0s autopkgtest [15:47:57]: starting date and time: 2024-03-23 15:47:57+0000 0s autopkgtest [15:47:57]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [15:47:57]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.8iv5glvi/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:samtools,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade optimir --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=samtools/1.19.2-1build1 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 htslib/1.19+ds-1.1build2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos01-ppc64el-11.secgroup --name adt-noble-ppc64el-optimir-20240323-154757-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://us.ports.ubuntu.com/ubuntu-ports/ 154s autopkgtest [15:50:31]: testbed dpkg architecture: ppc64el 155s autopkgtest [15:50:32]: testbed apt version: 2.7.12 155s autopkgtest [15:50:32]: @@@@@@@@@@@@@@@@@@@@ test bed setup 155s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 156s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 156s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB] 156s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3969 kB] 156s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [493 kB] 156s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [659 kB] 156s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 156s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 156s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 156s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4248 kB] 157s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 157s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [60.8 kB] 157s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 160s Fetched 9623 kB in 2s (3914 kB/s) 160s Reading package lists... 163s Reading package lists... 163s Building dependency tree... 163s Reading state information... 163s Calculating upgrade... 163s The following packages will be REMOVED: 163s libssl3 163s The following NEW packages will be installed: 163s libssl3t64 163s The following packages have been kept back: 163s curl 163s The following packages will be upgraded: 163s cloud-init fonts-ubuntu-console libbsd0 libc-bin libc6 locales openssl 163s python3-markupsafe 163s 8 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 163s Need to get 12.1 MB of archives. 163s After this operation, 10.2 kB of additional disk space will be used. 163s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el libc6 ppc64el 2.39-0ubuntu6 [3274 kB] 164s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libc-bin ppc64el 2.39-0ubuntu6 [751 kB] 164s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el openssl ppc64el 3.0.13-0ubuntu2 [1026 kB] 164s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libssl3t64 ppc64el 3.0.13-0ubuntu2 [2125 kB] 164s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libbsd0 ppc64el 0.12.1-1 [56.9 kB] 164s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el locales all 2.39-0ubuntu6 [4232 kB] 164s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB] 164s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-markupsafe ppc64el 2.1.5-1build1 [13.2 kB] 164s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el cloud-init all 24.1.2-0ubuntu1 [597 kB] 165s Preconfiguring packages ... 165s Fetched 12.1 MB in 1s (9485 kB/s) 165s (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 ... 70157 files and directories currently installed.) 165s Preparing to unpack .../libc6_2.39-0ubuntu6_ppc64el.deb ... 165s Unpacking libc6:ppc64el (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 165s Setting up libc6:ppc64el (2.39-0ubuntu6) ... 166s (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 ... 70157 files and directories currently installed.) 166s Preparing to unpack .../libc-bin_2.39-0ubuntu6_ppc64el.deb ... 166s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 166s Setting up libc-bin (2.39-0ubuntu6) ... 166s (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 ... 70157 files and directories currently installed.) 166s Preparing to unpack .../openssl_3.0.13-0ubuntu2_ppc64el.deb ... 166s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 166s dpkg: libssl3:ppc64el: dependency problems, but removing anyway as you requested: 166s wget depends on libssl3 (>= 3.0.0). 166s tnftp depends on libssl3 (>= 3.0.0). 166s tcpdump depends on libssl3 (>= 3.0.0). 