1.1.39-0exp1ubuntu1_arm64.deb ... 174s Unpacking libxslt1.1:arm64 (1.1.39-0exp1ubuntu1) ... 174s Selecting previously unselected package python3-lxml:arm64. 174s Preparing to unpack .../096-python3-lxml_5.3.0-1build1_arm64.deb ... 174s Unpacking python3-lxml:arm64 (5.3.0-1build1) ... 174s Selecting previously unselected package python3-lz4. 174s Preparing to unpack .../097-python3-lz4_4.0.2+dfsg-1build5_arm64.deb ... 174s Unpacking python3-lz4 (4.0.2+dfsg-1build5) ... 174s Selecting previously unselected package python3-mpmath. 174s Preparing to unpack .../098-python3-mpmath_1.3.0-1_all.deb ... 174s Unpacking python3-mpmath (1.3.0-1) ... 174s Selecting previously unselected package python3-sympy. 174s Preparing to unpack .../099-python3-sympy_1.13.3-1_all.deb ... 174s Unpacking python3-sympy (1.13.3-1) ... 174s Selecting previously unselected package python3-ufolib2. 174s Preparing to unpack .../100-python3-ufolib2_0.16.1+dfsg1-1_all.deb ... 174s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ... 174s Selecting previously unselected package python3-unicodedata2. 174s Preparing to unpack .../101-python3-unicodedata2_15.1.0+ds-1build2_arm64.deb ... 174s Unpacking python3-unicodedata2 (15.1.0+ds-1build2) ... 174s Selecting previously unselected package libpython3.13-stdlib:arm64. 174s Preparing to unpack .../102-libpython3.13-stdlib_3.13.0-2_arm64.deb ... 174s Unpacking libpython3.13-stdlib:arm64 (3.13.0-2) ... 174s Selecting previously unselected package python3.13. 174s Preparing to unpack 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... 175s Selecting previously unselected package python3-matplotlib. 175s Preparing to unpack .../109-python3-matplotlib_3.8.3-3ubuntu1_arm64.deb ... 175s Unpacking python3-matplotlib (3.8.3-3ubuntu1) ... 175s Selecting previously unselected package python3-treetime. 175s Preparing to unpack .../110-python3-treetime_0.11.4-1_all.deb ... 175s Unpacking python3-treetime (0.11.4-1) ... 175s Selecting previously unselected package python3-xopen. 175s Preparing to unpack .../111-python3-xopen_1.7.0-2_all.deb ... 175s Unpacking python3-xopen (1.7.0-2) ... 175s Selecting previously unselected package python3-jmespath. 175s Preparing to unpack .../112-python3-jmespath_1.0.1-1_all.deb ... 175s Unpacking python3-jmespath (1.0.1-1) ... 175s Selecting previously unselected package python3-botocore. 175s Preparing to unpack .../113-python3-botocore_1.34.46+repack-1ubuntu1_all.deb ... 175s Unpacking python3-botocore (1.34.46+repack-1ubuntu1) ... 176s Selecting previously unselected package python3-s3transfer. 176s Preparing to unpack .../114-python3-s3transfer_0.10.1-1ubuntu2_all.deb ... 176s Unpacking python3-s3transfer (0.10.1-1ubuntu2) ... 176s Selecting previously unselected package python3-boto3. 176s Preparing to unpack .../115-python3-boto3_1.34.46+dfsg-1ubuntu1_all.deb ... 176s Unpacking python3-boto3 (1.34.46+dfsg-1ubuntu1) ... 176s Selecting previously unselected package python3-dendropy. 176s Preparing to unpack .../116-python3-dendropy_4.6.1-1_all.deb ... 176s Unpacking python3-dendropy (4.6.1-1) ... 176s Selecting previously unselected package python3-schedule. 176s Preparing to unpack .../117-python3-schedule_1.2.2-1_all.deb ... 176s Unpacking python3-schedule (1.2.2-1) ... 176s Selecting previously unselected package python3-seaborn. 176s Preparing to unpack .../118-python3-seaborn_0.13.2-4_all.deb ... 176s Unpacking python3-seaborn (0.13.2-4) ... 176s Selecting previously unselected package python3-zstandard. 176s Preparing to unpack .../119-python3-zstandard_0.23.0-2build1_arm64.deb ... 176s Unpacking python3-zstandard (0.23.0-2build1) ... 176s Selecting previously unselected package python3-pygtrie. 176s Preparing to unpack .../120-python3-pygtrie_2.2-2_all.deb ... 176s Unpacking python3-pygtrie (2.2-2) ... 176s Selecting previously unselected package seqmagick. 176s Preparing to unpack .../121-seqmagick_0.8.6-3_all.deb ... 176s Unpacking seqmagick (0.8.6-3) ... 176s Selecting previously unselected package python3-parso. 176s Preparing to unpack .../122-python3-parso_0.8.3-1_all.deb ... 176s Unpacking python3-parso (0.8.3-1) ... 176s Selecting previously unselected package python3-typeshed. 176s Preparing to unpack .../123-python3-typeshed_0.0~git20231111.6764465-3_all.deb ... 176s Unpacking python3-typeshed (0.0~git20231111.6764465-3) ... 177s Selecting previously unselected package python3-jedi. 177s Preparing to unpack .../124-python3-jedi_0.19.1+ds1-1_all.deb ... 177s Unpacking python3-jedi (0.19.1+ds1-1) ... 177s Selecting previously unselected package python3-traitlets. 177s Preparing to unpack .../125-python3-traitlets_5.14.3+really5.14.3-1_all.deb ... 177s Unpacking python3-traitlets (5.14.3+really5.14.3-1) ... 177s Selecting previously unselected package python3-matplotlib-inline. 177s Preparing to unpack .../126-python3-matplotlib-inline_0.1.6-2_all.deb ... 177s Unpacking python3-matplotlib-inline (0.1.6-2) ... 