0s autopkgtest [09:46:19]: starting date and time: 2024-11-13 09:46:19+0000 0s autopkgtest [09:46:19]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [09:46:19]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.738n3iyg/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade idseq-bench --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@lcy02-7.secgroup --name adt-plucky-amd64-idseq-bench-20241113-083610-juju-7f2275-prod-proposed-migration-environment-20-87cd1038-42e7-4c1a-93fa-62d0c32fff6c --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 59s autopkgtest [09:47:18]: testbed dpkg architecture: amd64 59s autopkgtest [09:47:18]: testbed apt version: 2.9.8 59s autopkgtest [09:47:18]: @@@@@@@@@@@@@@@@@@@@ test bed setup 59s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 59s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 59s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 59s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 59s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 59s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 59s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 59s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 59s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 59s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [639 kB] 59s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 59s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 59s Fetched 2175 kB in 0s (7358 kB/s) 59s Reading package lists... 61s Reading package lists... 61s Building dependency tree... 61s Reading state information... 61s Calculating upgrade... 61s The following NEW packages will be installed: 61s python3.13-gdbm 61s The following packages will be upgraded: 61s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 61s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 61s Need to get 253 kB of archives. 61s After this operation, 147 kB of additional disk space will be used. 61s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 61s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 61s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 61s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 61s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 61s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 62s Fetched 253 kB in 0s (2887 kB/s) 62s (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 ... 75541 files and directories currently installed.) 62s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 62s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 62s Setting up python3-minimal (3.12.7-1) ... 62s (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 ... 75541 files and directories currently installed.) 62s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 62s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 62s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 62s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 62s Selecting previously unselected package python3.13-gdbm. 62s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 62s Unpacking python3.13-gdbm (3.13.0-2) ... 62s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 62s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 62s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 62s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 63s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 63s Setting up python3.13-gdbm (3.13.0-2) ... 63s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 63s Setting up python3 (3.12.7-1) ... 63s Setting up python3-gdbm:amd64 (3.12.7-1) ... 63s Processing triggers for man-db (2.12.1-3) ... 63s Processing triggers for libc-bin (2.40-1ubuntu3) ... 64s Reading package lists... 64s Building dependency tree... 64s Reading state information... 64s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 64s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 64s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 64s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 64s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 66s Reading package lists... 66s Reading package lists... 66s Building dependency tree... 66s Reading state information... 66s Calculating upgrade... 66s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 67s Reading package lists... 67s Building dependency tree... 67s Reading state information... 