0s autopkgtest [12:58:29]: starting date and time: 2024-11-15 12:58:29+0000 0s autopkgtest [12:58:29]: git checkout: 0acbae0a WIP show VirtSubproc stderr in real-time 0s autopkgtest [12:58:29]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work._27wguxt/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python-biopython --apt-upgrade python-treetime --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python-biopython/1.84+dfsg-4build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-5.secgroup --name adt-plucky-i386-python-treetime-20241115-125829-juju-7f2275-prod-proposed-migration-environment-2-9e992fa8-bad0-436f-bb9b-aeb49fbd6b59 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration-amd64 -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/ 41s autopkgtest [12:59:10]: testbed dpkg architecture: amd64 41s autopkgtest [12:59:10]: testbed apt version: 2.9.8 41s autopkgtest [12:59:10]: test architecture: i386 41s autopkgtest [12:59:10]: @@@@@@@@@@@@@@@@@@@@ test bed setup 42s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 42s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 42s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1052 kB] 42s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 42s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [94.5 kB] 42s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [176 kB] 43s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [109 kB] 43s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 43s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [831 kB] 43s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [295 kB] 43s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 43s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9416 B] 43s Fetched 2696 kB in 1s (3130 kB/s) 43s Reading package lists... 45s Reading package lists... 45s Building dependency tree... 45s Reading state information... 45s Calculating upgrade... 45s The following packages will be upgraded: 45s firmware-sof-signed grub-common grub-pc grub-pc-bin grub2-common libcap-ng0 45s libexpat1 lxd-installer man-db pastebinit python3-markupsafe python3-systemd 45s xfsprogs 46s 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 46s Need to get 13.6 MB of archives. 46s After this operation, 493 kB of additional disk space will be used. 46s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 46s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 46s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 46s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 46s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 grub2-common amd64 2.12-5ubuntu7 [672 kB] 46s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc amd64 2.12-5ubuntu7 [137 kB] 46s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc-bin amd64 2.12-5ubuntu7 [1127 kB] 46s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-common amd64 2.12-5ubuntu7 [2110 kB] 46s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 46s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 46s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build3 [13.0 kB] 46s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 46s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 47s Preconfiguring packages ... 47s Fetched 13.6 MB in 1s (13.6 MB/s) 47s (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 ... 75542 files and directories currently installed.) 47s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 47s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 47s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 47s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 47s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 47s (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 ... 75568 files and directories currently installed.) 47s Preparing to unpack .../00-libexpat1_2.6.4-1_amd64.deb ... 47s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 47s Preparing to unpack .../01-man-db_2.13.0-1_amd64.deb ... 47s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 47s Preparing to unpack .../02-grub2-common_2.12-5ubuntu7_amd64.deb ... 47s Unpacking grub2-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 47s Preparing to unpack .../03-grub-pc_2.12-5ubuntu7_amd64.deb ... 47s Unpacking grub-pc (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 47s Preparing to unpack .../04-grub-pc-bin_2.12-5ubuntu7_amd64.deb ... 47s Unpacking grub-pc-bin (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 47s Preparing to unpack .../05-grub-common_2.12-5ubuntu7_amd64.deb ... 47s Unpacking grub-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 48s Preparing to unpack .../06-lxd-installer_9_all.deb ... 48s Unpacking lxd-installer (9) over (8) ... 48s Preparing to unpack .../07-pastebinit_1.7.1-1_all.deb ... 48s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 48s Preparing to unpack .../08-python3-markupsafe_2.1.5-1build3_amd64.deb ... 48s Unpacking python3-markupsafe (2.1.5-1build3) over (2.1.5-1build2) ... 48s Preparing to unpack .../09-python3-systemd_235-1build5_amd64.deb ... 48s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 48s Preparing to unpack .../10-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 48s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 48s Setting up libexpat1:amd64 (2.6.4-1) ... 48s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 48s Setting up pastebinit (1.7.1-1) ... 48s Setting up man-db (2.13.0-1) ... 48s Updating database of manual pages ... 50s man-db.service is a disabled or a static unit not running, not starting it. 50s Setting up python3-markupsafe (2.1.5-1build3) ... 50s Setting up grub-common (2.12-5ubuntu7) ... 50s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 51s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 51s update-initramfs: deferring update (trigger activated) 51s Setting up lxd-installer (9) ... 51s Setting up python3-systemd (235-1build5) ... 51s Setting up grub2-common (2.12-5ubuntu7) ... 51s Setting up grub-pc-bin (2.12-5ubuntu7) ... 51s Setting up grub-pc (2.12-5ubuntu7) ... 52s Installing for i386-pc platform. 52s Installation finished. No error reported. 52s Sourcing file `/etc/default/grub' 52s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 52s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 52s Generating grub configuration file ... 52s Found linux image: /boot/vmlinuz-6.11.0-8-generic 52s Found initrd image: /boot/initrd.img-6.11.0-8-generic 52s Warning: os-prober will not be executed to detect other bootable partitions. 52s Systems on them will not be added to the GRUB boot configuration. 52s Check GRUB_DISABLE_OS_PROBER documentation entry. 52s Adding boot menu entry for UEFI Firmware Settings ... 52s done 52s Processing triggers for libc-bin (2.40-1ubuntu3) ... 52s Processing triggers for install-info (7.1.1-1) ... 52s Processing triggers for initramfs-tools (0.142ubuntu34) ... 52s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 52s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 60s Reading package lists... 60s Building dependency tree... 60s Reading state information... 60s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 61s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 61s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 61s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 61s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 62s Reading package lists... 62s Reading package lists... 62s Building dependency tree... 62s Reading state information... 62s Calculating upgrade... 62s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 62s Reading package lists... 62s Building dependency tree... 62s Reading state information... 63s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 63s autopkgtest [12:59:32]: rebooting testbed after setup commands that affected boot 67s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 80s autopkgtest [12:59:49]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 83s autopkgtest [12:59:52]: @@@@@@@@@@@@@@@@@@@@ apt-source python-treetime 85s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (dsc) [2611 B] 85s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (tar) [5117 kB] 85s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (tar) [1291 kB] 85s Get:4 http://ftpmaster.internal/ubuntu plucky/universe python-treetime 0.11.4-1 (diff) [8028 B] 85s gpgv: Signature made Sat Nov 9 21:31:47 2024 UTC 85s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 85s gpgv: issuer "emollier@debian.org" 85s gpgv: Can't check signature: No public key 85s dpkg-source: warning: cannot verify inline signature for ./python-treetime_0.11.4-1.dsc: no acceptable signature found 85s autopkgtest [12:59:54]: testing package python-treetime version 0.11.4-1 86s autopkgtest [12:59:55]: build not needed 87s autopkgtest [12:59:56]: test run-unit-test: preparing testbed 89s Note, using file '/tmp/autopkgtest.BCr2Ap/1-autopkgtest-satdep.dsc' to get the build dependencies 89s Reading package lists... 89s Building dependency tree... 89s Reading state information... 90s Starting pkgProblemResolver with broken count: 0 90s Starting 2 pkgProblemResolver with broken count: 0 90s Done 90s The following NEW packages will be installed: 90s blt build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 90s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx 90s fonts-urw-base35 g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc 90s gcc-14 gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libblas3 90s libcairo2 libcc1-0 libdeflate0 libfontconfig1 libfontenc1 libgcc-14-dev 90s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libimagequant0 90s libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery 90s libjs-jquery-ui liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 libmpc3 90s libopenjp2-7 libpixman-1-0 libqhull-r8.0 libquadmath0 libraqm0 libsharpyuv0 90s libstdc++-14-dev libtcl8.6 libtiff6 libtk8.6 libtsan2 libubsan1 libwebp7 90s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 90s libxslt1.1 libxss1 python-matplotlib-data python3-appdirs python3-biopython 90s python3-brotli python3-cairo python3-contourpy python3-cycler 90s python3-dateutil python3-decorator python3-fonttools python3-freetype 90s python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 90s python3-mpmath python3-numpy python3-packaging python3-pandas 90s python3-pandas-lib python3-pil python3-pil.imagetk python3-reportlab 90s python3-rlpycairo python3-scipy python3-six python3-sympy python3-tk 90s python3-treetime python3-tz python3-ufolib2 python3-unicodedata2 90s python3.12-tk sgml-base tk8.6-blt2.5 unicode-data w3c-sgml-lib x11-common 90s xfonts-encodings xfonts-utils xml-core 90s 0 upgraded, 109 newly installed, 0 to remove and 0 not upgraded. 90s Need to get 150 MB of archives. 