0s autopkgtest [11:17:24]: starting date and time: 2024-11-15 11:17:24+0000 0s autopkgtest [11:17:24]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [11:17:24]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.uvuoeqql/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:pyyaml --apt-upgrade idseq-bench --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=pyyaml/6.0.2-1build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-29.secgroup --name adt-plucky-i386-idseq-bench-20241115-111724-juju-7f2275-prod-proposed-migration-environment-20-dd2a7421-e763-48a9-9445-fc6c6452791a --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --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/ 344s autopkgtest [11:23:08]: testbed dpkg architecture: amd64 345s autopkgtest [11:23:09]: testbed apt version: 2.9.8 345s autopkgtest [11:23:09]: test architecture: i386 345s autopkgtest [11:23:09]: @@@@@@@@@@@@@@@@@@@@ test bed setup 346s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 346s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1056 kB] 346s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 346s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 346s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [94.5 kB] 346s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [176 kB] 346s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [109 kB] 346s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 346s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [833 kB] 346s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [297 kB] 346s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9416 B] 346s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 347s Fetched 2704 kB in 1s (3297 kB/s) 347s Reading package lists... 349s Reading package lists... 349s Building dependency tree... 349s Reading state information... 349s Calculating upgrade... 349s The following packages will be upgraded: 349s firmware-sof-signed grub-common grub-pc grub-pc-bin grub2-common libcap-ng0 349s libexpat1 lxd-installer man-db pastebinit python3-systemd python3-yaml 349s xfsprogs 350s 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 350s Need to get 13.8 MB of archives. 350s After this operation, 765 kB of additional disk space will be used. 350s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 350s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 350s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 350s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-yaml amd64 6.0.2-1build1 [187 kB] 350s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 350s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 grub2-common amd64 2.12-5ubuntu7 [672 kB] 351s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc amd64 2.12-5ubuntu7 [137 kB] 351s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc-bin amd64 2.12-5ubuntu7 [1127 kB] 351s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-common amd64 2.12-5ubuntu7 [2110 kB] 351s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 351s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 351s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 351s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 351s Preconfiguring packages ... 351s Fetched 13.8 MB in 1s (11.7 MB/s) 351s (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.) 351s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 351s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 351s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 351s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 351s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 351s (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.) 351s Preparing to unpack .../00-libexpat1_2.6.4-1_amd64.deb ... 351s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 351s Preparing to unpack .../01-python3-yaml_6.0.2-1build1_amd64.deb ... 352s Unpacking python3-yaml (6.0.2-1build1) over (6.0.2-1) ... 352s Preparing to unpack .../02-man-db_2.13.0-1_amd64.deb ... 352s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 352s Preparing to unpack .../03-grub2-common_2.12-5ubuntu7_amd64.deb ... 352s Unpacking grub2-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 352s Preparing to unpack .../04-grub-pc_2.12-5ubuntu7_amd64.deb ... 352s Unpacking grub-pc (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 352s Preparing to unpack .../05-grub-pc-bin_2.12-5ubuntu7_amd64.deb ... 352s Unpacking grub-pc-bin (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 352s Preparing to unpack .../06-grub-common_2.12-5ubuntu7_amd64.deb ... 352s Unpacking grub-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 352s Preparing to unpack .../07-lxd-installer_9_all.deb ... 352s Unpacking lxd-installer (9) over (8) ... 352s Preparing to unpack .../08-pastebinit_1.7.1-1_all.deb ... 352s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 352s Preparing to unpack .../09-python3-systemd_235-1build5_amd64.deb ... 352s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 352s Preparing to unpack .../10-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 352s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 352s Setting up libexpat1:amd64 (2.6.4-1) ... 352s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 352s Setting up pastebinit (1.7.1-1) ... 352s Setting up python3-yaml (6.0.2-1build1) ... 352s Setting up man-db (2.13.0-1) ... 353s Updating database of manual pages ... 