67s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 68s autopkgtest [09:47:27]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 68s autopkgtest [09:47:27]: @@@@@@@@@@@@@@@@@@@@ apt-source idseq-bench 68s Get:1 http://ftpmaster.internal/ubuntu plucky/universe idseq-bench 0.0~git20210602.27fb6dc-1 (dsc) [2356 B] 68s Get:2 http://ftpmaster.internal/ubuntu plucky/universe idseq-bench 0.0~git20210602.27fb6dc-1 (tar) [17.3 kB] 68s Get:3 http://ftpmaster.internal/ubuntu plucky/universe idseq-bench 0.0~git20210602.27fb6dc-1 (diff) [4432 B] 68s gpgv: Signature made Mon Jan 17 12:05:35 2022 UTC 68s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 68s gpgv: issuer "nilesh@debian.org" 68s gpgv: Can't check signature: No public key 68s dpkg-source: warning: cannot verify inline signature for ./idseq-bench_0.0~git20210602.27fb6dc-1.dsc: no acceptable signature found 69s autopkgtest [09:47:28]: testing package idseq-bench version 0.0~git20210602.27fb6dc-1 69s autopkgtest [09:47:28]: build not needed 69s autopkgtest [09:47:28]: test run-unit-test: preparing testbed 72s Reading package lists... 72s Building dependency tree... 72s Reading state information... 72s Starting pkgProblemResolver with broken count: 0 72s Starting 2 pkgProblemResolver with broken count: 0 72s Done 73s The following additional packages will be installed: 73s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 73s idseq-bench insilicoseq libblas3 libcairo2 libdeflate0 libfontconfig1 73s libfontenc1 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhts3t64 73s libhtscodecs2 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 73s liblbfgsb0 liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 73s libpython3.13-minimal libpython3.13-stdlib libraqm0 libsharpyuv0 libtiff6 73s libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 73s ncbi-acc-download python3-all python3-biopython python3-cairo 73s python3-decorator python3-freetype python3-joblib python3-numpy python3-pil 73s python3-pysam python3-reportlab python3-rlpycairo python3-scipy 73s python3-sklearn python3-sklearn-lib python3-smart-open python3-threadpoolctl 73s python3-wrapt python3.13 python3.13-minimal sgml-base w3c-sgml-lib 73s x11-common xfonts-encodings xfonts-utils xml-core 73s Suggested packages: 73s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 73s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 73s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 73s python3-rdflib python3-psycopg2 raxml samtools t-coffee wise 73s python-joblib-doc gcc gfortran python-numpy-doc python3-dev python3-pytest 73s python-pil-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc 73s rl-accel rl-renderpm python-scipy-doc python3-dap python-sklearn-doc 73s ipython3 python3-azure python3-azure-storage python3.13-venv python3.13-doc 73s binfmt-support sgml-base-doc debhelper 73s Recommended packages: 73s python-biopython-doc ncbi-blast+ python3-pytest python3-simplejson 73s python3-psutil python3-olefile fonts-dejavu-extra g++ | c++-compiler 73s python3-matplotlib python3-boto3 python3-paramiko python3-zstandard 73s The following NEW packages will be installed: 73s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 73s fonts-urw-base35 idseq-bench insilicoseq libblas3 libcairo2 libdeflate0 73s libfontconfig1 libfontenc1 libgfortran5 libgomp1 libgraphite2-3 73s libharfbuzz0b libhts3t64 libhtscodecs2 libimagequant0 libjbig0 73s libjpeg-turbo8 libjpeg8 liblapack3 liblbfgsb0 liblcms2-2 liblerc4 73s libopenjp2-7 libpixman-1-0 libpython3.13-minimal libpython3.13-stdlib 73s libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 73s libxcb-render0 libxcb-shm0 libxrender1 ncbi-acc-download python3-all 73s python3-biopython python3-cairo python3-decorator python3-freetype 73s python3-joblib python3-numpy python3-pil python3-pysam python3-reportlab 73s python3-rlpycairo python3-scipy python3-sklearn python3-sklearn-lib 73s python3-smart-open python3-threadpoolctl python3-wrapt python3.13 73s python3.13-minimal sgml-base w3c-sgml-lib x11-common xfonts-encodings 73s xfonts-utils xml-core 73s 0 upgraded, 65 newly installed, 0 to remove and 0 not upgraded. 73s Need to get 67.5 MB/67.5 MB of archives. 73s After this operation, 268 MB of additional disk space will be used. 73s Get:1 /tmp/autopkgtest.Q7tsmz/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [760 B] 73s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 73s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 73s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 73s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 73s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 73s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 73s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 73s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 73s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 73s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 73s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 73s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 