166s systemd-resolved depends on libssl3 (>= 3.0.0). 166s systemd depends on libssl3 (>= 3.0.0). 166s sudo depends on libssl3 (>= 3.0.0). 166s rsync depends on libssl3 (>= 3.0.0). 166s python3-cryptography depends on libssl3 (>= 3.0.0). 166s openssh-server depends on libssl3 (>= 3.0.10). 166s openssh-client depends on libssl3 (>= 3.0.10). 166s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 166s libsystemd-shared:ppc64el depends on libssl3 (>= 3.0.0). 166s libssh-4:ppc64el depends on libssl3 (>= 3.0.0). 166s libsasl2-modules:ppc64el depends on libssl3 (>= 3.0.0). 166s libsasl2-2:ppc64el depends on libssl3 (>= 3.0.0). 166s libpython3.12-minimal:ppc64el depends on libssl3 (>= 3.0.0). 166s libpython3.11-minimal:ppc64el depends on libssl3 (>= 3.0.0). 166s libnvme1 depends on libssl3 (>= 3.0.0). 166s libkrb5-3:ppc64el depends on libssl3 (>= 3.0.0). 166s libkmod2:ppc64el depends on libssl3 (>= 3.0.0). 166s libfido2-1:ppc64el depends on libssl3 (>= 3.0.0). 166s libcurl4:ppc64el depends on libssl3 (>= 3.0.0). 166s libcryptsetup12:ppc64el depends on libssl3 (>= 3.0.0). 166s kmod depends on libssl3 (>= 3.0.0). 166s dhcpcd-base depends on libssl3 (>= 3.0.0). 166s bind9-libs:ppc64el depends on libssl3 (>= 3.0.0). 166s 166s (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 ... 70157 files and directories currently installed.) 166s Removing libssl3:ppc64el (3.0.10-1ubuntu4) ... 166s Selecting previously unselected package libssl3t64:ppc64el. 166s (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 ... 70146 files and directories currently installed.) 166s Preparing to unpack .../0-libssl3t64_3.0.13-0ubuntu2_ppc64el.deb ... 166s Unpacking libssl3t64:ppc64el (3.0.13-0ubuntu2) ... 166s Preparing to unpack .../1-libbsd0_0.12.1-1_ppc64el.deb ... 166s Unpacking libbsd0:ppc64el (0.12.1-1) over (0.11.8-1) ... 166s Preparing to unpack .../2-locales_2.39-0ubuntu6_all.deb ... 166s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 166s Preparing to unpack .../3-fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ... 166s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ... 166s Preparing to unpack .../4-python3-markupsafe_2.1.5-1build1_ppc64el.deb ... 166s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ... 166s Preparing to unpack .../5-cloud-init_24.1.2-0ubuntu1_all.deb ... 167s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ... 167s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ... 167s Setting up cloud-init (24.1.2-0ubuntu1) ... 168s Setting up libssl3t64:ppc64el (3.0.13-0ubuntu2) ... 168s Setting up locales (2.39-0ubuntu6) ... 169s Generating locales (this might take a while)... 170s en_US.UTF-8... done 170s Generation complete. 170s Setting up python3-markupsafe (2.1.5-1build1) ... 170s Setting up openssl (3.0.13-0ubuntu2) ... 170s Setting up libbsd0:ppc64el (0.12.1-1) ... 170s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 170s Processing triggers for man-db (2.12.0-3) ... 172s Processing triggers for libc-bin (2.39-0ubuntu6) ... 172s Reading package lists... 172s Building dependency tree... 172s Reading state information... 172s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 173s sh: Attempting to set up Debian/Ubuntu apt sources automatically 173s sh: Distribution appears to be Ubuntu 173s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s eatmydata is already the newest version (131-1). 174s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s dbus is already the newest version (1.14.10-4ubuntu1). 174s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s rng-tools-debian is already the newest version (2.4). 174s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 175s The following packages will be REMOVED: 175s cloud-init* python3-configobj* python3-debconf* 175s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 175s After this operation, 3256 kB disk space will be freed. 175s (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 ... 70158 files and directories currently installed.) 175s Removing cloud-init (24.1.2-0ubuntu1) ... 175s Removing python3-configobj (5.0.8-3) ... 175s Removing python3-debconf (1.5.86) ... 175s Processing triggers for man-db (2.12.0-3) ... 176s (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 ... 69769 files and directories currently installed.) 