354s man-db.service is a disabled or a static unit not running, not starting it. 354s Setting up grub-common (2.12-5ubuntu7) ... 354s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 355s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 355s update-initramfs: deferring update (trigger activated) 356s Setting up lxd-installer (9) ... 356s Setting up python3-systemd (235-1build5) ... 356s Setting up grub2-common (2.12-5ubuntu7) ... 356s Setting up grub-pc-bin (2.12-5ubuntu7) ... 356s Setting up grub-pc (2.12-5ubuntu7) ... 356s Installing for i386-pc platform. 357s Installation finished. No error reported. 357s Sourcing file `/etc/default/grub' 357s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 357s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 357s Generating grub configuration file ... 357s Found linux image: /boot/vmlinuz-6.11.0-8-generic 357s Found initrd image: /boot/initrd.img-6.11.0-8-generic 357s Warning: os-prober will not be executed to detect other bootable partitions. 357s Systems on them will not be added to the GRUB boot configuration. 357s Check GRUB_DISABLE_OS_PROBER documentation entry. 357s Adding boot menu entry for UEFI Firmware Settings ... 357s done 357s Processing triggers for libc-bin (2.40-1ubuntu3) ... 357s Processing triggers for install-info (7.1.1-1) ... 357s Processing triggers for initramfs-tools (0.142ubuntu34) ... 357s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 357s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 365s Reading package lists... 366s Building dependency tree... 366s Reading state information... 366s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 366s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 366s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 366s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 366s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 367s Reading package lists... 367s Reading package lists... 367s Building dependency tree... 367s Reading state information... 368s Calculating upgrade... 368s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 368s Reading package lists... 368s Building dependency tree... 368s Reading state information... 368s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 368s autopkgtest [11:23:32]: rebooting testbed after setup commands that affected boot 385s autopkgtest [11:23:49]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 388s autopkgtest [11:23:52]: @@@@@@@@@@@@@@@@@@@@ apt-source idseq-bench 389s Get:1 http://ftpmaster.internal/ubuntu plucky/universe idseq-bench 0.0~git20210602.27fb6dc-1 (dsc) [2356 B] 389s Get:2 http://ftpmaster.internal/ubuntu plucky/universe idseq-bench 0.0~git20210602.27fb6dc-1 (tar) [17.3 kB] 389s Get:3 http://ftpmaster.internal/ubuntu plucky/universe idseq-bench 0.0~git20210602.27fb6dc-1 (diff) [4432 B] 389s gpgv: Signature made Mon Jan 17 12:05:35 2022 UTC 389s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 389s gpgv: issuer "nilesh@debian.org" 389s gpgv: Can't check signature: No public key 389s dpkg-source: warning: cannot verify inline signature for ./idseq-bench_0.0~git20210602.27fb6dc-1.dsc: no acceptable signature found 389s autopkgtest [11:23:53]: testing package idseq-bench version 0.0~git20210602.27fb6dc-1 390s autopkgtest [11:23:54]: build not needed 390s autopkgtest [11:23:54]: test run-unit-test: preparing testbed 392s Note, using file '/tmp/autopkgtest.HkqOku/1-autopkgtest-satdep.dsc' to get the build dependencies 392s Reading package lists... 392s Building dependency tree... 392s Reading state information... 393s Starting pkgProblemResolver with broken count: 0 393s Starting 2 pkgProblemResolver with broken count: 0 393s Done 393s The following NEW packages will be installed: 393s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 393s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 g++ 393s g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 393s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu idseq-bench insilicoseq 393s libasan8 libblas3 libcairo2 libcc1-0 libdeflate0 libfontconfig1 libfontenc1 393s libgcc-14-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhts3t64 393s libhtscodecs2 libhwasan0 libimagequant0 libisl23 libitm1 libjbig0 393s libjpeg-turbo8 libjpeg8 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 393s libmpc3 libopenjp2-7 libpixman-1-0 libquadmath0 libraqm0 libsharpyuv0 393s libstdc++-14-dev libtiff6 libtsan2 libubsan1 libwebp7 libwebpdemux2 393s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 ncbi-acc-download 393s python3-all python3-biopython python3-cairo python3-decorator 393s python3-freetype python3-joblib python3-numpy python3-pil python3-pysam 393s python3-reportlab python3-rlpycairo python3-scipy python3-sklearn 393s python3-sklearn-lib python3-smart-open python3-threadpoolctl python3-wrapt 393s sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 393s 0 upgraded, 85 newly installed, 0 to remove and 0 not upgraded. 393s Need to get 127 MB of archives. 