73s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 73s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 73s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 73s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 73s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 73s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 73s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 73s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 73s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 73s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 73s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 73s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 73s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 73s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 73s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 73s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 73s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 73s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 73s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 73s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 73s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 73s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 73s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 73s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 73s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 73s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 73s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 73s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 73s Get:42 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 73s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 73s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 73s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 73s Get:46 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 73s Get:47 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4 [1714 kB] 73s Get:48 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 73s Get:49 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.20+ds-1 [439 kB] 73s Get:50 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pysam amd64 0.22.1+ds-2 [3504 kB] 73s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 73s Get:52 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 73s Get:53 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 74s Get:54 http://ftpmaster.internal/ubuntu plucky/universe amd64 insilicoseq all 2.0.1-1 [4247 kB] 74s Get:55 http://ftpmaster.internal/ubuntu plucky/universe amd64 ncbi-acc-download all 0.2.8-3 [13.3 kB] 74s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.3.2-5 [206 kB] 74s Get:57 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 74s Get:58 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-6 [3920 kB] 74s Get:59 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn all 1.4.2+dfsg-6 [2257 kB] 74s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-wrapt amd64 1.15.0-3 [34.6 kB] 74s Get:61 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-smart-open all 7.0.5-1 [89.9 kB] 74s Get:62 http://ftpmaster.internal/ubuntu plucky/universe amd64 idseq-bench all 0.0~git20210602.27fb6dc-1 [24.7 kB] 74s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 74s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 74s Get:65 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 74s Fetched 67.5 MB in 1s (73.1 MB/s) 74s Selecting previously unselected package libpython3.13-minimal:amd64. 74s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75548 files and directories currently installed.) 74s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 74s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 74s Selecting previously unselected package python3.13-minimal. 74s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 74s Unpacking python3.13-minimal (3.13.0-2) ... 74s Selecting previously unselected package sgml-base. 74s Preparing to unpack .../02-sgml-base_1.31_all.deb ... 74s Unpacking sgml-base (1.31) ... 74s Selecting previously unselected package fonts-dejavu-mono. 74s Preparing to unpack .../03-fonts-dejavu-mono_2.37-8_all.deb ... 74s Unpacking fonts-dejavu-mono (2.37-8) ... 74s Selecting previously unselected package fonts-dejavu-core. 74s Preparing to unpack .../04-fonts-dejavu-core_2.37-8_all.deb ... 74s Unpacking fonts-dejavu-core (2.37-8) ... 74s Selecting previously unselected package libfontenc1:amd64. 74s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 74s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 74s Selecting previously unselected package x11-common. 75s Preparing to unpack .../06-x11-common_1%3a7.7+23ubuntu3_all.deb ... 75s Unpacking x11-common (1:7.7+23ubuntu3) ... 