90s After this operation, 563 MB of additional disk space will be used. 90s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 90s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1085 kB] 91s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 91s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 91s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 91s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 91s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 91s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 91s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 91s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 91s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 91s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 91s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 91s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 91s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.15-1 [862 kB] 91s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7build1 [630 kB] 91s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-7build1 [4840 B] 91s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 91s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 91s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 91s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 91s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 91s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 91s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 91s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 91s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 91s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 92s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 92s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 92s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 92s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 92s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 92s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 92s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 93s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 93s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 93s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 93s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 93s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 94s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 94s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 94s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 94s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 94s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.2.1-1 [171 kB] 94s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 94s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 94s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 94s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 94s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 94s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 94s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 94s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 94s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 94s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 94s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 94s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 94s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 94s Get:58 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 94s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 94s Get:60 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 94s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 94s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 94s Get:63 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 94s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 94s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 94s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 94s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 94s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 94s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 94s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 94s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu1 [169 kB] 94s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-3 [2928 kB] 94s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-appdirs all 1.4.4-4 [10.9 kB] 94s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 94s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.7-3 [116 kB] 94s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.12.6-1ubuntu1 [9806 B] 94s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 10.4.0-1ubuntu1 [9394 B] 94s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 94s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 94s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 94s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 94s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 94s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 94s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 94s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 94s Get:86 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-biopython amd64 1.84+dfsg-4build1 [1719 kB] 94s Get:87 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build2 [332 kB] 94s Get:88 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.0-2 [217 kB] 94s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B] 94s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.16.0-7 [13.1 kB] 94s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-2 [80.3 kB] 94s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 94s Get:93 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 95s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 95s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 95s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB] 96s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2024.1-2 [31.4 kB] 96s Get:98 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-4 [91.3 kB] 96s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.0-1 [1282 kB] 96s Get:100 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.0.2+dfsg-1build4 [26.2 kB] 96s Get:101 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-unicodedata2 amd64 15.1.0+ds-1build2 [360 kB] 96s Get:102 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB] 97s Get:103 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.46.0-1build2 [1436 kB] 97s Get:104 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-2build1 [70.3 kB] 97s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 97s Get:106 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-3 [4545 kB] 97s Get:107 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-5 [5087 kB] 97s Get:108 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-5 [3112 kB] 97s Get:109 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-treetime all 0.11.4-1 [941 kB] 98s Fetched 150 MB in 7s (21.2 MB/s) 98s Selecting previously unselected package sgml-base. 98s (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 ... 75576 files and directories currently installed.) 98s Preparing to unpack .../000-sgml-base_1.31_all.deb ... 98s Unpacking sgml-base (1.31) ... 98s Selecting previously unselected package libtcl8.6:amd64. 98s Preparing to unpack .../001-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... 98s Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... 98s Selecting previously unselected package fonts-dejavu-mono. 98s Preparing to unpack .../002-fonts-dejavu-mono_2.37-8_all.deb ... 98s Unpacking fonts-dejavu-mono (2.37-8) ... 98s Selecting previously unselected package fonts-dejavu-core. 98s Preparing to unpack .../003-fonts-dejavu-core_2.37-8_all.deb ... 98s Unpacking fonts-dejavu-core (2.37-8) ... 98s Selecting previously unselected package libfontenc1:amd64. 98s Preparing to unpack .../004-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 98s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 98s Selecting previously unselected package x11-common. 98s Preparing to unpack .../005-x11-common_1%3a7.7+23ubuntu3_all.deb ... 98s Unpacking x11-common (1:7.7+23ubuntu3) ... 98s Selecting previously unselected package xfonts-encodings. 98s Preparing to unpack .../006-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 98s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 98s Selecting previously unselected package xfonts-utils. 98s Preparing to unpack .../007-xfonts-utils_1%3a7.7+7_amd64.deb ... 98s Unpacking xfonts-utils (1:7.7+7) ... 98s Selecting previously unselected package fonts-urw-base35. 98s Preparing to unpack .../008-fonts-urw-base35_20200910-8_all.deb ... 98s Unpacking fonts-urw-base35 (20200910-8) ... 98s Selecting previously unselected package fontconfig-config. 98s Preparing to unpack .../009-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 99s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 99s Selecting previously unselected package libfontconfig1:amd64. 99s Preparing to unpack .../010-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 99s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 99s Selecting previously unselected package libxrender1:amd64. 99s Preparing to unpack .../011-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 99s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 99s Selecting previously unselected package libxft2:amd64. 99s Preparing to unpack .../012-libxft2_2.3.6-1build1_amd64.deb ... 99s Unpacking libxft2:amd64 (2.3.6-1build1) ... 99s Selecting previously unselected package libxss1:amd64. 99s Preparing to unpack .../013-libxss1_1%3a1.2.3-1build3_amd64.deb ... 99s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 99s Selecting previously unselected package libtk8.6:amd64. 99s Preparing to unpack .../014-libtk8.6_8.6.15-1_amd64.deb ... 99s Unpacking libtk8.6:amd64 (8.6.15-1) ... 99s Selecting previously unselected package tk8.6-blt2.5. 99s Preparing to unpack .../015-tk8.6-blt2.5_2.5.3+dfsg-7build1_amd64.deb ... 99s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 99s Selecting previously unselected package blt. 99s Preparing to unpack .../016-blt_2.5.3+dfsg-7build1_amd64.deb ... 99s Unpacking blt (2.5.3+dfsg-7build1) ... 99s Selecting previously unselected package libisl23:amd64. 99s Preparing to unpack .../017-libisl23_0.27-1_amd64.deb ... 99s Unpacking libisl23:amd64 (0.27-1) ... 99s Selecting previously unselected package libmpc3:amd64. 99s Preparing to unpack .../018-libmpc3_1.3.1-1build2_amd64.deb ... 99s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 99s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 99s Preparing to unpack .../019-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package cpp-14. 99s Preparing to unpack .../020-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package cpp-x86-64-linux-gnu. 99s Preparing to unpack .../021-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 99s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 99s Selecting previously unselected package cpp. 99s Preparing to unpack .../022-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 99s Unpacking cpp (4:14.1.0-2ubuntu1) ... 99s Selecting previously unselected package libcc1-0:amd64. 99s Preparing to unpack .../023-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package libgomp1:amd64. 99s Preparing to unpack .../024-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package libitm1:amd64. 99s Preparing to unpack .../025-libitm1_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package libasan8:amd64. 99s Preparing to unpack .../026-libasan8_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package liblsan0:amd64. 99s Preparing to unpack .../027-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package libtsan2:amd64. 99s Preparing to unpack .../028-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package libubsan1:amd64. 99s Preparing to unpack .../029-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 99s Selecting previously unselected package libhwasan0:amd64. 99s Preparing to unpack .../030-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 99s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package libquadmath0:amd64. 100s Preparing to unpack .../031-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package libgcc-14-dev:amd64. 100s Preparing to unpack .../032-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 100s Preparing to unpack .../033-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package gcc-14. 100s Preparing to unpack .../034-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package gcc-x86-64-linux-gnu. 100s Preparing to unpack .../035-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 100s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 100s Selecting previously unselected package gcc. 100s Preparing to unpack .../036-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 100s Unpacking gcc (4:14.1.0-2ubuntu1) ... 100s Selecting previously unselected package libstdc++-14-dev:amd64. 100s Preparing to unpack .../037-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package g++-14-x86-64-linux-gnu. 100s Preparing to unpack .../038-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package g++-14. 100s Preparing to unpack .../039-g++-14_14.2.0-8ubuntu1_amd64.deb ... 100s Unpacking g++-14 (14.2.0-8ubuntu1) ... 100s Selecting previously unselected package g++-x86-64-linux-gnu. 100s Preparing to unpack .../040-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 100s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 100s Selecting previously unselected package g++. 100s Preparing to unpack .../041-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 100s Unpacking g++ (4:14.1.0-2ubuntu1) ... 100s Selecting previously unselected package build-essential. 100s Preparing to unpack .../042-build-essential_12.10ubuntu1_amd64.deb ... 100s Unpacking build-essential (12.10ubuntu1) ... 100s Selecting previously unselected package fonts-lyx. 100s Preparing to unpack .../043-fonts-lyx_2.4.2.1-1_all.deb ... 100s Unpacking fonts-lyx (2.4.2.1-1) ... 101s Selecting previously unselected package libblas3:amd64. 101s Preparing to unpack .../044-libblas3_3.12.0-3build2_amd64.deb ... 101s Unpacking libblas3:amd64 (3.12.0-3build2) ... 101s Selecting previously unselected package libpixman-1-0:amd64. 101s Preparing to unpack .../045-libpixman-1-0_0.44.0-3_amd64.deb ... 101s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 101s Selecting previously unselected package libxcb-render0:amd64. 101s Preparing to unpack .../046-libxcb-render0_1.17.0-2_amd64.deb ... 