393s After this operation, 467 MB of additional disk space will be used. 393s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 393s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 394s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 394s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 395s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 395s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 395s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 395s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 395s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 395s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 395s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 395s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 395s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 395s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 395s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 396s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 396s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 396s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 398s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 398s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 398s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 398s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 398s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 399s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 399s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 399s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 399s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 399s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 399s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 399s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 399s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 399s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 399s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 399s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 400s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 400s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 400s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 400s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 401s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 401s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 401s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 401s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 401s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 401s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 401s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 401s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 401s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 401s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 401s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 401s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 401s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 401s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 401s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 401s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 401s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 401s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 401s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 401s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 401s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 401s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 401s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 401s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 401s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 401s Get:64 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 401s Get:65 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 401s Get:66 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 402s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 402s Get:68 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 402s Get:69 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4 [1714 kB] 402s Get:70 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 402s Get:71 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.20+ds-1 [439 kB] 402s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pysam amd64 0.22.1+ds-2 [3504 kB] 402s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 402s Get:74 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 402s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 404s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 insilicoseq all 2.0.1-1 [4247 kB] 404s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 ncbi-acc-download all 0.2.8-3 [13.3 kB] 404s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.3.2-5 [206 kB] 404s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 404s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-6 [3920 kB] 404s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn all 1.4.2+dfsg-6 [2257 kB] 404s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-wrapt amd64 1.15.0-3 [34.6 kB] 404s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-smart-open all 7.0.5-1 [89.9 kB] 404s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 idseq-bench all 0.0~git20210602.27fb6dc-1 [24.7 kB] 404s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 405s Fetched 127 MB in 11s (11.1 MB/s) 405s Selecting previously unselected package sgml-base. 405s (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.) 405s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 405s Unpacking sgml-base (1.31) ... 405s Selecting previously unselected package libisl23:amd64. 405s Preparing to unpack .../01-libisl23_0.27-1_amd64.deb ... 405s Unpacking libisl23:amd64 (0.27-1) ... 