176s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 176s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 176s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 176s invoke-rc.d: policy-rc.d denied execution of try-restart. 177s Reading package lists... 177s Building dependency tree... 177s Reading state information... 177s linux-generic is already the newest version (6.8.0-11.11+1). 177s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 177s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 177s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 177s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 180s Reading package lists... 180s Reading package lists... 180s Building dependency tree... 180s Reading state information... 180s Calculating upgrade... 180s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 180s Reading package lists... 181s Building dependency tree... 181s Reading state information... 181s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 181s autopkgtest [15:50:58]: rebooting testbed after setup commands that affected boot 337s autopkgtest [15:53:33]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 339s autopkgtest [15:53:36]: @@@@@@@@@@@@@@@@@@@@ apt-source optimir 341s Get:1 http://ftpmaster.internal/ubuntu noble/universe optimir 1.2-1 (dsc) [1984 B] 341s Get:2 http://ftpmaster.internal/ubuntu noble/universe optimir 1.2-1 (tar) [1748 kB] 341s Get:3 http://ftpmaster.internal/ubuntu noble/universe optimir 1.2-1 (diff) [3476 B] 341s gpgv: Signature made Fri Mar 18 14:54:34 2022 UTC 341s gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54 341s gpgv: issuer "daissi@debian.org" 341s gpgv: Can't check signature: No public key 341s dpkg-source: warning: cannot verify inline signature for ./optimir_1.2-1.dsc: no acceptable signature found 341s autopkgtest [15:53:38]: testing package optimir version 1.2-1 341s autopkgtest [15:53:38]: build not needed 346s autopkgtest [15:53:43]: test run-unit-test: preparing testbed 354s Reading package lists... 354s Building dependency tree... 354s Reading state information... 355s Starting pkgProblemResolver with broken count: 0 355s Starting 2 pkgProblemResolver with broken count: 0 355s Done 355s The following additional packages will be installed: 355s bowtie2 cutadapt fontconfig-config fonts-dejavu-core fonts-dejavu-extra 355s fonts-dejavu-mono fonts-urw-base35 libblas3 libcairo2 libdeflate0 355s libfontconfig1 libfontenc1 libgfortran5 libgomp1 libgraphite2-3 355s libharfbuzz0b libhts3 libhtscodecs2 libimagequant0 libjbig0 libjpeg-turbo8 355s libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 355s libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 355s libxcb-shm0 libxrender1 optimir pigz python3-biopython python3-cairo 355s python3-cutadapt python3-dnaio python3-freetype python3-numpy python3-pil 355s python3-pysam python3-reportlab python3-rlpycairo python3-xopen samtools 355s sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 355s Suggested packages: 355s bowtie2-examples fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre 355s liblcms2-utils python3-tk bwa clustalo clustalw dialign dssp emboss fasttree 355s mafft muscle3 phylip phyml prank probcons python3-mysqldb python3-matplotlib 355s python3-mmtf python3-rdflib python3-psycopg2 python3-scipy raxml t-coffee 355s wise gcc gfortran python3-dev python3-pytest python-pil-doc pdf-viewer 355s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm cwltool 355s sgml-base-doc debhelper 355s Recommended packages: 355s r-cran-gridextra r-cran-ggplot2 python-biopython-doc ncbi-blast+ 355s python3-olefile 355s The following NEW packages will be installed: 355s autopkgtest-satdep bowtie2 cutadapt fontconfig-config fonts-dejavu-core 355s fonts-dejavu-extra fonts-dejavu-mono fonts-urw-base35 libblas3 libcairo2 355s libdeflate0 libfontconfig1 libfontenc1 libgfortran5 libgomp1 libgraphite2-3 355s libharfbuzz0b libhts3 libhtscodecs2 libimagequant0 libjbig0 libjpeg-turbo8 355s libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 355s libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 355s libxcb-shm0 libxrender1 optimir pigz python3-biopython python3-cairo 355s python3-cutadapt python3-dnaio python3-freetype python3-numpy python3-pil 355s python3-pysam python3-reportlab python3-rlpycairo python3-xopen samtools 355s sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 355s 0 upgraded, 57 newly installed, 0 to remove and 0 not upgraded. 355s Need to get 41.1 MB/41.1 MB of archives. 