101s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 101s Selecting previously unselected package libxcb-shm0:amd64. 101s Preparing to unpack .../047-libxcb-shm0_1.17.0-2_amd64.deb ... 101s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 101s Selecting previously unselected package libcairo2:amd64. 101s Preparing to unpack .../048-libcairo2_1.18.2-2_amd64.deb ... 101s Unpacking libcairo2:amd64 (1.18.2-2) ... 101s Selecting previously unselected package libdeflate0:amd64. 101s Preparing to unpack .../049-libdeflate0_1.22-1_amd64.deb ... 101s Unpacking libdeflate0:amd64 (1.22-1) ... 101s Selecting previously unselected package libgfortran5:amd64. 101s Preparing to unpack .../050-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 101s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 101s Selecting previously unselected package libgraphite2-3:amd64. 101s Preparing to unpack .../051-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 101s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 101s Selecting previously unselected package libharfbuzz0b:amd64. 101s Preparing to unpack .../052-libharfbuzz0b_10.0.1-1_amd64.deb ... 101s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 101s Selecting previously unselected package libimagequant0:amd64. 101s Preparing to unpack .../053-libimagequant0_2.18.0-1build1_amd64.deb ... 101s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 101s Selecting previously unselected package libjpeg-turbo8:amd64. 101s Preparing to unpack .../054-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 101s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 101s Selecting previously unselected package libjpeg8:amd64. 101s Preparing to unpack .../055-libjpeg8_8c-2ubuntu11_amd64.deb ... 101s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 101s Selecting previously unselected package libjs-jquery. 101s Preparing to unpack .../056-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 101s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 101s Selecting previously unselected package libjs-jquery-ui. 101s Preparing to unpack .../057-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 101s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 101s Selecting previously unselected package liblapack3:amd64. 101s Preparing to unpack .../058-liblapack3_3.12.0-3build2_amd64.deb ... 101s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 101s Selecting previously unselected package liblbfgsb0:amd64. 101s Preparing to unpack .../059-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 101s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 101s Selecting previously unselected package liblcms2-2:amd64. 101s Preparing to unpack .../060-liblcms2-2_2.16-2_amd64.deb ... 101s Unpacking liblcms2-2:amd64 (2.16-2) ... 101s Selecting previously unselected package liblerc4:amd64. 101s Preparing to unpack .../061-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 101s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 101s Selecting previously unselected package libqhull-r8.0:amd64. 101s Preparing to unpack .../062-libqhull-r8.0_2020.2-6build1_amd64.deb ... 101s Unpacking libqhull-r8.0:amd64 (2020.2-6build1) ... 101s Selecting previously unselected package libraqm0:amd64. 101s Preparing to unpack .../063-libraqm0_0.10.1-1build1_amd64.deb ... 101s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 101s Selecting previously unselected package libsharpyuv0:amd64. 101s Preparing to unpack .../064-libsharpyuv0_1.4.0-0.1_amd64.deb ... 101s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 101s Selecting previously unselected package libjbig0:amd64. 101s Preparing to unpack .../065-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 101s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 101s Selecting previously unselected package libwebp7:amd64. 101s Preparing to unpack .../066-libwebp7_1.4.0-0.1_amd64.deb ... 101s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 101s Selecting previously unselected package libtiff6:amd64. 101s Preparing to unpack .../067-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 101s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 101s Selecting previously unselected package libwebpdemux2:amd64. 101s Preparing to unpack .../068-libwebpdemux2_1.4.0-0.1_amd64.deb ... 101s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 101s Selecting previously unselected package libwebpmux3:amd64. 101s Preparing to unpack .../069-libwebpmux3_1.4.0-0.1_amd64.deb ... 101s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 101s Selecting previously unselected package libxslt1.1:amd64. 101s Preparing to unpack .../070-libxslt1.1_1.1.39-0exp1ubuntu1_amd64.deb ... 101s Unpacking libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ... 101s Selecting previously unselected package python-matplotlib-data. 101s Preparing to unpack .../071-python-matplotlib-data_3.8.3-3_all.deb ... 101s Unpacking python-matplotlib-data 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unselected package libopenjp2-7:amd64. 102s Preparing to unpack .../077-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 102s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 102s Selecting previously unselected package python3-pil:amd64. 102s Preparing to unpack .../078-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 102s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 102s Selecting previously unselected package python3-cairo. 102s Preparing to unpack .../079-python3-cairo_1.26.1-2_amd64.deb ... 102s Unpacking python3-cairo (1.26.1-2) ... 102s Selecting previously unselected package python3-freetype. 102s Preparing to unpack .../080-python3-freetype_2.5.1-1_all.deb ... 102s Unpacking python3-freetype (2.5.1-1) ... 102s Selecting previously unselected package python3-rlpycairo. 102s Preparing to unpack .../081-python3-rlpycairo_0.3.0-3_all.deb ... 102s Unpacking python3-rlpycairo (0.3.0-3) ... 102s Selecting previously unselected package python3-reportlab. 102s Preparing to unpack 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previously unselected package python3-cycler. 102s Preparing to unpack .../088-python3-cycler_0.12.1-1_all.deb ... 102s Unpacking python3-cycler (0.12.1-1) ... 102s Selecting previously unselected package python3-six. 102s Preparing to unpack .../089-python3-six_1.16.0-7_all.deb ... 102s Unpacking python3-six (1.16.0-7) ... 102s Selecting previously unselected package python3-dateutil. 102s Preparing to unpack .../090-python3-dateutil_2.9.0-2_all.deb ... 102s Unpacking python3-dateutil (2.9.0-2) ... 102s Selecting previously unselected package python3-decorator. 102s Preparing to unpack .../091-python3-decorator_5.1.1-5_all.deb ... 102s Unpacking python3-decorator (5.1.1-5) ... 102s Selecting previously unselected package python3-scipy. 102s Preparing to unpack .../092-python3-scipy_1.13.1-5_amd64.deb ... 102s Unpacking python3-scipy (1.13.1-5) ... 103s Selecting previously unselected package python3-ufolib2. 103s Preparing to unpack .../093-python3-ufolib2_0.16.1+dfsg1-1_all.deb ... 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... 110s Setting up liblapack3:amd64 (3.12.0-3build2) ... 110s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 110s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 111s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 111s Setting up xfonts-utils (1:7.7+7) ... 111s Setting up python3-fs (2.4.16-4) ... 111s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 111s Setting up libraqm0:amd64 (0.10.1-1build1) ... 111s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 111s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 112s Setting up cpp-14 (14.2.0-8ubuntu1) ... 112s Setting up python3-lxml:amd64 (5.3.0-1) ... 112s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 112s Setting up xml-core (0.19) ... 112s Setting up python3-contourpy (1.3.0-2) ... 113s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 113s Setting up libgcc-14-dev:amd64 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(3.12.6-1ubuntu1) ... 119s Setting up gcc-14 (14.2.0-8ubuntu1) ... 119s Setting up python3-pil.imagetk:amd64 (10.4.0-1ubuntu1) ... 119s Setting up python3-rlpycairo (0.3.0-3) ... 119s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 119s Setting up python3-reportlab (4.2.5-1) ... 120s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 120s Setting up g++-14 (14.2.0-8ubuntu1) ... 120s Setting up gcc (4:14.1.0-2ubuntu1) ... 120s Setting up g++ (4:14.1.0-2ubuntu1) ... 120s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 120s Setting up build-essential (12.10ubuntu1) ... 120s Setting up python3-fonttools (4.46.0-1build2) ... 121s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 121s Setting up python3-matplotlib (3.8.3-3) ... 122s Processing triggers for libc-bin (2.40-1ubuntu3) ... 122s Processing triggers for man-db (2.13.0-1) ... 123s Processing triggers for sgml-base (1.31) ... 123s Setting up w3c-sgml-lib (1.3-3) ... 145s Setting up python3-biopython (1.84+dfsg-4build1) ... 146s Setting up python3-treetime (0.11.4-1) ... 148s Reading package lists... 148s Building dependency tree... 148s Reading state information... 148s Starting pkgProblemResolver with broken count: 0 148s Starting 2 pkgProblemResolver with broken count: 0 148s Done 149s The following NEW packages will be installed: 149s autopkgtest-satdep 149s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 149s Need to get 0 B/700 B of archives. 149s After this operation, 0 B of additional disk space will be used. 149s Get:1 /tmp/autopkgtest.BCr2Ap/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B] 149s Selecting previously unselected package autopkgtest-satdep. 149s (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 ... 87579 files and directories currently installed.) 149s Preparing to unpack .../2-autopkgtest-satdep.deb ... 149s Unpacking autopkgtest-satdep (0) ... 149s Setting up autopkgtest-satdep (0) ... 151s (Reading database ... 87579 files and directories currently installed.) 151s Removing autopkgtest-satdep (0) ... 151s autopkgtest [13:01:00]: test run-unit-test: [----------------------- 152s 152s 0.00 -TreeAnc: set-up 152s read alignment from file h3n2_na/h3n2_na_20.fasta with 19 sequences of length 1407 152s read tree from file h3n2_na/h3n2_na_20.nwk with 19 leaves 152s 152s inferring ancestral sequences... 152s ...done. 152s 152s The TOTAL tree length is 1.311e-01 and 183 mutations were observed. 152s Of these 183 mutations, 152s - 148 occur 1 times 152s - 16 occur 2 times 152s - 1 occur 3 times 152s 152s Of the 1407 positions in the genome, 152s - 1237 were hit 0 times (expected 1235.40) 152s - 124 were hit 1 times (expected 160.68) 152s - 25 were hit 2 times (expected 10.45) 152s - 3 were hit 3 times (expected 0.45) 152s 152s log-likelihood difference to Poisson distribution with same mean: -1.226e+01 152s 152s 152s The ten most homoplasic mutations are: 152s mut multiplicity 152s G27A 3 152s A88G 2 152s A267G 2 152s G451R 2 152s G629A 2 152s C763T 2 152s G780A 2 152s C825T 2 152s C891A 2 152s C906T 2 153s homoplasy_scanning ok 153s 153s 0.00 -TreeAnc: set-up 153s 153s Inferred sequence evolution model (saved as 2024-11-15_ancestral/sequence_evolution_model.txt): 153s Substitution rate (mu): 1.0 153s 153s Equilibrium frequencies (pi_i): 153s A: 0.3062 153s C: 0.1925 153s G: 0.2336 153s T: 0.2577 153s -: 0.01 153s 153s Symmetrized rates from j->i (W_ij): 153s A C G T - 153s A 0 0.8311 2.7926 0.4496 1.0287 153s C 0.8311 0 0.577 2.8797 1.0535 153s G 2.7926 0.577 0 0.612 1.0437 153s T 0.4496 2.8797 0.612 0 1.0394 153s - 1.0287 1.0535 1.0437 1.0394 0 153s 153s Actual rates from j->i (Q_ij): 153s A C G T - 153s A 0 0.2545 0.8551 0.1377 0.315 153s C 0.16 0 0.1111 0.5543 0.2028 153s G 0.6523 0.1348 0 0.143 0.2438 153s T 0.1159 0.7421 0.1577 0 0.2678 153s - 0.0103 0.0106 0.0105 0.0104 0 153s 153s 153s --- alignment including ancestral nodes saved as 153s 2024-11-15_ancestral/ancestral_sequences.fasta 153s 153s --- tree saved in nexus format as 153s 2024-11-15_ancestral/annotated_tree.nexus 153s 153s --- tree saved in auspice json format as 153s 2024-11-15_ancestral/auspice_tree.json 153s 153s ancestral_reconstruction ok 155s 155s 0.00 -TreeAnc: set-up 155s 155s Attempting to parse dates... 