75s Selecting previously unselected package xfonts-encodings. 75s Preparing to unpack .../07-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 75s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 75s Selecting previously unselected package xfonts-utils. 75s Preparing to unpack .../08-xfonts-utils_1%3a7.7+7_amd64.deb ... 75s Unpacking xfonts-utils (1:7.7+7) ... 75s Selecting previously unselected package fonts-urw-base35. 75s Preparing to unpack .../09-fonts-urw-base35_20200910-8_all.deb ... 75s Unpacking fonts-urw-base35 (20200910-8) ... 75s Selecting previously unselected package fontconfig-config. 75s Preparing to unpack .../10-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 75s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 76s Selecting previously unselected package libblas3:amd64. 76s Preparing to unpack .../11-libblas3_3.12.0-3build2_amd64.deb ... 76s Unpacking libblas3:amd64 (3.12.0-3build2) ... 76s Selecting previously unselected package libgfortran5:amd64. 76s Preparing to unpack .../12-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 76s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 76s Selecting previously unselected package liblapack3:amd64. 76s Preparing to unpack .../13-liblapack3_3.12.0-3build2_amd64.deb ... 76s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 76s Selecting previously unselected package python3-numpy. 76s Preparing to unpack .../14-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 76s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 76s Selecting previously unselected package libgomp1:amd64. 76s Preparing to unpack .../15-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 76s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 76s Selecting previously unselected package libimagequant0:amd64. 76s Preparing to unpack .../16-libimagequant0_2.18.0-1build1_amd64.deb ... 76s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 76s Selecting previously unselected package libjpeg-turbo8:amd64. 76s Preparing to unpack .../17-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 76s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 76s Selecting previously unselected package libjpeg8:amd64. 76s Preparing to unpack .../18-libjpeg8_8c-2ubuntu11_amd64.deb ... 76s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 76s Selecting previously unselected package liblcms2-2:amd64. 76s Preparing to unpack .../19-liblcms2-2_2.16-2_amd64.deb ... 76s Unpacking liblcms2-2:amd64 (2.16-2) ... 76s Selecting previously unselected package libopenjp2-7:amd64. 76s Preparing to unpack .../20-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 76s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 76s Selecting previously unselected package libgraphite2-3:amd64. 76s Preparing to unpack .../21-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 76s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 76s Selecting previously unselected package libharfbuzz0b:amd64. 76s Preparing to unpack .../22-libharfbuzz0b_10.0.1-1_amd64.deb ... 76s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 76s Selecting previously unselected package libraqm0:amd64. 76s Preparing to unpack .../23-libraqm0_0.10.1-1build1_amd64.deb ... 76s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 76s Selecting previously unselected package libdeflate0:amd64. 76s Preparing to unpack .../24-libdeflate0_1.22-1_amd64.deb ... 76s Unpacking libdeflate0:amd64 (1.22-1) ... 76s Selecting previously unselected package libjbig0:amd64. 76s Preparing to unpack .../25-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 76s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 76s Selecting previously unselected package liblerc4:amd64. 76s Preparing to unpack .../26-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 76s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 76s Selecting previously unselected package libsharpyuv0:amd64. 76s Preparing to unpack .../27-libsharpyuv0_1.4.0-0.1_amd64.deb ... 76s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 76s Selecting previously unselected package libwebp7:amd64. 76s Preparing to unpack .../28-libwebp7_1.4.0-0.1_amd64.deb ... 76s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 76s Selecting previously unselected package libtiff6:amd64. 76s Preparing to unpack .../29-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 76s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 76s Selecting previously unselected package libwebpdemux2:amd64. 76s Preparing to unpack .../30-libwebpdemux2_1.4.0-0.1_amd64.deb ... 76s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 76s Selecting previously unselected package libwebpmux3:amd64. 