405s Selecting previously unselected package libmpc3:amd64. 405s Preparing to unpack .../02-libmpc3_1.3.1-1build2_amd64.deb ... 405s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 405s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 405s Preparing to unpack .../03-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 405s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 405s Selecting previously unselected package cpp-14. 405s Preparing to unpack .../04-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 405s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 405s Selecting previously unselected package cpp-x86-64-linux-gnu. 405s Preparing to unpack .../05-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 405s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 405s Selecting previously unselected package cpp. 405s Preparing to unpack .../06-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 405s Unpacking cpp (4:14.1.0-2ubuntu1) ... 405s Selecting previously unselected package libcc1-0:amd64. 405s Preparing to unpack .../07-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 405s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 405s Selecting previously unselected package libgomp1:amd64. 405s Preparing to unpack .../08-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 405s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 405s Selecting previously unselected package libitm1:amd64. 405s Preparing to unpack .../09-libitm1_14.2.0-8ubuntu1_amd64.deb ... 405s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 405s Selecting previously unselected package libasan8:amd64. 405s Preparing to unpack .../10-libasan8_14.2.0-8ubuntu1_amd64.deb ... 405s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package liblsan0:amd64. 406s Preparing to unpack .../11-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package libtsan2:amd64. 406s Preparing to unpack .../12-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package libubsan1:amd64. 406s Preparing to unpack .../13-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package libhwasan0:amd64. 406s Preparing to unpack .../14-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package libquadmath0:amd64. 406s Preparing to unpack .../15-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package libgcc-14-dev:amd64. 406s Preparing to unpack .../16-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 406s Preparing to unpack .../17-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package gcc-14. 406s Preparing to unpack .../18-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 406s Selecting previously unselected package gcc-x86-64-linux-gnu. 406s Preparing to unpack .../19-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 406s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 406s Selecting previously unselected package gcc. 406s Preparing to unpack .../20-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 406s Unpacking gcc (4:14.1.0-2ubuntu1) ... 406s Selecting previously unselected package libstdc++-14-dev:amd64. 406s Preparing to unpack .../21-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 406s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 407s Selecting previously unselected package g++-14-x86-64-linux-gnu. 407s Preparing to unpack .../22-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 407s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 407s Selecting previously unselected package g++-14. 407s Preparing to unpack .../23-g++-14_14.2.0-8ubuntu1_amd64.deb ... 407s Unpacking g++-14 (14.2.0-8ubuntu1) ... 407s Selecting previously unselected package g++-x86-64-linux-gnu. 407s Preparing to unpack .../24-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 407s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 407s Selecting previously unselected package g++. 407s Preparing to unpack .../25-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 407s Unpacking g++ (4:14.1.0-2ubuntu1) ... 407s Selecting previously unselected package build-essential. 407s Preparing to unpack .../26-build-essential_12.10ubuntu1_amd64.deb ... 407s Unpacking build-essential (12.10ubuntu1) ... 407s Selecting previously unselected package fonts-dejavu-mono. 407s Preparing to unpack .../27-fonts-dejavu-mono_2.37-8_all.deb ... 407s Unpacking fonts-dejavu-mono (2.37-8) ... 407s Selecting previously unselected package fonts-dejavu-core. 407s Preparing to unpack .../28-fonts-dejavu-core_2.37-8_all.deb ... 407s Unpacking fonts-dejavu-core (2.37-8) ... 407s Selecting previously unselected package libfontenc1:amd64. 407s Preparing to unpack .../29-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 407s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 407s Selecting previously unselected package x11-common. 407s Preparing to unpack .../30-x11-common_1%3a7.7+23ubuntu3_all.deb ... 407s Unpacking x11-common (1:7.7+23ubuntu3) ... 407s Selecting previously unselected package xfonts-encodings. 407s Preparing to unpack .../31-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 407s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 407s Selecting previously unselected package xfonts-utils. 407s Preparing to unpack .../32-xfonts-utils_1%3a7.7+7_amd64.deb ... 407s Unpacking xfonts-utils (1:7.7+7) ... 407s Selecting previously unselected package fonts-urw-base35. 407s Preparing to unpack .../33-fonts-urw-base35_20200910-8_all.deb ... 