177s Selecting previously unselected package python3-wcwidth. 177s Preparing to unpack .../127-python3-wcwidth_0.2.13+dfsg1-1_all.deb ... 177s Unpacking python3-wcwidth (0.2.13+dfsg1-1) ... 177s Selecting previously unselected package python3-prompt-toolkit. 177s Preparing to unpack .../128-python3-prompt-toolkit_3.0.48-1_all.deb ... 177s Unpacking python3-prompt-toolkit (3.0.48-1) ... 177s Selecting previously unselected package python3-asttokens. 177s Preparing to unpack .../129-python3-asttokens_2.4.1-2_all.deb ... 177s Unpacking python3-asttokens (2.4.1-2) ... 177s 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178s Unpacking augur (24.4.0-1) ... 178s Selecting previously unselected package python3-mccabe. 178s Preparing to unpack .../142-python3-mccabe_0.7.0-1_all.deb ... 178s Unpacking python3-mccabe (0.7.0-1) ... 178s Selecting previously unselected package python3-pycodestyle. 178s Preparing to unpack .../143-python3-pycodestyle_2.12.1-1_all.deb ... 178s Unpacking python3-pycodestyle (2.12.1-1) ... 178s Selecting previously unselected package python3-pyflakes. 178s Preparing to unpack .../144-python3-pyflakes_3.2.0-2_all.deb ... 178s Unpacking python3-pyflakes (3.2.0-2) ... 178s Selecting previously unselected package python3-flake8. 178s Preparing to unpack .../145-python3-flake8_7.1.1-2_all.deb ... 178s Unpacking python3-flake8 (7.1.1-2) ... 178s Selecting previously unselected package flake8. 178s Preparing to unpack .../146-flake8_7.1.1-2_all.deb ... 178s Unpacking flake8 (7.1.1-2) ... 178s Selecting previously unselected package python3-mypy-extensions. 178s Preparing to unpack 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179s Selecting previously unselected package python3-pluggy. 179s Preparing to unpack .../153-python3-pluggy_1.5.0-1_all.deb ... 179s Unpacking python3-pluggy (1.5.0-1) ... 179s Selecting previously unselected package python3-pytest. 179s Preparing to unpack .../154-python3-pytest_8.3.3-1_all.deb ... 179s Unpacking python3-pytest (8.3.3-1) ... 179s Selecting previously unselected package python3-pytest-mock. 179s Preparing to unpack .../155-python3-pytest-mock_3.14.0-2_all.deb ... 179s Unpacking python3-pytest-mock (3.14.0-2) ... 179s Selecting previously unselected package autopkgtest-satdep. 179s Preparing to unpack .../156-1-autopkgtest-satdep.deb ... 179s Unpacking autopkgtest-satdep (0) ... 179s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 179s Setting up python3-schedule (1.2.2-1) ... 179s Setting up liblcms2-2:arm64 (2.16-2) ... 179s Setting up python3-iniconfig (1.1.1-2) ... 180s Setting up libpixman-1-0:arm64 (0.44.0-3) ... 180s Setting up vcftools (0.1.16-3) ... 180s 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(1:7.8.3+dfsg-2) ... 243s Setting up python3-ipdb (0.13.13-2) ... 243s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 243s Setting up python3-cairo (1.26.1-2build1) ... 243s Setting up python3-cvxopt (1.3.0+dfsg-1build8) ... 244s Setting up blt (2.5.3+dfsg-7build1) ... 244s Setting up python3-tk:arm64 (3.12.7-1) ... 244s Setting up python3-pil.imagetk:arm64 (10.4.0-1ubuntu2) ... 244s Setting up python3-rlpycairo (0.3.0-3) ... 244s Setting up python3-reportlab (4.2.5-1) ... 246s Setting up python3-fonttools (4.55.0-3) ... 248s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 248s Setting up python3-matplotlib (3.8.3-3ubuntu1) ... 251s Setting up python3-seaborn (0.13.2-4) ... 252s Processing triggers for systemd (256.5-2ubuntu4) ... 252s Processing triggers for man-db (2.13.0-1) ... 253s Processing triggers for libc-bin (2.40-1ubuntu3) ... 253s Processing triggers for sgml-base (1.31) ... 253s Setting up w3c-sgml-lib (1.3-3) ... 281s Setting up python3-biopython (1.84+dfsg-4build1) ... 283s Setting up python3-treetime (0.11.4-1) ... 283s Setting up seqmagick (0.8.6-3) ... 284s Setting up python3-bcbio-gff (0.7.1-2) ... 284s Setting up augur (24.4.0-1) ... 284s Setting up autopkgtest-satdep (0) ... 292s (Reading database ... 107976 files and directories currently installed.) 292s Removing autopkgtest-satdep (0) ... 292s autopkgtest [20:36:45]: test run-unit-test: [----------------------- 293s ============================= test session starts ============================== 293s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 293s cachedir: .pytest_cache 293s rootdir: /tmp/autopkgtest.FrEcXh/build.qJj/src 293s plugins: mock-3.14.0, typeguard-4.4.1 295s collecting ... collected 12 items / 25 errors 295s 295s ==================================== ERRORS ==================================== 295s _____________ ERROR collecting tests/dates/test_ambiguous_date.py ______________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/dates/test_ambiguous_date.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/dates/test_ambiguous_date.py:3: in 295s from augur.dates import ambiguous_date 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s __________________ ERROR collecting tests/dates/test_dates.py __________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/dates/test_dates.