76s Preparing to unpack .../31-libwebpmux3_1.4.0-0.1_amd64.deb ... 76s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 76s Selecting previously unselected package python3-pil:amd64. 76s Preparing to unpack .../32-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 76s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 76s Selecting previously unselected package libfontconfig1:amd64. 76s Preparing to unpack .../33-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 76s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 76s Selecting previously unselected package libpixman-1-0:amd64. 76s Preparing to unpack .../34-libpixman-1-0_0.44.0-3_amd64.deb ... 76s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 76s Selecting previously unselected package libxcb-render0:amd64. 76s Preparing to unpack .../35-libxcb-render0_1.17.0-2_amd64.deb ... 76s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 76s Selecting previously unselected package libxcb-shm0:amd64. 76s Preparing to unpack .../36-libxcb-shm0_1.17.0-2_amd64.deb ... 76s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 76s Selecting previously unselected package libxrender1:amd64. 76s Preparing to unpack .../37-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 76s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 76s Selecting previously unselected package libcairo2:amd64. 76s Preparing to unpack .../38-libcairo2_1.18.2-2_amd64.deb ... 76s Unpacking libcairo2:amd64 (1.18.2-2) ... 76s Selecting previously unselected package python3-cairo. 76s Preparing to unpack .../39-python3-cairo_1.26.1-2_amd64.deb ... 76s Unpacking python3-cairo (1.26.1-2) ... 76s Selecting previously unselected package python3-freetype. 76s Preparing to unpack .../40-python3-freetype_2.5.1-1_all.deb ... 76s Unpacking python3-freetype (2.5.1-1) ... 76s Selecting previously unselected package python3-rlpycairo. 76s Preparing to unpack .../41-python3-rlpycairo_0.3.0-3_all.deb ... 76s Unpacking python3-rlpycairo (0.3.0-3) ... 76s Selecting previously unselected package python3-reportlab. 76s Preparing to unpack .../42-python3-reportlab_4.2.5-1_all.deb ... 76s Unpacking python3-reportlab (4.2.5-1) ... 76s Selecting previously unselected package xml-core. 76s Preparing to unpack .../43-xml-core_0.19_all.deb ... 76s Unpacking xml-core (0.19) ... 76s Selecting previously unselected package w3c-sgml-lib. 76s Preparing to unpack .../44-w3c-sgml-lib_1.3-3_all.deb ... 76s Unpacking w3c-sgml-lib (1.3-3) ... 76s Selecting previously unselected package python3-biopython. 76s Preparing to unpack .../45-python3-biopython_1.84+dfsg-4_amd64.deb ... 76s Unpacking python3-biopython (1.84+dfsg-4) ... 76s Selecting previously unselected package libhtscodecs2:amd64. 76s Preparing to unpack .../46-libhtscodecs2_1.6.1-1_amd64.deb ... 76s Unpacking libhtscodecs2:amd64 (1.6.1-1) ... 77s Selecting previously unselected package libhts3t64:amd64. 77s Preparing to unpack .../47-libhts3t64_1.20+ds-1_amd64.deb ... 77s Unpacking libhts3t64:amd64 (1.20+ds-1) ... 77s Selecting previously unselected package python3-pysam. 77s Preparing to unpack .../48-python3-pysam_0.22.1+ds-2_amd64.deb ... 77s Unpacking python3-pysam (0.22.1+ds-2) ... 77s Selecting previously unselected package python3-decorator. 77s Preparing to unpack .../49-python3-decorator_5.1.1-5_all.deb ... 77s Unpacking python3-decorator (5.1.1-5) ... 77s Selecting previously unselected package liblbfgsb0:amd64. 77s Preparing to unpack .../50-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 77s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 77s Selecting previously unselected package python3-scipy. 77s Preparing to unpack .../51-python3-scipy_1.13.1-5_amd64.deb ... 77s Unpacking python3-scipy (1.13.1-5) ... 77s Selecting previously unselected package insilicoseq. 77s Preparing to unpack .../52-insilicoseq_2.0.1-1_all.deb ... 77s Unpacking insilicoseq (2.0.1-1) ... 77s Selecting previously unselected package ncbi-acc-download. 77s Preparing to unpack .../53-ncbi-acc-download_0.2.8-3_all.deb ... 77s Unpacking ncbi-acc-download (0.2.8-3) ... 77s Selecting previously unselected package python3-joblib. 77s Preparing to unpack .../54-python3-joblib_1.3.2-5_all.deb ... 77s Unpacking python3-joblib (1.3.2-5) ... 77s Selecting previously unselected package python3-threadpoolctl. 77s Preparing to unpack .../55-python3-threadpoolctl_3.1.0-1_all.deb ... 77s Unpacking python3-threadpoolctl (3.1.0-1) ... 77s Selecting previously unselected package python3-sklearn-lib:amd64. 77s Preparing to unpack .../56-python3-sklearn-lib_1.4.2+dfsg-6_amd64.deb ... 77s Unpacking python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... 78s Selecting previously unselected package python3-sklearn. 