407s Unpacking fonts-urw-base35 (20200910-8) ... 407s Selecting previously unselected package fontconfig-config. 407s Preparing to unpack .../34-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 407s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 407s Selecting previously unselected package libblas3:amd64. 407s Preparing to unpack .../35-libblas3_3.12.0-3build2_amd64.deb ... 407s Unpacking libblas3:amd64 (3.12.0-3build2) ... 407s Selecting previously unselected package libgfortran5:amd64. 407s Preparing to unpack .../36-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 407s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 407s Selecting previously unselected package liblapack3:amd64. 407s Preparing to unpack .../37-liblapack3_3.12.0-3build2_amd64.deb ... 407s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 407s Selecting previously unselected package python3-numpy. 407s Preparing to unpack .../38-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 407s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 408s Selecting previously unselected package libimagequant0:amd64. 408s Preparing to unpack .../39-libimagequant0_2.18.0-1build1_amd64.deb ... 408s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 408s Selecting previously unselected package libjpeg-turbo8:amd64. 408s Preparing to unpack .../40-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 408s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 408s Selecting previously unselected package libjpeg8:amd64. 408s Preparing to unpack .../41-libjpeg8_8c-2ubuntu11_amd64.deb ... 408s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 408s Selecting previously unselected package liblcms2-2:amd64. 408s Preparing to unpack .../42-liblcms2-2_2.16-2_amd64.deb ... 408s Unpacking liblcms2-2:amd64 (2.16-2) ... 408s Selecting previously unselected package libopenjp2-7:amd64. 408s Preparing to unpack .../43-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 408s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 408s Selecting previously unselected package libgraphite2-3:amd64. 408s Preparing to unpack .../44-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 408s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 408s Selecting previously unselected package libharfbuzz0b:amd64. 408s Preparing to unpack .../45-libharfbuzz0b_10.0.1-1_amd64.deb ... 408s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 408s Selecting previously unselected package libraqm0:amd64. 408s Preparing to unpack .../46-libraqm0_0.10.1-1build1_amd64.deb ... 408s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 408s Selecting previously unselected package libdeflate0:amd64. 408s Preparing to unpack .../47-libdeflate0_1.22-1_amd64.deb ... 408s Unpacking libdeflate0:amd64 (1.22-1) ... 408s Selecting previously unselected package libjbig0:amd64. 408s Preparing to unpack .../48-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 408s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 408s Selecting previously unselected package liblerc4:amd64. 408s Preparing to unpack .../49-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 408s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 408s Selecting previously unselected package libsharpyuv0:amd64. 408s Preparing to unpack .../50-libsharpyuv0_1.4.0-0.1_amd64.deb ... 408s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 408s Selecting previously unselected package libwebp7:amd64. 408s Preparing to unpack .../51-libwebp7_1.4.0-0.1_amd64.deb ... 408s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 408s Selecting previously unselected package libtiff6:amd64. 408s Preparing to unpack .../52-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 408s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 408s Selecting previously unselected package libwebpdemux2:amd64. 408s Preparing to unpack .../53-libwebpdemux2_1.4.0-0.1_amd64.deb ... 408s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 408s Selecting previously unselected package libwebpmux3:amd64. 408s Preparing to unpack .../54-libwebpmux3_1.4.0-0.1_amd64.deb ... 408s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 408s Selecting previously unselected package python3-pil:amd64. 408s Preparing to unpack .../55-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 408s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 408s Selecting previously unselected package libfontconfig1:amd64. 408s Preparing to unpack .../56-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 408s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 408s Selecting previously unselected package libpixman-1-0:amd64. 408s Preparing to unpack .../57-libpixman-1-0_0.44.0-3_amd64.deb ... 408s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 408s Selecting previously unselected package libxcb-render0:amd64. 408s Preparing to unpack .../58-libxcb-render0_1.17.0-2_amd64.deb ... 408s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 408s Selecting previously unselected package libxcb-shm0:amd64. 408s Preparing to unpack .../59-libxcb-shm0_1.17.0-2_amd64.deb ... 408s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 408s Selecting previously unselected package libxrender1:amd64. 408s Preparing to unpack .../60-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 408s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 408s Selecting previously unselected package libcairo2:amd64. 