355s After this operation, 176 MB of additional disk space will be used. 355s Get:1 /tmp/autopkgtest.juRcyF/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [708 B] 355s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el sgml-base all 1.31 [11.4 kB] 355s Get:3 http://ftpmaster.internal/ubuntu noble/universe ppc64el pigz ppc64el 2.8-1 [76.3 kB] 355s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-xopen all 1.7.0-2 [17.0 kB] 355s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-dnaio ppc64el 1.0.1-1build1 [93.5 kB] 355s Get:6 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-cutadapt ppc64el 4.4-1build1 [362 kB] 355s Get:7 http://ftpmaster.internal/ubuntu noble/universe ppc64el cutadapt all 4.4-1build1 [6776 B] 355s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] 355s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] 355s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontenc1 ppc64el 1:1.1.8-1 [15.7 kB] 355s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el x11-common all 1:7.7+23ubuntu2 [23.4 kB] 355s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 355s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el xfonts-utils ppc64el 1:7.7+6build2 [112 kB] 355s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-urw-base35 all 20200910-8 [11.0 MB] 356s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig-config ppc64el 2.15.0-1ubuntu1 [37.0 kB] 356s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-extra all 2.37-8 [1947 kB] 356s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 356s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontconfig1 ppc64el 2.15.0-1ubuntu1 [190 kB] 356s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el libpixman-1-0 ppc64el 0.42.2-1 [300 kB] 356s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-render0 ppc64el 1.15-1 [17.2 kB] 356s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-shm0 ppc64el 1.15-1 [5896 B] 356s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1 [23.3 kB] 356s Get:23 http://ftpmaster.internal/ubuntu noble/main ppc64el libcairo2 ppc64el 1.18.0-1 [735 kB] 356s Get:24 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] 356s Get:25 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB] 356s Get:26 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240303-1ubuntu1 [161 kB] 356s Get:27 http://ftpmaster.internal/ubuntu noble/main ppc64el libgraphite2-3 ppc64el 1.3.14-2 [105 kB] 356s Get:28 http://ftpmaster.internal/ubuntu noble/main ppc64el libharfbuzz0b ppc64el 8.3.0-2 [576 kB] 356s Get:29 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1 [110 kB] 356s Get:30 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhts3 ppc64el 1.18+ds-1 [553 kB] 356s Get:31 http://ftpmaster.internal/ubuntu noble/main ppc64el libimagequant0 ppc64el 2.18.0-1 [42.5 kB] 356s Get:32 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-2ubuntu1 [212 kB] 356s Get:33 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 356s Get:34 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 356s Get:35 http://ftpmaster.internal/ubuntu noble/main ppc64el liblcms2-2 ppc64el 2.14-2 [243 kB] 356s Get:36 http://ftpmaster.internal/ubuntu noble/main ppc64el liblerc4 ppc64el 4.0.0+ds-4ubuntu1 [266 kB] 356s Get:37 http://ftpmaster.internal/ubuntu noble/main ppc64el libraqm0 ppc64el 0.10.1-1 [18.9 kB] 356s Get:38 http://ftpmaster.internal/ubuntu noble/main ppc64el libsharpyuv0 ppc64el 1.3.2-0.4 [28.7 kB] 356s Get:39 http://ftpmaster.internal/ubuntu noble/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu1 [34.7 kB] 356s Get:40 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebp7 ppc64el 1.3.2-0.4 [312 kB] 356s Get:41 http://ftpmaster.internal/ubuntu noble/main ppc64el libtiff6 ppc64el 4.5.1+git230720-3ubuntu1 [323 kB] 356s Get:42 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebpdemux2 ppc64el 1.3.2-0.4 [14.4 kB] 356s Get:43 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebpmux3 ppc64el 1.3.2-0.4 [31.2 kB] 356s Get:44 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB] 356s Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el libopenjp2-7 ppc64el 2.5.0-2 [233 kB] 356s Get:46 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-pil ppc64el 10.2.0-1 [526 kB] 356s Get:47 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-cairo ppc64el 1.25.1-2 [162 kB] 356s Get:48 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-freetype