155s Using column 'name' as name. This needs match the taxon names in the tree!! 155s Using column 'date' as date. 155s 155s 0.00 TreeTime.reroot: with method or node: least-squares 155s 155s 0.00 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 155s 155s 0.02 TreeTime.reroot: with method or node: least-squares 155s 155s 0.02 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 155s 155s 0.04 TreeTime.reroot: with method or node: least-squares 155s 155s 0.04 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 155s 155s Root-Tip-Regression: 155s --rate: 2.826e-03 155s --r^2: 0.98 155s 155s The R^2 value indicates the fraction of variation inroot-to-tip 155s distance explained by the sampling times.Higher values corresponds 155s more clock-like behavior (max 1.0). 155s 155s The rate is the slope of the best fit of the date tothe root-to-tip 155s distance and provides an estimate ofthe substitution rate. The rate 155s needs to be positive!Negative rates suggest an inappropriate root. 155s 155s 155s The estimated rate and tree correspond to a root date: 155s 155s --- root-date: 1996.75 155s 155s 155s --- new tree written to 155s 2024-11-15_clock/rerooted.newick 155s 155s --- wrote dates and root-to-tip distances to 155s 2024-11-15_clock/rtt.csv 155s 155s --- root-to-tip plot saved to 155s 2024-11-15_clock/root_to_tip_regression.pdf 155s temporal_signal ok 159s 159s Attempting to parse dates... 159s Using column 'name' as name. This needs match the taxon names in the tree!! 159s Using column 'date' as date. 159s 159s 0.00 -TreeAnc: set-up 159s 159s 0.08 TreeTime.reroot: with method or node: least-squares 159s 159s 0.08 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 159s 159s 0.09 TreeTime.reroot: with method or node: least-squares 159s 159s 0.09 TreeTime.reroot: rerooting will account for covariance and shared ancestry. 159s 159s 0.15 ###TreeTime.run: INITIAL ROUND 159s 159s 0.66 TreeTime.reroot: with method or node: least-squares 159s 159s 0.66 TreeTime.reroot: rerooting will account for covariance and shared ancestry. 159s 159s 0.68 ###TreeTime.run: rerunning timetree after rerooting 159s 159s 1.21 ###TreeTime.run: ITERATION 1 out of 2 iterations 159s 159s 1.21 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 159s polytomies using the old 'greedy' mode. This is not well suited for large 159s polytomies. Stochastic resolution will become the default in future 159s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 159s keep using the greedy method in the future, run with `--greedy-resolve` 159s 159s 1.75 ###TreeTime.run: CONVERGED 159s 159s 3.26 ###TreeTime.run: FINAL ROUND - confidence estimation via marginal 159s reconstruction 159s 159s Inferred sequence evolution model (saved as 2024-11-15_treetime/sequence_evolution_model.txt): 159s Substitution rate (mu): 1.0 159s 159s Equilibrium frequencies (pi_i): 159s A: 0.3088 159s C: 0.1897 159s G: 0.2335 159s T: 0.2581 159s -: 0.0099 159s 159s Symmetrized rates from j->i (W_ij): 159s A C G T - 159s A 0 0.7003 3.0669 0.2651 0.9742 159s C 0.7003 0 0.3354 3.399 0.999 159s G 3.0669 0.3354 0 0.4258 0.9892 159s T 0.2651 3.399 0.4258 0 0.9848 159s - 0.9742 0.999 0.9892 0.9848 0 159s 159s Actual rates from j->i (Q_ij): 159s A C G T - 159s A 0 0.2163 0.9472 0.0819 0.3009 159s C 0.1328 0 0.0636 0.6448 0.1895 159s G 0.716 0.0783 0 0.0994 0.2309 159s T 0.0684 0.8772 0.1099 0 0.2541 159s - 0.0097 0.0099 0.0098 0.0098 0 159s 159s 159s Inferred sequence evolution model (saved as 2024-11-15_treetime/molecular_clock.txt): 159s Root-Tip-Regression: 159s --rate: 2.653e-03 +/- 3.99e-04 (one std-dev) 159s --chi^2: 8.12 159s --r^2: 0.98 159s 159s --- saved tree as 159s 2024-11-15_treetime/timetree.pdf 159s 159s --- root-to-tip plot saved to 159s 2024-11-15_treetime/root_to_tip_regression.pdf 159s 159s --- alignment including ancestral nodes saved as 159s 2024-11-15_treetime/ancestral_sequences.fasta 159s 159s --- saved divergence times in 159s 2024-11-15_treetime/dates.tsv 159s 159s --- tree saved in nexus format as 159s 2024-11-15_treetime/timetree.nexus 159s 159s --- tree saved in auspice json format as 159s 2024-11-15_treetime/auspice_tree.json 159s 159s --- divergence tree saved in nexus format as 159s 2024-11-15_treetime/divergence_tree.nexus 159s 160s timetree_inference ok 160s /usr/lib/python3/dist-packages/treetime/wrappers.py:587: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]` 160s weight_dict = {row[0]:row[1] for ri,row in tmp_weights.iterrows() if not np.isnan(row[1])} 161s Using column '#name' as taxon name. This needs to match the taxa in the tree! 161s Assigned discrete traits to 86 out of 86 taxa. 161s 161s 161s Completed mugration model inference of attribute 'country' for zika/zika.nwk 161s 161s Saved inferred mugration model as: 2024-11-15_mugration/GTR.txt 161s Saved annotated tree as: 2024-11-15_mugration/annotated_tree.nexus 161s ---Done! 161s 161s mugration ok 201s 201s Attempting to parse dates... 201s Using column 'strain' as name. This needs match the taxon names in the tree!! 201s Using column 'date' as date. 201s 201s 0.00 -TreeAnc: set-up 201s 201s 4.86 TreeTime.reroot: with method or node: least-squares 201s 201s 4.86 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 201s 201s 4.99 TreeTime.reroot: with method or node: least-squares 201s 201s 4.99 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 201s 201s 5.79 ###TreeTime.run: INITIAL ROUND 201s 201s 11.96 TreeTime.reroot: with method or node: least-squares 201s 201s 11.96 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 201s 201s 12.08 ###TreeTime.run: rerunning timetree after rerooting 201s 201s 18.74 ###TreeTime.run: ITERATION 1 out of 2 iterations 201s 201s 18.74 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 201s polytomies using the old 'greedy' mode. This is not well suited for large 201s polytomies. Stochastic resolution will become the default in future 201s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 201s keep using the greedy method in the future, run with `--greedy-resolve` 201s 201s 27.45 ###TreeTime.run: ITERATION 2 out of 2 iterations 201s 201s 35.67 TreeTime: the following tips have been marked as outliers. Their date 201s constraints were not used. Please remove them from the tree. Their dates 201s have been reset: 201s 201s 35.67 G22619, input date: [2011.0013698630137, 2011.9986301369863], apparent 201s date: 1984.37 201s 201s 35.67 G22703, input date: [2004.0013661202186, 2004.9986338797814], apparent 201s date: 2012.13 201s 201s Inferred sequence evolution model (saved as 2024-11-15-0001_treetime/sequence_evolution_model.txt): 201s Substitution rate (mu): 1.0 201s 201s Equilibrium frequencies (pi_i): 201s A: 0.1669 201s C: 0.3286 201s G: 0.3273 201s T: 0.1669 201s -: 0.0103 201s 201s Symmetrized rates from j->i (W_ij): 201s A C G T - 201s A 0 0.7503 1.6498 0.3293 35.715 201s C 0.7503 0 0.3143 1.4206 35.828 201s G 1.6498 0.3143 0 0.7444 49.1987 201s T 0.3293 1.4206 0.7444 0 32.0824 201s - 35.715 35.828 49.1987 32.0824 0 201s 201s Actual rates from j->i (Q_ij): 201s A C G T - 201s A 0 0.1252 0.2754 0.055 5.9612 201s C 0.2465 0 0.1033 0.4668 11.7722 201s G 0.54 0.1029 0 0.2437 16.1039 201s T 0.055 0.2371 0.1242 0 5.3539 201s - 0.3682 0.3694 0.5072 0.3307 0 201s 201s 201s Inferred sequence evolution model (saved as 2024-11-15-0001_treetime/molecular_clock.txt): 201s Root-Tip-Regression: 201s --rate: 1.000e-07 201s --r^2: 0.41 201s 201s --- saved tree as 201s 2024-11-15-0001_treetime/timetree.pdf 201s 201s --- root-to-tip plot saved to 201s 2024-11-15-0001_treetime/root_to_tip_regression.pdf 201s Sites that were constant except for ambiguous bases were made constant 201s by TreeTime. This happened 1343 times. These sites are now excluded 201s from the VCF. 201s 201s ***WARNING: vcf_utils.py 201s 52 sites were found that had no alternative bases. If this data has 201s been run through TreeTime and contains ambiguous bases, try calling 201s get_tree_dict with var_ambigs=True to see if this clears the error. 201s Alternative causes: - Not all sequences in your alignment are in the 201s tree (if you are running TreeTime via commandline this is most likely) 201s - In TreeTime, can be caused by overwriting variants in tips with 201s small branch lengths (debug) These are the positions affected 201s (numbering starts at 0): 201s 46593, 52473, 165918, 304891, 662240, 954864, 954865, 954866, 954867, 201s 963561, 1046706, 1145470, 1321893, 1468105, 1468106, 1512661, 1704463, 201s 1716723, 1743968, 1951837, 2129868, 2215816, 2274543, 2515984, 201s 2580886, 2626512, 2626513, 2626599, 2686156, 2736331, 2823901, 201s 2869282, 2894207, 2911378, 3047997, 3160385, 3314001, 3321447, 201s 3336505, 3461793, 3490408, 3618189, 3734466, 3764813, 3828626, 201s 3842630, 3894439, 3912292, 3913650, 3956227, 4149358, 4183687 201s 201s --- alignment including ancestral nodes saved as 201s 2024-11-15-0001_treetime/ancestral_sequences.vcf 201s 201s --- saved divergence times in 201s 2024-11-15-0001_treetime/dates.tsv 201s 201s --- tree saved in nexus format as 201s 2024-11-15-0001_treetime/timetree.nexus 201s 201s --- tree saved in auspice json format as 201s 2024-11-15-0001_treetime/auspice_tree.json 201s 201s --- divergence tree saved in nexus format as 201s 2024-11-15-0001_treetime/divergence_tree.nexus 201s 201s --- saved detected outliers as 2024-11-15-0001_treetime/outliers.tsv 201s timetree_inference on vcf data ok 286s 286s Attempting to parse dates... 286s Using column 'name' as name. This needs match the taxon names in the tree!! 286s Using column 'date' as date. 286s 286s 0.00 -TreeAnc: set-up 286s 286s 2.59 -WARNING: character U is unknown. Treating it as missing information 286s 286s 10.23 TreeTime.reroot: with method or node: least-squares 286s 286s 10.23 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 286s 286s 10.59 TreeTime.reroot: with method or node: least-squares 286s 286s 10.59 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 286s 286s 15.40 ###TreeTime.run: INITIAL ROUND 286s 286s 23.47 TreeTime.reroot: with method or node: least-squares 286s 286s 23.47 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 286s 286s 23.79 ###TreeTime.run: rerunning timetree after rerooting 286s 286s 34.07 ###TreeTime.run: ITERATION 1 out of 2 iterations 286s 286s 34.57 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 286s polytomies using the old 'greedy' mode. This is not well suited for large 286s polytomies. Stochastic resolution will become the default in future 286s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 286s keep using the greedy method in the future, run with `--greedy-resolve` 286s 286s 50.53 ###TreeTime.run: ITERATION 2 out of 2 iterations 286s 286s 79.86 TreeTime: the following tips have been marked as outliers. Their date 286s constraints were not used. Please remove them from the tree. Their dates 286s have been reset: 286s 286s 79.86 EM_NG_2016_029366, input date: 2016.21, apparent date: 2015.06 286s 286s 79.86 EM_NG_2016_029364, input date: 2016.21, apparent date: 2015.06 286s 286s 79.86 EM_NG_2016_029417, input date: 2016.22, apparent date: 2015.06 286s 286s 79.86 NZG_0381, input date: 2016.23, apparent date: 2015.06 286s 286s 79.86 NZG_0393, input date: 2016.24, apparent date: 2015.10 286s 286s 79.86 NZG_0422, input date: 2016.25, apparent date: 2015.10 286s 286s 79.86 NZG_0358, input date: 2016.22, apparent date: 2015.10 286s 286s 79.86 2607_C2_12916_EMLH, input date: 2015.32, apparent date: 2015.37 286s 286s 79.86 2607_C2_12855_EMLH, input date: 2015.28, apparent date: 2015.37 286s 286s 79.86 1708_C1_13031_EMLH, input date: 2015.38, apparent date: 2015.48 286s 286s 79.86 1507_C1_18706_EMLH, input date: 2015.53, apparent date: 2015.75 286s 286s 79.86 1507_C1_18650_EMLH, input date: 2015.52, apparent date: 2015.75 286s 286s 79.86 0208_C1_MK10173, input date: 2015.58, apparent date: 2015.75 286s 286s 79.86 2208_C2_18659R_EMLH, input date: 2015.52, apparent date: 2015.88 286s 286s 79.86 1507_C1_13268_EMLH, input date: 2015.47, apparent date: 2015.82 286s 286s 79.86 1507_C1_18660_EMLH, input date: 2015.52, apparent date: 2015.82 286s 286s 79.86 1507_C1_18647_EMLH, input date: 2015.52, apparent date: 2015.68 286s 286s 79.86 2208_C2_18642R_EMLH, input date: 2015.51, apparent date: 2015.82 286s 286s 79.86 1507_C1_18636_EMLH, input date: 2015.51, apparent date: 2015.88 286s 286s 79.86 2208_C2_18687R_EMLH, input date: 2015.53, apparent date: 2015.88 286s 286s Inferred sequence evolution model (saved as 2024-11-15-0002_treetime/sequence_evolution_model.txt): 286s Substitution rate (mu): 1.0 286s 286s Equilibrium frequencies (pi_i): 286s A: 0.3139 286s C: 0.2145 286s G: 0.1979 286s T: 0.2639 286s -: 0.01 286s 286s Symmetrized rates from j->i (W_ij): 286s A C G T - 286s A 0 0.3828 2.529 0.2295 6.7698 286s C 0.3828 0 0.1692 3.5617 12.1437 286s G 2.529 0.1692 0 0.3726 5.2801 286s T 0.2295 3.5617 0.3726 0 27.6482 286s - 6.7698 12.1437 5.2801 27.6482 0 286s 286s Actual rates from j->i (Q_ij): 286s A C G T - 286s A 0 0.1202 0.7938 0.072 2.125 286s C 0.0821 0 0.0363 0.7638 