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/dates/test_dates.py:4: in 295s from augur import dates 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _____________ ERROR collecting tests/filter/test_relative_dates.py _____________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/filter/test_relative_dates.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/filter/test_relative_dates.py:12: in 295s from augur.filter import register_arguments 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _______________ ERROR collecting tests/filter/test_subsample.py ________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/filter/test_subsample.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/filter/test_subsample.py:4: in 295s import augur.filter.subsample 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ____________________ ERROR collecting tests/io/test_file.py ____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/io/test_file.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/io/test_file.py:2: in 295s import augur.io.file 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s __________________ ERROR collecting tests/io/test_metadata.py __________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/io/test_metadata.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/io/test_metadata.py:7: in 295s from augur.io.metadata import InvalidDelimiter, read_table_to_dict, read_metadata_with_sequences, write_records_to_tsv, Metadata 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _________________ ERROR collecting tests/io/test_sequences.py __________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/io/test_sequences.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/io/test_sequences.py:13: in 295s import augur.io.sequences 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ____________ ERROR collecting tests/io/test_shell_command_runner.py ____________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/io/test_shell_command_runner.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/io/test_shell_command_runner.py:5: in 295s from augur.io.shell_command_runner import ShellCommandRunner 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s __________________ ERROR collecting tests/io/test_strains.py ___________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/io/test_strains.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/io/test_strains.py:3: in 295s from augur.io.strains import read_strains 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ____________________ ERROR collecting tests/io/test_vcf.py _____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/io/test_vcf.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/io/test_vcf.py:2: in 295s import augur.io.vcf 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _____________________ ERROR collecting tests/test_align.py _____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_align.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_align.py:16: in 295s from augur import align 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ___________________ ERROR collecting tests/test_ancestral.py ___________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_ancestral.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_ancestral.py:1: in 295s from augur.ancestral import run_ancestral 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ____________________ ERROR collecting tests/test_clades.py _____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_clades.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_clades.py:4: in 295s from augur.clades import read_in_clade_definitions 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s __________________ ERROR collecting tests/test_frequencies.py __________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_frequencies.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_frequencies.py:14: in 295s from augur.dates import numeric_date 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _____________________ ERROR collecting tests/test_mask.py ______________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_mask.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_mask.py:15: in 295s from augur import mask 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _____________________ ERROR collecting tests/test_parse.py _____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_parse.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_parse.py:8: in 295s from augur import parse 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _________________ ERROR collecting tests/test_titer_models.py __________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_titer_models.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_titer_models.py:2: in 295s from augur.titer_model import TiterCollection 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ___________________ ERROR collecting tests/test_translate.py ___________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_translate.