408s Preparing to unpack .../61-libcairo2_1.18.2-2_amd64.deb ... 408s Unpacking libcairo2:amd64 (1.18.2-2) ... 408s Selecting previously unselected package python3-cairo. 408s Preparing to unpack .../62-python3-cairo_1.26.1-2_amd64.deb ... 408s Unpacking python3-cairo (1.26.1-2) ... 408s Selecting previously unselected package python3-freetype. 408s Preparing to unpack .../63-python3-freetype_2.5.1-1_all.deb ... 408s Unpacking python3-freetype (2.5.1-1) ... 408s Selecting previously unselected package python3-rlpycairo. 408s Preparing to unpack .../64-python3-rlpycairo_0.3.0-3_all.deb ... 408s Unpacking python3-rlpycairo (0.3.0-3) ... 408s Selecting previously unselected package python3-reportlab. 408s Preparing to unpack .../65-python3-reportlab_4.2.5-1_all.deb ... 408s Unpacking python3-reportlab (4.2.5-1) ... 408s Selecting previously unselected package xml-core. 408s Preparing to unpack .../66-xml-core_0.19_all.deb ... 408s Unpacking xml-core (0.19) ... 408s Selecting previously unselected package w3c-sgml-lib. 408s Preparing to unpack .../67-w3c-sgml-lib_1.3-3_all.deb ... 408s Unpacking w3c-sgml-lib (1.3-3) ... 408s Selecting previously unselected package python3-biopython. 408s Preparing to unpack .../68-python3-biopython_1.84+dfsg-4_amd64.deb ... 408s Unpacking python3-biopython (1.84+dfsg-4) ... 409s Selecting previously unselected package libhtscodecs2:amd64. 409s Preparing to unpack .../69-libhtscodecs2_1.6.1-1_amd64.deb ... 409s Unpacking libhtscodecs2:amd64 (1.6.1-1) ... 409s Selecting previously unselected package libhts3t64:amd64. 409s Preparing to unpack .../70-libhts3t64_1.20+ds-1_amd64.deb ... 409s Unpacking libhts3t64:amd64 (1.20+ds-1) ... 409s Selecting previously unselected package python3-pysam. 409s Preparing to unpack .../71-python3-pysam_0.22.1+ds-2_amd64.deb ... 409s Unpacking python3-pysam (0.22.1+ds-2) ... 409s Selecting previously unselected package python3-decorator. 409s Preparing to unpack .../72-python3-decorator_5.1.1-5_all.deb ... 409s Unpacking python3-decorator (5.1.1-5) ... 409s Selecting previously unselected package liblbfgsb0:amd64. 409s Preparing to unpack .../73-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 409s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 409s Selecting previously unselected package python3-scipy. 409s Preparing to unpack .../74-python3-scipy_1.13.1-5_amd64.deb ... 409s Unpacking python3-scipy (1.13.1-5) ... 409s Selecting previously unselected package insilicoseq. 409s Preparing to unpack .../75-insilicoseq_2.0.1-1_all.deb ... 409s Unpacking insilicoseq (2.0.1-1) ... 409s Selecting previously unselected package ncbi-acc-download. 409s Preparing to unpack .../76-ncbi-acc-download_0.2.8-3_all.deb ... 409s Unpacking ncbi-acc-download (0.2.8-3) ... 409s Selecting previously unselected package python3-joblib. 409s Preparing to unpack .../77-python3-joblib_1.3.2-5_all.deb ... 409s Unpacking python3-joblib (1.3.2-5) ... 409s Selecting previously unselected package python3-threadpoolctl. 409s Preparing to unpack .../78-python3-threadpoolctl_3.1.0-1_all.deb ... 409s Unpacking python3-threadpoolctl (3.1.0-1) ... 409s Selecting previously unselected package python3-sklearn-lib:amd64. 409s Preparing to unpack .../79-python3-sklearn-lib_1.4.2+dfsg-6_amd64.deb ... 409s Unpacking python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... 409s Selecting previously unselected package python3-sklearn. 409s Preparing to unpack .../80-python3-sklearn_1.4.2+dfsg-6_all.deb ... 409s Unpacking python3-sklearn (1.4.2+dfsg-6) ... 410s Selecting previously unselected package python3-wrapt. 410s Preparing to unpack .../81-python3-wrapt_1.15.0-3_amd64.deb ... 410s Unpacking python3-wrapt (1.15.0-3) ... 410s Selecting previously unselected package python3-smart-open. 410s Preparing to unpack .../82-python3-smart-open_7.0.5-1_all.deb ... 410s Unpacking python3-smart-open (7.0.5-1) ... 410s Selecting previously unselected package idseq-bench. 410s Preparing to unpack .../83-idseq-bench_0.0~git20210602.27fb6dc-1_all.deb ... 410s Unpacking idseq-bench (0.0~git20210602.27fb6dc-1) ... 410s Selecting previously unselected package python3-all. 410s Preparing to unpack .../84-python3-all_3.12.6-0ubuntu1_amd64.deb ... 410s Unpacking python3-all (3.12.6-0ubuntu1) ... 410s Setting up libhtscodecs2:amd64 (1.6.1-1) ... 410s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 410s Setting up liblcms2-2:amd64 (2.16-2) ... 410s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 410s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 410s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 410s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 410s Setting up python3-joblib (1.3.2-5) ... 410s Setting up libxcb-render0:amd64 (1.17.0-2) ... 410s Setting up python3-threadpoolctl (3.1.0-1) ... 410s Setting up x11-common (1:7.7+23ubuntu3) ... 410s Setting up libdeflate0:amd64 (1.22-1) ... 410s Setting up python3-all (3.12.6-0ubuntu1) ... 410s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 410s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 410s Setting up python3-freetype (2.5.1-1) ... 411s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 411s Setting up python3-decorator (5.1.1-5) ... 411s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 411s Setting up libblas3:amd64 (3.12.0-3build2) ... 