2.6042 286s G 0.5004 0.0335 0 0.0737 1.0447 286s T 0.0606 0.9398 0.0983 0 7.2951 286s - 0.0674 0.1208 0.0525 0.2751 0 286s 286s 286s Inferred sequence evolution model (saved as 2024-11-15-0002_treetime/molecular_clock.txt): 286s Root-Tip-Regression: 286s --rate: 7.885e-04 286s --r^2: 0.80 286s 286s Inferred coalescent model 286s Skyline assuming 100.0 gen/year and approximate confidence bounds (+/- 2.000000 standard deviations of the LH) 286s date N_e lower upper 286s 2013.979 3.395e+01 1.395e+01 8.261e+01 286s 2014.075 5.982e+01 3.290e+01 1.088e+02 286s 2014.172 1.321e+02 8.193e+01 2.131e+02 286s 2014.268 1.281e+02 7.421e+01 2.211e+02 286s 2014.364 7.389e+01 4.578e+01 1.193e+02 286s 2014.461 2.217e+02 1.570e+02 3.131e+02 286s 2014.557 4.158e+02 2.935e+02 5.891e+02 286s 2014.653 2.612e+03 1.799e+03 3.792e+03 286s 2014.750 2.272e+03 1.379e+03 3.745e+03 286s 2014.846 1.219e+03 7.144e+02 2.081e+03 286s 2014.943 6.543e+02 4.037e+02 1.061e+03 286s 2015.039 3.865e+02 2.407e+02 6.205e+02 286s 2015.135 5.280e+02 3.416e+02 8.163e+02 286s 2015.232 3.448e+02 2.142e+02 5.549e+02 286s 2015.328 2.342e+02 1.457e+02 3.765e+02 286s 2015.424 1.673e+02 1.054e+02 2.656e+02 286s 2015.521 1.258e+02 7.747e+01 2.042e+02 286s 2015.617 1.281e+02 7.826e+01 2.096e+02 286s 2015.714 4.658e+01 2.477e+01 8.757e+01 286s 2015.810 1.540e+01 5.949e+00 3.989e+01 286s 286s --- written skyline to 2024-11-15-0002_treetime/skyline.tsv 286s 286s --- saved tree as 286s 2024-11-15-0002_treetime/timetree.pdf 286s 286s --- root-to-tip plot saved to 286s 2024-11-15-0002_treetime/root_to_tip_regression.pdf 286s 286s --- alignment including ancestral nodes saved as 286s 2024-11-15-0002_treetime/ancestral_sequences.fasta 286s 286s --- saved divergence times in 286s 2024-11-15-0002_treetime/dates.tsv 286s 286s --- tree saved in nexus format as 286s 2024-11-15-0002_treetime/timetree.nexus 286s 286s --- tree saved in auspice json format as 286s 2024-11-15-0002_treetime/auspice_tree.json 286s 286s --- divergence tree saved in nexus format as 286s 2024-11-15-0002_treetime/divergence_tree.nexus 286s 286s --- saved detected outliers as 2024-11-15-0002_treetime/outliers.tsv 286s skyline approximation ok 311s 311s Attempting to parse dates... 311s Using column 'name' as name. This needs match the taxon names in the tree!! 311s Using column 'date' as date. 311s 311s 0.00 -TreeAnc: set-up 311s 311s 0.05 TreeTime.reroot: with method or node: least-squares 311s 311s 0.05 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 311s 311s 0.48 TreeTime.reroot: with method or node: least-squares 311s 311s 0.48 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 311s 311s 0.80 ###TreeTime.run: INITIAL ROUND 311s 311s 7.96 TreeTime.reroot: with method or node: least-squares 311s 311s 7.96 TreeTime.reroot: rerooting will ignore covariance and shared ancestry. 311s 311s 8.28 ###TreeTime.run: rerunning timetree after rerooting 311s 311s 15.36 ###TreeTime.run: ITERATION 1 out of 2 iterations 311s 311s 15.36 DEPRECATION WARNING. TreeTime.resolve_polytomies: You are resolving 311s polytomies using the old 'greedy' mode. This is not well suited for large 311s polytomies. Stochastic resolution will become the default in future 311s versions. To switch now, rerun with the flag `--stochastic-resolve`. To 311s keep using the greedy method in the future, run with `--greedy-resolve` 311s 311s 22.74 ###TreeTime.run: CONVERGED 311s 311s 22.75 TreeTime: the following tips have been marked as outliers. Their date 311s constraints were not used. Please remove them from the tree. Their dates 311s have been reset: 311s 311s 22.75 NZG_0393, input date: 2016.24, apparent date: 2015.26 311s 311s 22.75 NZG_0422, input date: 2016.25, apparent date: 2015.26 311s 311s 22.75 NZG_0358, input date: 2016.22, apparent date: 2015.26 311s 311s 22.75 EM_NG_2016_029366, input date: 2016.21, apparent date: 2015.19 311s 311s 22.75 EM_NG_2016_029364, input date: 2016.21, apparent date: 2015.19 311s 311s 22.75 EM_NG_2016_029417, input date: 2016.22, apparent date: 2015.19 311s 311s 22.75 NZG_0381, input date: 2016.23, apparent date: 2015.19 311s 311s 22.75 1708_C1_13031_EMLH, input date: 2015.38, apparent date: 2015.40 311s 311s 22.75 1507_C1_18660_EMLH, input date: 2015.52, apparent date: 2015.81 311s 311s 22.75 2208_C2_18642R_EMLH, input date: 2015.51, apparent date: 2015.81 311s 311s 22.75 1507_C1_18636_EMLH, input date: 2015.51, apparent date: 2015.87 311s 311s 22.75 2208_C2_18687R_EMLH, input date: 2015.53, apparent date: 2015.87 311s 311s 22.75 1507_C1_18650_EMLH, input date: 2015.52, apparent date: 2015.74 311s 311s 22.75 1507_C1_13268_EMLH, input date: 2015.47, apparent date: 2015.81 311s 311s 22.75 1507_C1_18647_EMLH, input date: 2015.52, apparent date: 2015.68 311s 311s 22.75 0208_C1_MK10173, input date: 2015.58, apparent date: 2015.74 311s 311s 22.75 1507_C1_18706_EMLH, input date: 2015.53, apparent date: 2015.74 311s 311s 22.75 2208_C2_18659R_EMLH, input date: 2015.52, apparent date: 2015.87 311s 311s Inferred sequence evolution model (saved as 2024-11-15-0003_treetime/sequence_evolution_model.txt): 311s Substitution rate (mu): 1.0 311s 311s Equilibrium frequencies (pi_i): 311s A: 0.2 311s C: 0.2 311s G: 0.2 311s T: 0.2 311s -: 0.2 311s 311s Symmetrized rates from j->i (W_ij): 311s A C G T - 311s A 0 1.25 1.25 1.25 1.25 311s C 1.25 0 1.25 1.25 1.25 311s G 1.25 1.25 0 1.25 1.25 311s T 1.25 1.25 1.25 0 1.25 311s - 1.25 1.25 1.25 1.25 0 311s 311s Actual rates from j->i (Q_ij): 311s A C G T - 311s A 0 0.25 0.25 0.25 0.25 311s C 0.25 0 0.25 0.25 0.25 311s G 0.25 0.25 0 0.25 0.25 311s T 0.25 0.25 0.25 0 0.25 311s - 0.25 0.25 0.25 0.25 0 311s 311s 311s Inferred sequence evolution model (saved as 2024-11-15-0003_treetime/molecular_clock.txt): 311s Root-Tip-Regression: 311s --rate: 8.047e-04 311s --r^2: 0.79 311s 311s --- saved tree as 311s 2024-11-15-0003_treetime/timetree.pdf 311s 311s --- root-to-tip plot saved to 311s 2024-11-15-0003_treetime/root_to_tip_regression.pdf 311s --- saved divergence times in 311s 2024-11-15-0003_treetime/dates.tsv 311s 311s --- tree saved in nexus format as 311s 2024-11-15-0003_treetime/timetree.nexus 311s 311s --- tree saved in auspice json format as 311s 2024-11-15-0003_treetime/auspice_tree.json 311s 311s --- divergence tree saved in nexus format as 311s 2024-11-15-0003_treetime/divergence_tree.nexus 311s 311s --- saved detected outliers as 2024-11-15-0003_treetime/outliers.tsv 311s sequence length only ok 311s All tests passed 312s autopkgtest [13:03:41]: test run-unit-test: -----------------------] 312s autopkgtest [13:03:41]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 312s run-unit-test PASS 313s autopkgtest [13:03:42]: test autodep8-python3: preparing testbed 368s autopkgtest [13:04:37]: testbed dpkg architecture: amd64 368s autopkgtest [13:04:37]: testbed apt version: 2.9.8 368s autopkgtest [13:04:37]: test architecture: i386 368s autopkgtest [13:04:37]: @@@@@@@@@@@@@@@@@@@@ test bed setup 369s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 369s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1052 kB] 370s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 370s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 370s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [94.5 kB] 370s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [176 kB] 370s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [109 kB] 370s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 370s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [831 kB] 370s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [295 kB] 370s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 370s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9416 B] 370s Fetched 2696 kB in 1s (3190 kB/s) 370s Reading package lists... 372s Reading package lists... 372s Building dependency tree... 372s Reading state information... 373s Calculating upgrade... 373s The following packages will be upgraded: 373s firmware-sof-signed grub-common grub-pc grub-pc-bin grub2-common libcap-ng0 373s libexpat1 lxd-installer man-db pastebinit python3-markupsafe python3-systemd 373s xfsprogs 373s 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 373s Need to get 13.6 MB of archives. 373s After this operation, 493 kB of additional disk space will be used. 373s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 374s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 374s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 374s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 374s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 grub2-common amd64 2.12-5ubuntu7 [672 kB] 374s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc amd64 2.12-5ubuntu7 [137 kB] 374s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc-bin amd64 2.12-5ubuntu7 [1127 kB] 374s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-common amd64 2.12-5ubuntu7 [2110 kB] 374s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 374s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 374s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build3 [13.0 kB] 374s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 374s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 374s Preconfiguring packages ... 375s Fetched 13.6 MB in 1s (9332 kB/s) 375s (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 ... 75542 files and directories currently installed.) 375s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 375s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 375s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 375s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 375s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 375s (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 ... 75568 files and directories currently installed.) 375s Preparing to unpack .../00-libexpat1_2.6.4-1_amd64.deb ... 375s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 375s Preparing to unpack .../01-man-db_2.13.0-1_amd64.deb ... 375s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 375s Preparing to unpack .../02-grub2-common_2.12-5ubuntu7_amd64.deb ... 375s Unpacking grub2-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 375s Preparing to unpack .../03-grub-pc_2.12-5ubuntu7_amd64.deb ... 375s Unpacking grub-pc (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 375s Preparing to unpack .../04-grub-pc-bin_2.12-5ubuntu7_amd64.deb ... 375s Unpacking grub-pc-bin (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 375s Preparing to unpack .../05-grub-common_2.12-5ubuntu7_amd64.deb ... 376s Unpacking grub-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 376s Preparing to unpack .../06-lxd-installer_9_all.deb ... 376s Unpacking lxd-installer (9) over (8) ... 376s Preparing to unpack .../07-pastebinit_1.7.1-1_all.deb ... 376s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 376s Preparing to unpack .../08-python3-markupsafe_2.1.5-1build3_amd64.deb ... 376s Unpacking python3-markupsafe (2.1.5-1build3) over (2.1.5-1build2) ... 376s Preparing to unpack .../09-python3-systemd_235-1build5_amd64.deb ... 376s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 376s Preparing to unpack .../10-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 376s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 376s Setting up libexpat1:amd64 (2.6.4-1) ... 376s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 376s Setting up pastebinit (1.7.1-1) ... 376s Setting up man-db (2.13.0-1) ... 376s Updating database of manual pages ... 378s man-db.service is a disabled or a static unit not running, not starting it. 378s Setting up python3-markupsafe (2.1.5-1build3) ... 378s Setting up grub-common (2.12-5ubuntu7) ... 378s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 379s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 379s update-initramfs: deferring update (trigger activated) 379s Setting up lxd-installer (9) ... 380s Setting up python3-systemd (235-1build5) ... 380s Setting up grub2-common (2.12-5ubuntu7) ... 380s Setting up grub-pc-bin (2.12-5ubuntu7) ... 380s Setting up grub-pc (2.12-5ubuntu7) ... 380s Installing for i386-pc platform. 380s Installation finished. No error reported. 381s Sourcing file `/etc/default/grub' 381s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 381s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 381s Generating grub configuration file ... 381s Found linux image: /boot/vmlinuz-6.11.0-8-generic 381s Found initrd image: /boot/initrd.img-6.11.0-8-generic 381s Warning: os-prober will not be executed to detect other bootable partitions. 381s Systems on them will not be added to the GRUB boot configuration. 381s Check GRUB_DISABLE_OS_PROBER documentation entry. 