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_translate.py:13: in 295s from augur import translate 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _____________________ ERROR collecting tests/test_utils.py _____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_utils.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_utils.py:9: in 295s from augur import utils 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ___________________ ERROR collecting tests/test_validate.py ____________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_validate.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_validate.py:4: in 295s from augur.validate import ( 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ________________ ERROR collecting tests/test_validate_export.py ________________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/test_validate_export.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/test_validate_export.py:10: in 295s from augur.export_v2 import convert_tree_to_json_structure 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ___________ ERROR collecting tests/util_support/test_color_parser.py ___________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/util_support/test_color_parser.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/util_support/test_color_parser.py:1: in 295s from augur.util_support.color_parser import ColorParser 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s ____________ ERROR collecting tests/util_support/test_node_data.py _____________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/util_support/test_node_data.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/util_support/test_node_data.py:1: in 295s from augur.util_support.node_data import DuplicatedNonDictAttributeError 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s __________ ERROR collecting tests/util_support/test_node_data_file.py __________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/util_support/test_node_data_file.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/util_support/test_node_data_file.py:3: in 295s from augur.__version__ import __version__ 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s _________ ERROR collecting tests/util_support/test_node_data_reader.py _________ 295s ImportError while importing test module '/tmp/autopkgtest.FrEcXh/build.qJj/src/tests/util_support/test_node_data_reader.py'. 295s Hint: make sure your test modules/packages have valid Python names. 295s Traceback: 295s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 295s return _bootstrap._gcd_import(name[level:], package, level) 295s tests/util_support/test_node_data_reader.py:1: in 295s from augur.util_support.node_data_reader import NodeDataReader 295s augur/__init__.py:15: in 295s from .io.print import print_err 295s augur/io/__init__.py:6: in 295s from .metadata import read_metadata # noqa: F401 295s augur/io/metadata.py:5: in 295s import pyfastx 295s E ModuleNotFoundError: No module named 'pyfastx' 295s =========================== short test summary info ============================ 295s ERROR tests/dates/test_ambiguous_date.py 295s ERROR tests/dates/test_dates.py 295s ERROR tests/filter/test_relative_dates.py 295s ERROR tests/filter/test_subsample.py 295s ERROR tests/io/test_file.py 295s ERROR tests/io/test_metadata.py 295s ERROR tests/io/test_sequences.py 295s ERROR tests/io/test_shell_command_runner.py 295s ERROR tests/io/test_strains.py 295s ERROR tests/io/test_vcf.py 295s ERROR tests/test_align.py 295s ERROR tests/test_ancestral.py 295s ERROR tests/test_clades.py 295s ERROR tests/test_frequencies.py 295s ERROR tests/test_mask.py 295s ERROR tests/test_parse.py 295s ERROR tests/test_titer_models.py 295s ERROR tests/test_translate.py 295s ERROR tests/test_utils.py 295s ERROR tests/test_validate.py 295s ERROR tests/test_validate_export.py 295s ERROR tests/util_support/test_color_parser.py 295s ERROR tests/util_support/test_node_data.py 295s ERROR tests/util_support/test_node_data_file.py 295s ERROR tests/util_support/test_node_data_reader.py 295s !!!!!!!!!!!!!!!!!!! Interrupted: 25 errors during collection !!!!!!!!!!!!!!!!!!! 295s ============================== 25 errors in 2.34s ============================== 296s autopkgtest [20:36:49]: test run-unit-test: -----------------------] 296s run-unit-test FAIL non-zero exit status 2 296s autopkgtest [20:36:49]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 297s autopkgtest [20:36:50]: @@@@@@@@@@@@@@@@@@@@ summary 297s run-unit-test FAIL non-zero exit status 2 301s nova [W] Skipping flock in bos03-arm64 301s Creating nova instance adt-plucky-arm64-augur-20241123-203153-juju-7f2275-prod-proposed-migration-environment-20-0d48682b-8d72-4257-b432-5f20ce84b6bc from image adt/ubuntu-plucky-arm64-server-20241119.img (UUID 254dc414-4366-404b-b85c-a4e26b3194ad)...