78s 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Unpacking python3.13 (3.13.0-2) ... 78s Selecting previously unselected package python3-all. 78s Preparing to unpack .../63-python3-all_3.12.7-1_amd64.deb ... 78s Unpacking python3-all (3.12.7-1) ... 78s Selecting previously unselected package autopkgtest-satdep. 78s Preparing to unpack .../64-1-autopkgtest-satdep.deb ... 78s Unpacking autopkgtest-satdep (0) ... 78s Setting up libhtscodecs2:amd64 (1.6.1-1) ... 78s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 78s Setting up liblcms2-2:amd64 (2.16-2) ... 78s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 78s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 78s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 78s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 78s Setting up python3-joblib (1.3.2-5) ... 78s Setting up libxcb-render0:amd64 (1.17.0-2) ... 78s Setting up python3-threadpoolctl (3.1.0-1) ... 79s Setting up x11-common (1:7.7+23ubuntu3) ... 79s Setting up libdeflate0:amd64 (1.22-1) ... 79s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 79s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 79s Setting up python3-freetype (2.5.1-1) ... 79s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 79s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 79s Setting up python3-decorator (5.1.1-5) ... 79s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 79s Setting up libblas3:amd64 (3.12.0-3build2) ... 79s 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 79s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 79s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 79s Setting up fonts-dejavu-mono (2.37-8) ... 79s Setting up python3-wrapt (1.15.0-3) ... 80s Setting up fonts-dejavu-core (2.37-8) ... 80s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 80s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 80s Setting up libwebp7:amd64 (1.4.0-0.1) ... 80s Setting up libhts3t64:amd64 (1.20+ds-1) ... 80s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 80s Setting up python3.13-minimal (3.13.0-2) ... 80s Setting up ncbi-acc-download (0.2.8-3) ... 81s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 81s Setting up sgml-base (1.31) ... 81s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 81s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 81s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 81s Setting up liblapack3:amd64 (3.12.0-3build2) ... 81s 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 81s Setting up python3-pysam (0.22.1+ds-2) ... 81s Setting up python3-smart-open (7.0.5-1) ... 81s Setting up python3.13 (3.13.0-2) ... 82s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 82s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 82s Setting up python3-all (3.12.7-1) ... 82s Setting up xfonts-utils (1:7.7+7) ... 82s Setting up libraqm0:amd64 (0.10.1-1build1) ... 82s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 86s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 86s Setting up xml-core (0.19) ... 86s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 86s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 86s Setting up python3-scipy (1.13.1-5) ... 93s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... 93s Setting up fonts-urw-base35 (20200910-8) ... 93s Setting up libcairo2:amd64 (1.18.2-2) ... 93s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 94s Setting up python3-sklearn (1.4.2+dfsg-6) ... 98s Setting up python3-cairo (1.26.1-2) ... 98s Setting up python3-rlpycairo (0.3.0-3) ... 98s Setting up python3-reportlab (4.2.5-1) ... 99s Processing triggers for libc-bin (2.40-1ubuntu3) ... 99s Processing triggers for systemd (256.5-2ubuntu4) ... 99s Processing triggers for man-db (2.12.1-3) ... 100s Processing triggers for sgml-base (1.31) ... 101s Setting up w3c-sgml-lib (1.3-3) ... 129s Setting up python3-biopython (1.84+dfsg-4) ... 131s Setting up insilicoseq (2.0.1-1) ... 131s Setting up idseq-bench (0.0~git20210602.27fb6dc-1) ... 131s Setting up autopkgtest-satdep (0) ... 134s (Reading database ... 82601 files and directories currently installed.) 134s Removing autopkgtest-satdep (0) ... 135s autopkgtest [09:48:34]: test run-unit-test: [----------------------- 335s INFO:iss.app:Starting iss generate 335s INFO:iss.generator:Using kde ErrorModel 335s INFO:iss.util:Stitching input files together 335s INFO:iss.generator:Using abundance file:norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4738_abundance.txt 335s INFO:iss.app:Using 2 cpus for read generation 335s INFO:iss.app:Generating 60000 reads 365s INFO:iss.util:Stitching input files together 365s INFO:iss.util:Stitching input files together 365s INFO:iss.util:Cleaning up 365s INFO:iss.app:Read generation complete 372s Generating IDseq benchmark data... 372s 'cd downloads; ncbi-acc-download --format fasta NC_016845.1 -e all' 372s 'cat downloads/NC_016845.1.fa > downloads/bateria__klebsiella_pneumoniae_HS11286__1125630.fasta' 372s "grep -v '^>' downloads/bateria__klebsiella_pneumoniae_HS11286__1125630.fasta | tr -d '\n' | wc > bateria__klebsiella_pneumoniae_HS11286__1125630.size" 372s Genome bateria__klebsiella_pneumoniae_HS11286__1125630 size 5333942 bases. 