381s Adding boot menu entry for UEFI Firmware Settings ... 381s done 381s Processing triggers for libc-bin (2.40-1ubuntu3) ... 381s Processing triggers for install-info (7.1.1-1) ... 381s Processing triggers for initramfs-tools (0.142ubuntu34) ... 381s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 381s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 389s Reading package lists... 389s Building dependency tree... 389s Reading state information... 389s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 390s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 390s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 390s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 390s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 391s Reading package lists... 391s Reading package lists... 391s Building dependency tree... 391s Reading state information... 391s Calculating upgrade... 391s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 391s Reading package lists... 392s Building dependency tree... 392s Reading state information... 392s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 392s autopkgtest [13:05:01]: rebooting testbed after setup commands that affected boot 414s Note, using file '/tmp/autopkgtest.BCr2Ap/3-autopkgtest-satdep.dsc' to get the build dependencies 414s Reading package lists... 414s Building dependency tree... 414s Reading state information... 415s Starting pkgProblemResolver with broken count: 0 415s Starting 2 pkgProblemResolver with broken count: 0 415s Done 415s The following NEW packages will be installed: 415s blt build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 415s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx 415s fonts-urw-base35 g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc 415s gcc-14 gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libblas3 415s libcairo2 libcc1-0 libdeflate0 libfontconfig1 libfontenc1 libgcc-14-dev 415s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libimagequant0 415s libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery 415s libjs-jquery-ui liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 libmpc3 415s libopenjp2-7 libpixman-1-0 libqhull-r8.0 libquadmath0 libraqm0 libsharpyuv0 415s libstdc++-14-dev libtcl8.6 libtiff6 libtk8.6 libtsan2 libubsan1 libwebp7 415s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 415s libxslt1.1 libxss1 python-matplotlib-data python3-all python3-appdirs 415s python3-biopython python3-brotli python3-cairo python3-contourpy 415s python3-cycler python3-dateutil python3-decorator python3-fonttools 415s python3-freetype python3-fs python3-kiwisolver python3-lxml python3-lz4 415s python3-matplotlib python3-mpmath python3-numpy python3-packaging 415s python3-pandas python3-pandas-lib python3-pil python3-pil.imagetk 415s python3-reportlab python3-rlpycairo python3-scipy python3-six python3-sympy 415s python3-tk python3-treetime python3-tz python3-ufolib2 python3.12-tk 415s sgml-base tk8.6-blt2.5 unicode-data w3c-sgml-lib x11-common xfonts-encodings 415s xfonts-utils xml-core 415s 0 upgraded, 109 newly installed, 0 to remove and 0 not upgraded. 415s Need to get 150 MB of archives. 415s After this operation, 561 MB of additional disk space will be used. 415s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 415s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1085 kB] 416s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 416s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 416s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 416s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 416s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 416s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 416s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 416s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 416s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 416s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 416s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 416s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 416s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.15-1 [862 kB] 416s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7build1 [630 kB] 416s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-7build1 [4840 B] 416s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 416s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 416s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 417s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 417s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 417s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 417s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 417s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 417s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 417s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 417s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 417s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 417s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 417s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 417s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 417s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 417s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 418s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 418s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 418s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 418s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 418s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 419s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 419s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 419s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 419s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 419s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.2.1-1 [171 kB] 419s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 419s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 419s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 419s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 419s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 419s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 419s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 419s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 419s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 419s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 419s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 419s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 419s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 419s Get:58 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 419s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 419s Get:60 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 419s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 419s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 419s Get:63 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 419s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 419s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 419s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 419s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 419s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 419s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 419s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 420s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu1 [169 kB] 420s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-3 [2928 kB] 420s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 420s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-appdirs all 1.4.4-4 [10.9 kB] 420s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 420s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.7-3 [116 kB] 420s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.12.6-1ubuntu1 [9806 B] 420s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 10.4.0-1ubuntu1 [9394 B] 420s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 420s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 420s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 420s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 420s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 420s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 420s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 420s Get:86 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 420s Get:87 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-biopython amd64 1.84+dfsg-4build1 [1719 kB] 420s Get:88 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build2 [332 kB] 420s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.0-2 [217 kB] 420s Get:90 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B] 420s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.16.0-7 [13.1 kB] 420s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-2 [80.3 kB] 420s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 420s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 421s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 421s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 421s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB] 421s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2024.1-2 [31.4 kB] 421s Get:99 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-4 [91.3 kB] 421s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.0-1 [1282 kB] 421s Get:101 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.0.2+dfsg-1build4 [26.2 kB] 421s Get:102 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB] 422s Get:103 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.46.0-1build2 [1436 kB] 422s Get:104 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-2build1 [70.3 kB] 422s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 422s Get:106 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-3 [4545 kB] 422s Get:107 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-5 [5087 kB] 423s Get:108 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-5 [3112 kB] 423s Get:109 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-treetime all 0.11.4-1 [941 kB] 423s Fetched 150 MB in 8s (19.6 MB/s) 423s Selecting previously unselected package sgml-base. 423s (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 ... 75576 files and directories currently installed.) 423s Preparing to unpack .../000-sgml-base_1.31_all.deb ... 423s Unpacking sgml-base (1.31) ... 423s Selecting previously unselected package libtcl8.6:amd64. 423s Preparing to unpack .../001-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... 423s Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... 423s Selecting previously unselected package fonts-dejavu-mono. 423s Preparing to unpack .../002-fonts-dejavu-mono_2.37-8_all.deb ... 423s Unpacking fonts-dejavu-mono (2.37-8) ... 423s Selecting previously unselected package fonts-dejavu-core. 423s Preparing to unpack .../003-fonts-dejavu-core_2.37-8_all.deb ... 423s Unpacking fonts-dejavu-core (2.37-8) ... 423s Selecting previously unselected package libfontenc1:amd64. 423s Preparing to unpack .../004-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 423s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 423s Selecting previously unselected package x11-common. 423s Preparing to unpack .../005-x11-common_1%3a7.7+23ubuntu3_all.deb ... 424s Unpacking x11-common (1:7.7+23ubuntu3) ... 424s Selecting previously unselected package xfonts-encodings. 424s Preparing to unpack .../006-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 424s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 424s Selecting previously unselected package xfonts-utils. 424s Preparing to unpack .../007-xfonts-utils_1%3a7.7+7_amd64.deb ... 424s Unpacking xfonts-utils (1:7.7+7) ... 424s Selecting previously unselected package fonts-urw-base35. 424s Preparing to unpack .../008-fonts-urw-base35_20200910-8_all.deb ... 424s Unpacking fonts-urw-base35 (20200910-8) ... 424s Selecting previously unselected package fontconfig-config. 424s Preparing to unpack .../009-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 424s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 424s Selecting previously unselected package libfontconfig1:amd64. 424s Preparing to unpack .../010-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 424s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 424s Selecting previously unselected package libxrender1:amd64. 424s Preparing to unpack .../011-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 424s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 424s Selecting previously unselected package libxft2:amd64. 