411s 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 411s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 411s Setting up libquadmath0:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 411s Setting up fonts-dejavu-mono (2.37-8) ... 411s Setting up libmpc3:amd64 (1.3.1-1build2) ... 411s Setting up python3-wrapt (1.15.0-3) ... 411s Setting up fonts-dejavu-core (2.37-8) ... 411s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 411s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libwebp7:amd64 (1.4.0-0.1) ... 411s Setting up libubsan1:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libhwasan0:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libasan8:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libhts3t64:amd64 (1.20+ds-1) ... 411s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 411s Setting up ncbi-acc-download (0.2.8-3) ... 411s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 411s Setting up sgml-base (1.31) ... 411s Setting up libtsan2:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libisl23:amd64 (0.27-1) ... 411s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 411s Setting up libcc1-0:amd64 (14.2.0-8ubuntu1) ... 411s Setting up liblsan0:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libitm1:amd64 (14.2.0-8ubuntu1) ... 411s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 411s Setting up liblapack3:amd64 (3.12.0-3build2) ... 411s 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 411s Setting up python3-pysam (0.22.1+ds-2) ... 411s Setting up python3-smart-open (7.0.5-1) ... 411s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 411s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 411s Setting up xfonts-utils (1:7.7+7) ... 411s Setting up libraqm0:amd64 (0.10.1-1build1) ... 411s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 411s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 413s Setting up cpp-14 (14.2.0-8ubuntu1) ... 413s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 413s Setting up xml-core (0.19) ... 413s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 413s Setting up libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 413s Setting up libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 413s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 413s Setting up cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 413s Setting up python3-scipy (1.13.1-5) ... 415s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... 415s Setting up fonts-urw-base35 (20200910-8) ... 415s Setting up libcairo2:amd64 (1.18.2-2) ... 415s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 416s Setting up python3-sklearn (1.4.2+dfsg-6) ... 417s Setting up cpp (4:14.1.0-2ubuntu1) ... 417s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 417s Setting up python3-cairo (1.26.1-2) ... 418s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 418s Setting up gcc-14 (14.2.0-8ubuntu1) ... 418s Setting up python3-rlpycairo (0.3.0-3) ... 418s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 418s Setting up python3-reportlab (4.2.5-1) ... 418s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 418s Setting up g++-14 (14.2.0-8ubuntu1) ... 418s Setting up gcc (4:14.1.0-2ubuntu1) ... 418s Setting up g++ (4:14.1.0-2ubuntu1) ... 418s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 418s Setting up build-essential (12.10ubuntu1) ... 418s Processing triggers for libc-bin (2.40-1ubuntu3) ... 418s Processing triggers for man-db (2.13.0-1) ... 419s Processing triggers for sgml-base (1.31) ... 419s Setting up w3c-sgml-lib (1.3-3) ... 442s Setting up python3-biopython (1.84+dfsg-4) ... 443s Setting up insilicoseq (2.0.1-1) ... 443s Setting up idseq-bench (0.0~git20210602.27fb6dc-1) ... 444s Reading package lists... 444s Building dependency tree... 444s Reading state information... 444s Starting pkgProblemResolver with broken count: 0 444s Starting 2 pkgProblemResolver with broken count: 0 444s Done 445s The following NEW packages will be installed: 445s autopkgtest-satdep 445s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 445s Need to get 0 B/696 B of archives. 445s After this operation, 0 B of additional disk space will be used. 445s Get:1 /tmp/autopkgtest.HkqOku/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [696 B] 445s Selecting previously unselected package autopkgtest-satdep. 445s (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 ... 83152 files and directories currently installed.) 445s Preparing to unpack .../2-autopkgtest-satdep.deb ... 445s Unpacking autopkgtest-satdep (0) ... 445s Setting up autopkgtest-satdep (0) ... 447s (Reading database ... 83152 files and directories currently installed.) 447s Removing autopkgtest-satdep (0) ... 447s autopkgtest [11:24:51]: test run-unit-test: [----------------------- 749s INFO:iss.app:Starting iss generate 749s INFO:iss.generator:Using kde ErrorModel 749s INFO:iss.util:Stitching input files together 750s INFO:iss.generator:Using abundance file:norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4085_abundance.txt 750s INFO:iss.app:Using 2 cpus for read generation 750s INFO:iss.app:Generating 60000 reads 771s INFO:iss.util:Stitching input files together 771s INFO:iss.util:Stitching input files together 771s INFO:iss.util:Cleaning up 771s INFO:iss.app:Read generation complete 778s Generating IDseq benchmark data... 778s 'cd downloads; ncbi-acc-download --format fasta NC_016845.1 -e all' 778s 'cat downloads/NC_016845.1.fa > downloads/bateria__klebsiella_pneumoniae_HS11286__1125630.fasta' 778s "grep -v '^>' downloads/bateria__klebsiella_pneumoniae_HS11286__1125630.fasta | tr -d '\n' | wc > bateria__klebsiella_pneumoniae_HS11286__1125630.size" 778s Genome bateria__klebsiella_pneumoniae_HS11286__1125630 size 5333942 bases. 