all 2.4.0-1 [83.1 kB] 356s Get:49 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-rlpycairo all 0.3.0-3 [9130 B] 356s Get:50 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-reportlab all 4.1.0-1 [683 kB] 356s Get:51 http://ftpmaster.internal/ubuntu noble/main ppc64el xml-core all 0.19 [20.3 kB] 356s Get:52 http://ftpmaster.internal/ubuntu noble/universe ppc64el w3c-sgml-lib all 1.3-3 [280 kB] 356s Get:53 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-biopython ppc64el 1.81+dfsg-3 [1738 kB] 356s Get:54 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pysam ppc64el 0.22.0+ds-1 [5037 kB] 357s Get:55 http://ftpmaster.internal/ubuntu noble/universe ppc64el bowtie2 ppc64el 2.5.2-1 [1367 kB] 357s Get:56 http://ftpmaster.internal/ubuntu noble/universe ppc64el samtools ppc64el 1.19.2-1 [669 kB] 357s Get:57 http://ftpmaster.internal/ubuntu noble/universe ppc64el optimir all 1.2-1 [1128 kB] 357s Fetched 41.1 MB in 2s (23.0 MB/s) 357s Selecting previously unselected package sgml-base. 357s (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 ... 69714 files and directories currently installed.) 357s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 357s Unpacking sgml-base (1.31) ... 357s Selecting previously unselected package pigz. 357s Preparing to unpack .../01-pigz_2.8-1_ppc64el.deb ... 357s Unpacking pigz (2.8-1) ... 357s Selecting previously unselected package python3-xopen. 357s Preparing to unpack .../02-python3-xopen_1.7.0-2_all.deb ... 357s Unpacking python3-xopen (1.7.0-2) ... 357s Selecting previously unselected package python3-dnaio. 357s Preparing to unpack .../03-python3-dnaio_1.0.1-1build1_ppc64el.deb ... 357s Unpacking python3-dnaio (1.0.1-1build1) ... 357s Selecting previously unselected package python3-cutadapt. 357s Preparing to unpack .../04-python3-cutadapt_4.4-1build1_ppc64el.deb ... 357s Unpacking python3-cutadapt (4.4-1build1) ... 357s Selecting previously unselected package cutadapt. 357s Preparing to unpack .../05-cutadapt_4.4-1build1_all.deb ... 357s Unpacking cutadapt (4.4-1build1) ... 357s Selecting previously unselected package fonts-dejavu-mono. 357s Preparing to unpack .../06-fonts-dejavu-mono_2.37-8_all.deb ... 357s Unpacking fonts-dejavu-mono (2.37-8) ... 357s Selecting previously unselected package fonts-dejavu-core. 357s Preparing to unpack .../07-fonts-dejavu-core_2.37-8_all.deb ... 357s Unpacking fonts-dejavu-core (2.37-8) ... 357s Selecting previously unselected package libfontenc1:ppc64el. 357s Preparing to unpack .../08-libfontenc1_1%3a1.1.8-1_ppc64el.deb ... 357s Unpacking libfontenc1:ppc64el (1:1.1.8-1) ... 357s Selecting previously unselected package x11-common. 357s Preparing to unpack .../09-x11-common_1%3a7.7+23ubuntu2_all.deb ... 357s Unpacking x11-common (1:7.7+23ubuntu2) ... 357s Selecting previously unselected package xfonts-encodings. 357s Preparing to unpack .../10-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 357s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 357s Selecting previously unselected package xfonts-utils. 357s Preparing to unpack .../11-xfonts-utils_1%3a7.7+6build2_ppc64el.deb ... 357s Unpacking xfonts-utils (1:7.7+6build2) ... 357s Selecting previously unselected package fonts-urw-base35. 357s Preparing to unpack .../12-fonts-urw-base35_20200910-8_all.deb ... 357s Unpacking fonts-urw-base35 (20200910-8) ... 357s Selecting previously unselected package fontconfig-config. 357s Preparing to unpack .../13-fontconfig-config_2.15.0-1ubuntu1_ppc64el.deb ... 358s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 358s Selecting previously unselected package fonts-dejavu-extra. 358s Preparing to unpack .../14-fonts-dejavu-extra_2.37-8_all.deb ... 358s Unpacking fonts-dejavu-extra (2.37-8) ... 358s Selecting previously unselected package libblas3:ppc64el. 358s Preparing to unpack .../15-libblas3_3.12.0-3_ppc64el.deb ... 358s Unpacking libblas3:ppc64el (3.12.0-3) ... 358s Selecting previously unselected package libfontconfig1:ppc64el. 358s Preparing to unpack .../16-libfontconfig1_2.15.0-1ubuntu1_ppc64el.deb ... 358s Unpacking libfontconfig1:ppc64el (2.15.0-1ubuntu1) ... 358s Selecting previously unselected package libpixman-1-0:ppc64el. 358s Preparing to unpack .../17-libpixman-1-0_0.42.2-1_ppc64el.deb ... 358s Unpacking libpixman-1-0:ppc64el (0.42.2-1) ... 