424s Preparing to unpack .../012-libxft2_2.3.6-1build1_amd64.deb ... 424s Unpacking libxft2:amd64 (2.3.6-1build1) ... 424s Selecting previously unselected package libxss1:amd64. 424s Preparing to unpack .../013-libxss1_1%3a1.2.3-1build3_amd64.deb ... 424s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 424s Selecting previously unselected package libtk8.6:amd64. 424s Preparing to unpack .../014-libtk8.6_8.6.15-1_amd64.deb ... 424s Unpacking libtk8.6:amd64 (8.6.15-1) ... 424s Selecting previously unselected package tk8.6-blt2.5. 424s Preparing to unpack .../015-tk8.6-blt2.5_2.5.3+dfsg-7build1_amd64.deb ... 424s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 424s Selecting previously unselected package blt. 424s Preparing to unpack .../016-blt_2.5.3+dfsg-7build1_amd64.deb ... 424s Unpacking blt (2.5.3+dfsg-7build1) ... 424s Selecting previously unselected package libisl23:amd64. 424s Preparing to unpack .../017-libisl23_0.27-1_amd64.deb ... 424s Unpacking libisl23:amd64 (0.27-1) ... 424s Selecting previously unselected package libmpc3:amd64. 424s Preparing to unpack .../018-libmpc3_1.3.1-1build2_amd64.deb ... 424s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 424s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 424s Preparing to unpack .../019-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 424s Selecting previously unselected package cpp-14. 424s Preparing to unpack .../020-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 424s Selecting previously unselected package cpp-x86-64-linux-gnu. 424s Preparing to unpack .../021-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 424s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 424s Selecting previously unselected package cpp. 424s Preparing to unpack .../022-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 424s Unpacking cpp (4:14.1.0-2ubuntu1) ... 424s Selecting previously unselected package libcc1-0:amd64. 424s Preparing to unpack .../023-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 424s Selecting previously unselected package libgomp1:amd64. 424s Preparing to unpack .../024-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 424s Selecting previously unselected package libitm1:amd64. 424s Preparing to unpack .../025-libitm1_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 424s Selecting previously unselected package libasan8:amd64. 424s Preparing to unpack .../026-libasan8_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 424s Selecting previously unselected package liblsan0:amd64. 424s Preparing to unpack .../027-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 424s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package libtsan2:amd64. 425s Preparing to unpack .../028-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package libubsan1:amd64. 425s Preparing to unpack .../029-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package libhwasan0:amd64. 425s Preparing to unpack .../030-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package libquadmath0:amd64. 425s Preparing to unpack .../031-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package libgcc-14-dev:amd64. 425s Preparing to unpack .../032-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 425s Preparing to unpack .../033-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package gcc-14. 425s Preparing to unpack .../034-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package gcc-x86-64-linux-gnu. 425s Preparing to unpack .../035-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 425s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 425s Selecting previously unselected package gcc. 425s Preparing to unpack .../036-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 425s Unpacking gcc (4:14.1.0-2ubuntu1) ... 425s Selecting previously unselected package libstdc++-14-dev:amd64. 425s Preparing to unpack .../037-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package g++-14-x86-64-linux-gnu. 425s Preparing to unpack .../038-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package g++-14. 425s Preparing to unpack .../039-g++-14_14.2.0-8ubuntu1_amd64.deb ... 425s Unpacking g++-14 (14.2.0-8ubuntu1) ... 425s Selecting previously unselected package g++-x86-64-linux-gnu. 425s Preparing to unpack .../040-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 425s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 425s Selecting previously unselected package g++. 426s Preparing to unpack .../041-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 426s Unpacking g++ (4:14.1.0-2ubuntu1) ... 426s Selecting previously unselected package build-essential. 426s Preparing to unpack .../042-build-essential_12.10ubuntu1_amd64.deb ... 426s Unpacking build-essential (12.10ubuntu1) ... 426s Selecting previously unselected package fonts-lyx. 426s Preparing to unpack .../043-fonts-lyx_2.4.2.1-1_all.deb ... 426s Unpacking fonts-lyx (2.4.2.1-1) ... 426s Selecting previously unselected package libblas3:amd64. 426s Preparing to unpack .../044-libblas3_3.12.0-3build2_amd64.deb ... 426s Unpacking libblas3:amd64 (3.12.0-3build2) ... 426s Selecting previously unselected package libpixman-1-0:amd64. 426s Preparing to unpack .../045-libpixman-1-0_0.44.0-3_amd64.deb ... 426s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 426s Selecting previously unselected package libxcb-render0:amd64. 426s Preparing to unpack .../046-libxcb-render0_1.17.0-2_amd64.deb ... 426s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 426s Selecting previously unselected package libxcb-shm0:amd64. 426s Preparing to unpack .../047-libxcb-shm0_1.17.0-2_amd64.deb ... 426s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 426s Selecting previously unselected package libcairo2:amd64. 426s Preparing to unpack .../048-libcairo2_1.18.2-2_amd64.deb ... 426s Unpacking libcairo2:amd64 (1.18.2-2) ... 426s Selecting previously unselected package libdeflate0:amd64. 426s Preparing to unpack .../049-libdeflate0_1.22-1_amd64.deb ... 426s Unpacking libdeflate0:amd64 (1.22-1) ... 426s Selecting previously unselected package libgfortran5:amd64. 426s Preparing to unpack .../050-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 426s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 426s Selecting previously unselected package libgraphite2-3:amd64. 426s Preparing to unpack .../051-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 426s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 426s Selecting previously unselected package libharfbuzz0b:amd64. 426s Preparing to unpack .../052-libharfbuzz0b_10.0.1-1_amd64.deb ... 426s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 426s Selecting previously unselected package libimagequant0:amd64. 426s Preparing to unpack .../053-libimagequant0_2.18.0-1build1_amd64.deb ... 426s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 426s Selecting previously unselected package libjpeg-turbo8:amd64. 426s Preparing to unpack .../054-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 426s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 426s Selecting previously unselected package libjpeg8:amd64. 426s Preparing to unpack .../055-libjpeg8_8c-2ubuntu11_amd64.deb ... 426s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 426s Selecting previously unselected package libjs-jquery. 426s Preparing to unpack .../056-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 426s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 426s Selecting previously unselected package libjs-jquery-ui. 426s Preparing to unpack .../057-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 426s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 426s Selecting previously unselected package liblapack3:amd64. 426s Preparing to unpack .../058-liblapack3_3.12.0-3build2_amd64.deb ... 426s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 426s Selecting previously unselected package liblbfgsb0:amd64. 426s Preparing to unpack .../059-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 426s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 426s Selecting previously unselected package liblcms2-2:amd64. 426s Preparing to unpack .../060-liblcms2-2_2.16-2_amd64.deb ... 426s Unpacking liblcms2-2:amd64 (2.16-2) ... 426s Selecting previously unselected package liblerc4:amd64. 426s Preparing to unpack .../061-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 426s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 426s Selecting previously unselected package libqhull-r8.0:amd64. 426s Preparing to unpack .../062-libqhull-r8.0_2020.2-6build1_amd64.deb ... 426s Unpacking libqhull-r8.0:amd64 (2020.2-6build1) ... 426s Selecting previously unselected package libraqm0:amd64. 426s Preparing to unpack .../063-libraqm0_0.10.1-1build1_amd64.deb ... 426s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 426s Selecting previously unselected package libsharpyuv0:amd64. 426s Preparing to unpack .../064-libsharpyuv0_1.4.0-0.1_amd64.deb ... 426s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 426s Selecting previously unselected package libjbig0:amd64. 426s Preparing to unpack .../065-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 426s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 426s Selecting previously unselected package libwebp7:amd64. 426s Preparing to unpack .../066-libwebp7_1.4.0-0.1_amd64.deb ... 426s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 426s Selecting previously unselected package libtiff6:amd64. 426s Preparing to unpack .../067-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 426s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 426s Selecting previously unselected package libwebpdemux2:amd64. 426s Preparing to unpack .../068-libwebpdemux2_1.4.0-0.1_amd64.deb ... 426s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 426s Selecting previously unselected package libwebpmux3:amd64. 426s Preparing to unpack .../069-libwebpmux3_1.4.0-0.1_amd64.deb ... 426s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 426s Selecting previously unselected package libxslt1.1:amd64. 426s Preparing to unpack .../070-libxslt1.1_1.1.39-0exp1ubuntu1_amd64.deb ... 426s Unpacking libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ... 426s Selecting previously unselected package python-matplotlib-data. 426s Preparing to unpack .../071-python-matplotlib-data_3.8.3-3_all.deb ... 426s Unpacking python-matplotlib-data (3.8.3-3) ... 426s Selecting previously unselected package python3-all. 426s Preparing to unpack .../072-python3-all_3.12.6-0ubuntu1_amd64.deb ... 426s Unpacking python3-all (3.12.6-0ubuntu1) ... 426s Selecting previously unselected package python3-appdirs. 426s Preparing to unpack .../073-python3-appdirs_1.4.4-4_all.deb ... 426s Unpacking python3-appdirs (1.4.4-4) ... 426s Selecting previously unselected package python3-numpy. 426s Preparing to unpack .../074-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 426s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 427s Selecting previously unselected package python3.12-tk. 427s Preparing to unpack .../075-python3.12-tk_3.12.7-3_amd64.deb ... 427s Unpacking python3.12-tk (3.12.7-3) ... 427s Selecting previously unselected package python3-tk:amd64. 427s Preparing to unpack .../076-python3-tk_3.12.6-1ubuntu1_amd64.deb ... 427s Unpacking python3-tk:amd64 (3.12.6-1ubuntu1) ... 427s Selecting previously unselected package python3-pil.imagetk:amd64. 427s Preparing to unpack .../077-python3-pil.imagetk_10.4.0-1ubuntu1_amd64.deb ... 427s Unpacking python3-pil.imagetk:amd64 (10.4.0-1ubuntu1) ... 427s Selecting previously unselected package libopenjp2-7:amd64. 427s Preparing to unpack .../078-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 427s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 427s Selecting previously unselected package python3-pil:amd64. 427s Preparing to unpack .../079-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 427s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 427s Selecting previously unselected package python3-cairo. 427s Preparing to unpack .../080-python3-cairo_1.26.1-2_amd64.deb ... 427s Unpacking python3-cairo (1.26.1-2) ... 427s Selecting previously unselected package python3-freetype. 427s Preparing to unpack .../081-python3-freetype_2.5.1-1_all.deb ... 427s Unpacking python3-freetype (2.5.1-1) ... 427s Selecting previously unselected package python3-rlpycairo. 427s Preparing to unpack .../082-python3-rlpycairo_0.3.0-3_all.deb ... 427s Unpacking python3-rlpycairo (0.3.0-3) ... 427s Selecting previously unselected package python3-reportlab. 427s Preparing to unpack .../083-python3-reportlab_4.2.5-1_all.deb ... 427s Unpacking python3-reportlab (4.2.5-1) ... 