778s 'cd downloads; ncbi-acc-download --format fasta NC_007194.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007195.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007196.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007197.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007198.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007199.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007200.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_007201.1 -e all' 778s 'cat downloads/NC_007194.1.fa downloads/NC_007195.1.fa downloads/NC_007196.1.fa downloads/NC_007197.1.fa downloads/NC_007198.1.fa downloads/NC_007199.1.fa downloads/NC_007200.1.fa downloads/NC_007201.1.fa > downloads/fungi__aspergillus_fumigatus__330879.fasta' 778s "grep -v '^>' downloads/fungi__aspergillus_fumigatus__330879.fasta | tr -d '\n' | wc > fungi__aspergillus_fumigatus__330879.size" 778s Genome fungi__aspergillus_fumigatus__330879 size 29384958 bases. 778s 'cd downloads; ncbi-acc-download --format fasta MG148341.1 -e all' 778s 'cat downloads/MG148341.1.fa > downloads/viruses__rhinovirus_c__463676.fasta' 778s "grep -v '^>' downloads/viruses__rhinovirus_c__463676.fasta | tr -d '\n' | wc > viruses__rhinovirus_c__463676.size" 778s Genome viruses__rhinovirus_c__463676 size 7056 bases. 778s 'cd downloads; ncbi-acc-download --format fasta MG049915.1 -e all' 778s 'cat downloads/MG049915.1.fa > downloads/viruses__chikungunya__37124.fasta' 778s "grep -v '^>' downloads/viruses__chikungunya__37124.fasta | tr -d '\n' | wc > viruses__chikungunya__37124.size" 778s Genome viruses__chikungunya__37124 size 11604 bases. 778s 'cd downloads; ncbi-acc-download --format fasta NC_007795.1 -e all' 778s 'cat downloads/NC_007795.1.fa > downloads/bateria__staphylococcus_aureus__93061.fasta' 778s "grep -v '^>' downloads/bateria__staphylococcus_aureus__93061.fasta | tr -d '\n' | wc > bateria__staphylococcus_aureus__93061.size" 778s Genome bateria__staphylococcus_aureus__93061 size 2821361 bases. 778s 'cd downloads; ncbi-acc-download --format fasta NC_004325.2 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_037280.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_000521.4 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004318.2 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004326.2 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004327.3 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004328.3 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004329.3 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004330.2 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_037281.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_037282.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_037284.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_004331.3 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_037283.1 -e all' 778s 'cd downloads; ncbi-acc-download --format fasta NC_036769.1 -e all' 778s 'cat downloads/NC_004325.2.fa downloads/NC_037280.1.fa downloads/NC_000521.4.fa downloads/NC_004318.2.fa downloads/NC_004326.2.fa downloads/NC_004327.3.fa downloads/NC_004328.3.fa downloads/NC_004329.3.fa downloads/NC_004330.2.fa downloads/NC_037281.1.fa downloads/NC_037282.1.fa downloads/NC_037284.1.fa downloads/NC_004331.3.fa downloads/NC_037283.1.fa downloads/NC_036769.1.fa > downloads/protista__plasmodium_falciuparum__36329.fasta' 778s "grep -v '^>' downloads/protista__plasmodium_falciuparum__36329.fasta | tr -d '\n' | wc > protista__plasmodium_falciuparum__36329.size" 778s Genome protista__plasmodium_falciuparum__36329 size 23326872 bases. 778s Initializing and downloading genomes... 778s GENERATING norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6 778s 'iss --version > iss_version.txt' 778s 'cat downloads/bateria__klebsiella_pneumoniae_HS11286__1125630.fasta downloads/fungi__aspergillus_fumigatus__330879.fasta downloads/viruses__rhinovirus_c__463676.fasta downloads/viruses__chikungunya__37124.fasta downloads/bateria__staphylococcus_aureus__93061.fasta downloads/protista__plasmodium_falciuparum__36329.fasta > norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4085_genomes.fasta' 778s 'iss generate --n_reads 60000 --genomes norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4085_genomes.fasta --model hiseq --abundance_file norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4085_abundance.txt --gc_bias --output norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4085 --cpus 2' 778s *** 100.0 percent done, 0.5 minutes elapsed, 0.0 minutes remaining, ETA 11:30:22 *** 778s 778s autopkgtest [11:30:22]: test run-unit-test: -----------------------] 778s run-unit-test PASS 778s autopkgtest [11:30:22]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 779s autopkgtest [11:30:23]: @@@@@@@@@@@@@@@@@@@@ summary 779s run-unit-test PASS 790s nova [W] Skipping flock for amd64 790s Creating nova instance adt-plucky-i386-idseq-bench-20241115-111724-juju-7f2275-prod-proposed-migration-environment-20-dd2a7421-e763-48a9-9445-fc6c6452791a from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)... 790s nova [W] nova quota exceeded (attempt #0)