358s Selecting previously unselected package libxcb-render0:ppc64el. 358s Preparing to unpack .../18-libxcb-render0_1.15-1_ppc64el.deb ... 358s Unpacking libxcb-render0:ppc64el (1.15-1) ... 358s Selecting previously unselected package libxcb-shm0:ppc64el. 358s Preparing to unpack .../19-libxcb-shm0_1.15-1_ppc64el.deb ... 358s Unpacking libxcb-shm0:ppc64el (1.15-1) ... 358s Selecting previously unselected package libxrender1:ppc64el. 358s Preparing to unpack .../20-libxrender1_1%3a0.9.10-1.1_ppc64el.deb ... 358s Unpacking libxrender1:ppc64el (1:0.9.10-1.1) ... 358s Selecting previously unselected package libcairo2:ppc64el. 358s Preparing to unpack .../21-libcairo2_1.18.0-1_ppc64el.deb ... 358s Unpacking libcairo2:ppc64el (1.18.0-1) ... 358s Selecting previously unselected package libdeflate0:ppc64el. 358s Preparing to unpack .../22-libdeflate0_1.19-1_ppc64el.deb ... 358s Unpacking libdeflate0:ppc64el (1.19-1) ... 358s Selecting previously unselected package libgfortran5:ppc64el. 358s Preparing to unpack .../23-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ... 358s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 358s Selecting previously unselected package libgomp1:ppc64el. 358s Preparing to unpack .../24-libgomp1_14-20240303-1ubuntu1_ppc64el.deb ... 358s Unpacking libgomp1:ppc64el (14-20240303-1ubuntu1) ... 358s Selecting previously unselected package libgraphite2-3:ppc64el. 358s Preparing to unpack .../25-libgraphite2-3_1.3.14-2_ppc64el.deb ... 358s Unpacking libgraphite2-3:ppc64el (1.3.14-2) ... 358s Selecting previously unselected package libharfbuzz0b:ppc64el. 358s Preparing to unpack .../26-libharfbuzz0b_8.3.0-2_ppc64el.deb ... 358s Unpacking libharfbuzz0b:ppc64el (8.3.0-2) ... 358s Selecting previously unselected package libhtscodecs2:ppc64el. 358s Preparing to unpack .../27-libhtscodecs2_1.6.0-1_ppc64el.deb ... 358s Unpacking libhtscodecs2:ppc64el (1.6.0-1) ... 358s Selecting previously unselected package libhts3:ppc64el. 358s Preparing to unpack .../28-libhts3_1.18+ds-1_ppc64el.deb ... 358s Unpacking libhts3:ppc64el (1.18+ds-1) ... 358s Selecting previously unselected package libimagequant0:ppc64el. 358s Preparing to unpack .../29-libimagequant0_2.18.0-1_ppc64el.deb ... 358s Unpacking libimagequant0:ppc64el (2.18.0-1) ... 358s Selecting previously unselected package libjpeg-turbo8:ppc64el. 358s Preparing to unpack .../30-libjpeg-turbo8_2.1.5-2ubuntu1_ppc64el.deb ... 358s Unpacking libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... 358s Selecting previously unselected package libjpeg8:ppc64el. 358s Preparing to unpack .../31-libjpeg8_8c-2ubuntu11_ppc64el.deb ... 358s Unpacking libjpeg8:ppc64el (8c-2ubuntu11) ... 358s Selecting previously unselected package liblapack3:ppc64el. 358s Preparing to unpack .../32-liblapack3_3.12.0-3_ppc64el.deb ... 358s Unpacking liblapack3:ppc64el (3.12.0-3) ... 358s Selecting previously unselected package liblcms2-2:ppc64el. 358s Preparing to unpack .../33-liblcms2-2_2.14-2_ppc64el.deb ... 358s Unpacking liblcms2-2:ppc64el (2.14-2) ... 358s Selecting previously unselected package liblerc4:ppc64el. 358s Preparing to unpack .../34-liblerc4_4.0.0+ds-4ubuntu1_ppc64el.deb ... 358s Unpacking liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... 358s Selecting previously unselected package libraqm0:ppc64el. 358s Preparing to unpack .../35-libraqm0_0.10.1-1_ppc64el.deb ... 358s Unpacking libraqm0:ppc64el (0.10.1-1) ... 358s Selecting previously unselected package libsharpyuv0:ppc64el. 358s Preparing to unpack .../36-libsharpyuv0_1.3.2-0.4_ppc64el.deb ... 358s Unpacking libsharpyuv0:ppc64el (1.3.2-0.4) ... 358s Selecting previously unselected package libjbig0:ppc64el. 358s Preparing to unpack .../37-libjbig0_2.1-6.1ubuntu1_ppc64el.deb ... 358s Unpacking libjbig0:ppc64el (2.1-6.1ubuntu1) ... 358s Selecting previously unselected package libwebp7:ppc64el. 358s Preparing to unpack .../38-libwebp7_1.3.2-0.4_ppc64el.deb ... 358s Unpacking libwebp7:ppc64el (1.3.2-0.4) ... 358s Selecting previously unselected package libtiff6:ppc64el. 358s Preparing to unpack .../39-libtiff6_4.5.1+git230720-3ubuntu1_ppc64el.deb ... 358s Unpacking libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 358s Selecting previously unselected package libwebpdemux2:ppc64el. 358s Preparing to unpack .../40-libwebpdemux2_1.3.2-0.4_ppc64el.deb ... 358s Unpacking libwebpdemux2:ppc64el (1.3.2-0.4) ... 