427s Selecting previously unselected package xml-core. 427s Preparing to unpack .../084-xml-core_0.19_all.deb ... 427s Unpacking xml-core (0.19) ... 427s Selecting previously unselected package w3c-sgml-lib. 427s Preparing to unpack .../085-w3c-sgml-lib_1.3-3_all.deb ... 427s Unpacking w3c-sgml-lib (1.3-3) ... 427s Selecting previously unselected package python3-biopython. 427s Preparing to unpack .../086-python3-biopython_1.84+dfsg-4build1_amd64.deb ... 427s Unpacking python3-biopython (1.84+dfsg-4build1) ... 427s Selecting previously unselected package python3-brotli. 427s Preparing to unpack .../087-python3-brotli_1.1.0-2build2_amd64.deb ... 427s Unpacking python3-brotli (1.1.0-2build2) ... 427s Selecting previously unselected package python3-contourpy. 427s Preparing to unpack .../088-python3-contourpy_1.3.0-2_amd64.deb ... 427s Unpacking python3-contourpy (1.3.0-2) ... 427s Selecting previously unselected package python3-cycler. 427s Preparing to unpack .../089-python3-cycler_0.12.1-1_all.deb ... 427s Unpacking python3-cycler (0.12.1-1) ... 427s Selecting previously unselected package python3-six. 427s Preparing to unpack .../090-python3-six_1.16.0-7_all.deb ... 427s Unpacking python3-six (1.16.0-7) ... 427s Selecting previously unselected package python3-dateutil. 427s Preparing to unpack .../091-python3-dateutil_2.9.0-2_all.deb ... 427s Unpacking python3-dateutil (2.9.0-2) ... 427s Selecting previously unselected package python3-decorator. 427s Preparing to unpack .../092-python3-decorator_5.1.1-5_all.deb ... 427s Unpacking python3-decorator (5.1.1-5) ... 427s Selecting previously unselected package python3-scipy. 427s Preparing to unpack .../093-python3-scipy_1.13.1-5_amd64.deb ... 427s Unpacking python3-scipy (1.13.1-5) ... 428s Selecting previously unselected package python3-ufolib2. 428s Preparing to unpack .../094-python3-ufolib2_0.16.1+dfsg1-1_all.deb ... 428s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ... 428s Selecting previously unselected package python3-mpmath. 428s Preparing to unpack .../095-python3-mpmath_1.3.0-1_all.deb ... 428s Unpacking python3-mpmath (1.3.0-1) ... 428s Selecting previously unselected package python3-sympy. 428s Preparing to unpack .../096-python3-sympy_1.13.3-1_all.deb ... 428s Unpacking python3-sympy (1.13.3-1) ... 428s Selecting previously unselected package python3-tz. 428s Preparing to unpack .../097-python3-tz_2024.1-2_all.deb ... 428s Unpacking python3-tz (2024.1-2) ... 428s Selecting previously unselected package python3-fs. 428s Preparing to unpack .../098-python3-fs_2.4.16-4_all.deb ... 428s Unpacking python3-fs (2.4.16-4) ... 428s Selecting previously unselected package python3-lxml:amd64. 428s Preparing to unpack .../099-python3-lxml_5.3.0-1_amd64.deb ... 428s Unpacking python3-lxml:amd64 (5.3.0-1) ... 428s Selecting previously unselected package python3-lz4. 428s Preparing to unpack .../100-python3-lz4_4.0.2+dfsg-1build4_amd64.deb ... 428s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ... 428s Selecting previously unselected package unicode-data. 428s Preparing to unpack .../101-unicode-data_15.1.0-1_all.deb ... 428s Unpacking unicode-data (15.1.0-1) ... 428s Selecting previously unselected package python3-fonttools. 428s Preparing to unpack .../102-python3-fonttools_4.46.0-1build2_amd64.deb ... 428s Unpacking python3-fonttools (4.46.0-1build2) ... 428s Selecting previously unselected package python3-kiwisolver. 428s Preparing to unpack .../103-python3-kiwisolver_1.4.7-2build1_amd64.deb ... 428s Unpacking python3-kiwisolver (1.4.7-2build1) ... 428s Selecting previously unselected package python3-packaging. 428s Preparing to unpack .../104-python3-packaging_24.1-1_all.deb ... 428s Unpacking python3-packaging (24.1-1) ... 428s Selecting previously unselected package python3-matplotlib. 428s Preparing to unpack .../105-python3-matplotlib_3.8.3-3_amd64.deb ... 428s Unpacking python3-matplotlib (3.8.3-3) ... 429s Selecting previously unselected package python3-pandas-lib:amd64. 429s Preparing to unpack .../106-python3-pandas-lib_2.2.3+dfsg-5_amd64.deb ... 429s Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-5) ... 429s Selecting previously unselected package python3-pandas. 429s Preparing to unpack .../107-python3-pandas_2.2.3+dfsg-5_all.deb ... 429s Unpacking python3-pandas (2.2.3+dfsg-5) ... 429s Selecting previously unselected package python3-treetime. 429s Preparing to unpack .../108-python3-treetime_0.11.4-1_all.deb ... 429s Unpacking python3-treetime (0.11.4-1) ... 429s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 429s Setting up liblcms2-2:amd64 (2.16-2) ... 429s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 429s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 429s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 429s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 429s Setting up python3-lz4 (4.0.2+dfsg-1build4) ... 429s Setting up libxcb-render0:amd64 (1.17.0-2) ... 429s Setting up fonts-lyx (2.4.2.1-1) ... 429s Setting up x11-common (1:7.7+23ubuntu3) ... 429s Setting up libdeflate0:amd64 (1.22-1) ... 429s Setting up libqhull-r8.0:amd64 (2020.2-6build1) ... 429s Setting up python3-all (3.12.6-0ubuntu1) ... 429s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 429s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 429s Setting up python3-freetype (2.5.1-1) ... 429s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 429s Setting up python3-tz (2024.1-2) ... 430s Setting up unicode-data (15.1.0-1) ... 430s Setting up python3-six (1.16.0-7) ... 430s Setting up python3-decorator (5.1.1-5) ... 430s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 430s Setting up libblas3:amd64 (3.12.0-3build2) ... 430s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 430s Setting up python3-packaging (24.1-1) ... 430s Setting up python3-brotli (1.1.0-2build2) ... 430s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 430s Setting up libquadmath0:amd64 (14.2.0-8ubuntu1) ... 430s Setting up python3-cycler (0.12.1-1) ... 430s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 430s Setting up fonts-dejavu-mono (2.37-8) ... 430s Setting up python3-kiwisolver (1.4.7-2build1) ... 430s Setting up libmpc3:amd64 (1.3.1-1build2) ... 430s Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ... 430s Setting up fonts-dejavu-core (2.37-8) ... 430s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 430s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 430s Setting up libwebp7:amd64 (1.4.0-0.1) ... 430s Setting up libubsan1:amd64 (14.2.0-8ubuntu1) ... 430s Setting up libhwasan0:amd64 (14.2.0-8ubuntu1) ... 430s Setting up libasan8:amd64 (14.2.0-8ubuntu1) ... 430s Setting up libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ... 430s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 430s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 430s Setting up python3-dateutil (2.9.0-2) ... 430s Setting up sgml-base (1.31) ... 430s Setting up libxss1:amd64 (1:1.2.3-1build3) ... 430s Setting up libtsan2:amd64 (14.2.0-8ubuntu1) ... 430s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 430s Setting up python3-mpmath (1.3.0-1) ... 431s Setting up libisl23:amd64 (0.27-1) ... 431s Setting up python-matplotlib-data (3.8.3-3) ... 431s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 431s Setting up python3-appdirs (1.4.4-4) ... 431s Setting up libcc1-0:amd64 (14.2.0-8ubuntu1) ... 431s Setting up liblsan0:amd64 (14.2.0-8ubuntu1) ... 431s Setting up libitm1:amd64 (14.2.0-8ubuntu1) ... 431s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 431s Setting up python3-sympy (1.13.3-1) ... 435s Setting up liblapack3:amd64 (3.12.0-3build2) ... 435s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 435s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 436s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 436s Setting up xfonts-utils (1:7.7+7) ... 436s Setting up python3-fs (2.4.16-4) ... 436s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 436s Setting up libraqm0:amd64 (0.10.1-1build1) ... 436s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 436s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 437s Setting up cpp-14 (14.2.0-8ubuntu1) ... 437s Setting up python3-lxml:amd64 (5.3.0-1) ... 437s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 437s Setting up xml-core (0.19) ... 438s Setting up python3-contourpy (1.3.0-2) ... 438s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 438s Setting up libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 438s Setting up libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 438s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 438s Setting up cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 438s Setting up libxft2:amd64 (2.3.6-1build1) ... 438s Setting up python3-scipy (1.13.1-5) ... 440s Setting up libtk8.6:amd64 (8.6.15-1) ... 440s Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-5) ... 440s Setting up python3.12-tk (3.12.7-3) ... 440s Setting up fonts-urw-base35 (20200910-8) ... 440s Setting up libcairo2:amd64 (1.18.2-2) ... 440s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 441s Setting up python3-pandas (2.2.3+dfsg-5) ... 444s Setting up cpp (4:14.1.0-2ubuntu1) ... 444s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 444s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 444s Setting up python3-cairo (1.26.1-2) ... 444s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 444s Setting up blt (2.5.3+dfsg-7build1) ... 445s Setting up python3-tk:amd64 (3.12.6-1ubuntu1) ... 445s Setting up gcc-14 (14.2.0-8ubuntu1) ... 445s Setting up python3-pil.imagetk:amd64 (10.4.0-1ubuntu1) ... 445s Setting up python3-rlpycairo (0.3.0-3) ... 445s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 445s Setting up python3-reportlab (4.2.5-1) ... 445s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 445s Setting up g++-14 (14.2.0-8ubuntu1) ... 445s Setting up gcc (4:14.1.0-2ubuntu1) ... 445s Setting up g++ (4:14.1.0-2ubuntu1) ... 445s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 445s Setting up build-essential (12.10ubuntu1) ... 445s Setting up python3-fonttools (4.46.0-1build2) ... 446s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 446s Setting up python3-matplotlib (3.8.3-3) ... 447s Processing triggers for libc-bin (2.40-1ubuntu3) ... 447s Processing triggers for man-db (2.13.0-1) ... 449s Processing triggers for sgml-base (1.31) ... 449s Setting up w3c-sgml-lib (1.3-3) ... 472s Setting up python3-biopython (1.84+dfsg-4build1) ... 473s Setting up python3-treetime (0.11.4-1) ... 474s Reading package lists... 474s Building dependency tree... 474s Reading state information... 474s Starting pkgProblemResolver with broken count: 0 475s Starting 2 pkgProblemResolver with broken count: 0 475s Done 475s The following NEW packages will be installed: 475s autopkgtest-satdep 475s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 475s Need to get 0 B/696 B of archives. 475s After this operation, 0 B of additional disk space will be used. 475s Get:1 /tmp/autopkgtest.BCr2Ap/4-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [696 B] 475s Selecting previously unselected package autopkgtest-satdep. 475s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 87570 files and directories currently installed.) 475s Preparing to unpack .../4-autopkgtest-satdep.deb ... 475s Unpacking autopkgtest-satdep (0) ... 475s Setting up autopkgtest-satdep (0) ... 476s autopkgtest: WARNING: package python3-treetime:i386 is not installed though it should be 477s (Reading database ... 87570 files and directories currently installed.) 477s Removing autopkgtest-satdep (0) ... 480s autopkgtest [13:06:29]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import treetime; print(treetime)" ; done 480s autopkgtest [13:06:29]: test autodep8-python3: [----------------------- 480s Testing with python3.12: 480s 481s autopkgtest [13:06:30]: test autodep8-python3: -----------------------] 481s autodep8-python3 PASS (superficial) 481s autopkgtest [13:06:30]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 482s autopkgtest [13:06:31]: @@@@@@@@@@@@@@@@@@@@ summary 482s run-unit-test PASS 482s autodep8-python3 PASS (superficial) 494s virt: nova [W] Skipping flock for amd64 494s virt: Creating nova instance adt-plucky-i386-python-treetime-20241115-125829-juju-7f2275-prod-proposed-migration-environment-2-9e992fa8-bad0-436f-bb9b-aeb49fbd6b59 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)... 494s virt: nova [W] Skipping flock for amd64 494s virt: Creating nova instance adt-plucky-i386-python-treetime-20241115-125829-juju-7f2275-prod-proposed-migration-environment-2-9e992fa8-bad0-436f-bb9b-aeb49fbd6b59 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...