372s 'cd downloads; ncbi-acc-download --format fasta NC_007194.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007195.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007196.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007197.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007198.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007199.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007200.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_007201.1 -e all' 372s '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' 372s "grep -v '^>' downloads/fungi__aspergillus_fumigatus__330879.fasta | tr -d '\n' | wc > fungi__aspergillus_fumigatus__330879.size" 372s Genome fungi__aspergillus_fumigatus__330879 size 29384958 bases. 372s 'cd downloads; ncbi-acc-download --format fasta MG148341.1 -e all' 372s 'cat downloads/MG148341.1.fa > downloads/viruses__rhinovirus_c__463676.fasta' 372s "grep -v '^>' downloads/viruses__rhinovirus_c__463676.fasta | tr -d '\n' | wc > viruses__rhinovirus_c__463676.size" 372s Genome viruses__rhinovirus_c__463676 size 7056 bases. 372s 'cd downloads; ncbi-acc-download --format fasta MG049915.1 -e all' 372s 'cat downloads/MG049915.1.fa > downloads/viruses__chikungunya__37124.fasta' 372s "grep -v '^>' downloads/viruses__chikungunya__37124.fasta | tr -d '\n' | wc > viruses__chikungunya__37124.size" 372s Genome viruses__chikungunya__37124 size 11604 bases. 372s 'cd downloads; ncbi-acc-download --format fasta NC_007795.1 -e all' 372s 'cat downloads/NC_007795.1.fa > downloads/bateria__staphylococcus_aureus__93061.fasta' 372s "grep -v '^>' downloads/bateria__staphylococcus_aureus__93061.fasta | tr -d '\n' | wc > bateria__staphylococcus_aureus__93061.size" 372s Genome bateria__staphylococcus_aureus__93061 size 2821361 bases. 372s 'cd downloads; ncbi-acc-download --format fasta NC_004325.2 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_037280.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_000521.4 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004318.2 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004326.2 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004327.3 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004328.3 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004329.3 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004330.2 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_037281.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_037282.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_037284.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_004331.3 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_037283.1 -e all' 372s 'cd downloads; ncbi-acc-download --format fasta NC_036769.1 -e all' 372s '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' 372s "grep -v '^>' downloads/protista__plasmodium_falciuparum__36329.fasta | tr -d '\n' | wc > protista__plasmodium_falciuparum__36329.size" 372s Genome protista__plasmodium_falciuparum__36329 size 23326872 bases. 372s Initializing and downloading genomes... 372s GENERATING norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6 372s 'iss --version > iss_version.txt' 372s '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_4738_genomes.fasta' 372s 'iss generate --n_reads 60000 --genomes norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4738_genomes.fasta --model hiseq --abundance_file norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4738_abundance.txt --gc_bias --output norg_6__nacc_27__uniform_weight_per_organism__hiseq_reads__v0.2.6/tmp_4738 --cpus 2' 372s *** 100.0 percent done, 0.6 minutes elapsed, 0.0 minutes remaining, ETA 09:52:31 *** 372s 372s autopkgtest [09:52:31]: test run-unit-test: -----------------------] 375s run-unit-test PASS 375s autopkgtest [09:52:34]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 375s autopkgtest [09:52:34]: @@@@@@@@@@@@@@@@@@@@ summary 375s run-unit-test PASS 387s nova [W] Skipping flock for amd64 387s Creating nova instance adt-plucky-amd64-idseq-bench-20241113-083610-juju-7f2275-prod-proposed-migration-environment-20-87cd1038-42e7-4c1a-93fa-62d0c32fff6c from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 76b850f9-98f4-4b79-af06-fa11000b95b2)...