358s Selecting previously unselected package libwebpmux3:ppc64el. 358s Preparing to unpack .../41-libwebpmux3_1.3.2-0.4_ppc64el.deb ... 358s Unpacking libwebpmux3:ppc64el (1.3.2-0.4) ... 358s Selecting previously unselected package python3-numpy. 358s Preparing to unpack .../42-python3-numpy_1%3a1.24.2-2_ppc64el.deb ... 358s Unpacking python3-numpy (1:1.24.2-2) ... 358s Selecting previously unselected package libopenjp2-7:ppc64el. 358s Preparing to unpack .../43-libopenjp2-7_2.5.0-2_ppc64el.deb ... 358s Unpacking libopenjp2-7:ppc64el (2.5.0-2) ... 358s Selecting previously unselected package python3-pil:ppc64el. 358s Preparing to unpack .../44-python3-pil_10.2.0-1_ppc64el.deb ... 358s Unpacking python3-pil:ppc64el (10.2.0-1) ... 359s Selecting previously unselected package python3-cairo. 359s Preparing to unpack .../45-python3-cairo_1.25.1-2_ppc64el.deb ... 359s Unpacking python3-cairo (1.25.1-2) ... 359s Selecting previously unselected package python3-freetype. 359s Preparing to unpack .../46-python3-freetype_2.4.0-1_all.deb ... 359s Unpacking python3-freetype (2.4.0-1) ... 359s Selecting previously unselected package python3-rlpycairo. 359s Preparing to unpack .../47-python3-rlpycairo_0.3.0-3_all.deb ... 359s Unpacking python3-rlpycairo (0.3.0-3) ... 359s Selecting previously unselected package python3-reportlab. 359s Preparing to unpack .../48-python3-reportlab_4.1.0-1_all.deb ... 359s Unpacking python3-reportlab (4.1.0-1) ... 359s Selecting previously unselected package xml-core. 359s Preparing to unpack .../49-xml-core_0.19_all.deb ... 359s Unpacking xml-core (0.19) ... 359s Selecting previously unselected package w3c-sgml-lib. 359s Preparing to unpack .../50-w3c-sgml-lib_1.3-3_all.deb ... 359s Unpacking w3c-sgml-lib (1.3-3) ... 359s Selecting previously unselected package python3-biopython. 359s Preparing to unpack .../51-python3-biopython_1.81+dfsg-3_ppc64el.deb ... 359s Unpacking python3-biopython (1.81+dfsg-3) ... 359s Selecting previously unselected package python3-pysam. 359s Preparing to unpack .../52-python3-pysam_0.22.0+ds-1_ppc64el.deb ... 359s Unpacking python3-pysam (0.22.0+ds-1) ... 359s Selecting previously unselected package bowtie2. 359s Preparing to unpack .../53-bowtie2_2.5.2-1_ppc64el.deb ... 359s Unpacking bowtie2 (2.5.2-1) ... 359s Selecting previously unselected package samtools. 359s Preparing to unpack .../54-samtools_1.19.2-1_ppc64el.deb ... 359s Unpacking samtools (1.19.2-1) ... 359s Selecting previously unselected package optimir. 359s Preparing to unpack .../55-optimir_1.2-1_all.deb ... 359s Unpacking optimir (1.2-1) ... 359s Selecting previously unselected package autopkgtest-satdep. 359s Preparing to unpack .../56-1-autopkgtest-satdep.deb ... 359s Unpacking autopkgtest-satdep (0) ... 359s Setting up libhtscodecs2:ppc64el (1.6.0-1) ... 359s Setting up libgraphite2-3:ppc64el (1.3.14-2) ... 359s Setting up liblcms2-2:ppc64el (2.14-2) ... 359s Setting up libpixman-1-0:ppc64el (0.42.2-1) ... 359s Setting up libsharpyuv0:ppc64el (1.3.2-0.4) ... 359s Setting up liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... 359s Setting up libxrender1:ppc64el (1:0.9.10-1.1) ... 359s Setting up libxcb-render0:ppc64el (1.15-1) ... 359s Setting up x11-common (1:7.7+23ubuntu2) ... 360s Setting up libdeflate0:ppc64el (1.19-1) ... 360s Setting up libxcb-shm0:ppc64el (1.15-1) ... 360s Setting up libgomp1:ppc64el (14-20240303-1ubuntu1) ... 360s Setting up python3-freetype (2.4.0-1) ... 360s Setting up libjbig0:ppc64el (2.1-6.1ubuntu1) ... 360s Setting up bowtie2 (2.5.2-1) ... 360s Setting up libfontenc1:ppc64el (1:1.1.8-1) ... 360s Setting up libblas3:ppc64el (3.12.0-3) ... 360s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 360s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 360s Setting up libimagequant0:ppc64el (2.18.0-1) ... 360s Setting up fonts-dejavu-mono (2.37-8) ... 360s Setting up fonts-dejavu-core (2.37-8) ... 360s Setting up libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... 360s Setting up libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 360s Setting up libwebp7:ppc64el (1.3.2-0.4) ... 360s Setting up fonts-dejavu-extra (2.37-8) ... 360s Setting up pigz (2.8-1) ... 360s Setting up libopenjp2-7:ppc64el (2.5.0-2) ... 360s Setting up libharfbuzz0b:ppc64el (8.3.0-2) ... 360s Setting up sgml-base (1.31) ... 360s Setting up libwebpmux3:ppc64el (1.3.2-0.4) ... 360s Setting up libjpeg8:ppc64el (8c-2ubuntu11) ... 360s Setting up liblapack3:ppc64el (3.12.0-3) ... 360s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 360s Setting up libhts3:ppc64el (1.18+ds-1) ... 360s Setting up python3-pysam (0.22.0+ds-1) ... 360s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 360s Setting up libwebpdemux2:ppc64el (1.3.2-0.4) ... 360s Setting up xfonts-utils (1:7.7+6build2) ... 360s Setting up samtools (1.19.2-1) ... 360s Setting up python3-xopen (1.7.0-2) ... 360s Setting up libraqm0:ppc64el (0.10.1-1) ... 360s Setting up python3-numpy (1:1.24.2-2) ... 362s Setting up libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 362s Setting up xml-core (0.19) ... 362s Setting up libfontconfig1:ppc64el (2.15.0-1ubuntu1) ... 362s Setting up python3-dnaio (1.0.1-1build1) ... 363s Setting up fonts-urw-base35 (20200910-8) ... 363s Setting up libcairo2:ppc64el (1.18.0-1) ... 363s Setting up python3-pil:ppc64el (10.2.0-1) ... 363s Setting up python3-cutadapt (4.4-1build1) ... 363s Setting up python3-cairo (1.25.1-2) ... 363s Setting up cutadapt (4.4-1build1) ... 363s Setting up python3-rlpycairo (0.3.0-3) ... 363s Setting up python3-reportlab (4.1.0-1) ... 364s Processing triggers for libc-bin (2.39-0ubuntu6) ... 364s Processing triggers for man-db (2.12.0-3) ... 365s Processing triggers for sgml-base (1.31) ... 365s Setting up w3c-sgml-lib (1.3-3) ... 392s Setting up python3-biopython (1.81+dfsg-3) ... 393s Setting up optimir (1.2-1) ... 393s /usr/lib/python3/dist-packages/optimir/libs/get_counts.py:453: SyntaxWarning: "is" with 'str' literal. Did you mean "=="? 393s if prefix is '': 393s Setting up autopkgtest-satdep (0) ... 396s (Reading database ... 73627 files and directories currently installed.) 396s Removing autopkgtest-satdep (0) ... 396s autopkgtest [15:54:33]: test run-unit-test: [----------------------- 397s 397s ######################### 397s ## OPTIMIR ## 397s ######################### 397s 397s Starting workflow for sample S1 397s > Starting Library preparation... 397s Library prepared! VCF available : True; Geno available : True; Elapsed time: 0.29s 397s > Starting trimming reads... (can take several minutes) 397s Trimming done! Elapsed time: 0.11s 397s > Starting collapsing reads... (can take several minutes) 397s Collapsing done! Elapsed time: 0.01s 397s > Starting mapping reads.... 397s Mapping done! Elapsed time: 0.12s 397s > Starting post-processing.... 397s - Computing Alignment score 397s - Checking genotype consistency 397s - Resolving ambigous alignments 397s - Generating outputs 397s Post-process done! Elapsed time: 0.04s 397s 397s OptimiR Run Completed. 397s Results are available in ./OptimiR_Results_Dir/OptimiR_Results/ 397s Total time: 0.57s 397s 397s 398s 398s ################################## 398s # OPTIMIR: Library Preparation # 398s ################################## 398s Library preparation : 398s Start process... Depending on the number of variants provided, the preparation can take a few seconds to several minutes... 398s Library built! 398s 398s ######################### 398s ## OPTIMIR ## 398s ######################### 398s 398s Starting workflow for sample S1 398s > Starting Library preparation... 398s Library prepared! VCF available : True; Geno available : True; Elapsed time: 0.01s 398s > Starting trimming reads... (can take several minutes) 398s Trimming done! Elapsed time: 0.1s 398s > Starting collapsing reads... (can take several minutes) 398s Collapsing done! Elapsed time: 0.01s 398s > Starting mapping reads.... 398s Mapping done! Elapsed time: 0.13s 398s > Starting post-processing.... 398s - Computing Alignment score 398s - Checking genotype consistency 398s - Resolving ambigous alignments 398s - Generating outputs 398s Post-process done! Elapsed time: 0.04s 398s 398s OptimiR Run Completed. 398s Results are available in results/OptimiR_Results/ 398s Total time: 0.29s 398s 398s 398s 398s ######################### 398s ## OPTIMIR ## 398s ######################### 398s 398s Starting workflow for sample S2 398s > Starting Library preparation... 398s Library prepared! VCF available : True; Geno available : True; Elapsed time: 0.01s 398s > Starting trimming reads... (can take several minutes) 398s Trimming done! Elapsed time: 0.1s 398s > Starting collapsing reads... (can take several minutes) 398s Collapsing done! Elapsed time: 0.01s 398s > Starting mapping reads.... 398s Mapping done! Elapsed time: 0.12s 398s > Starting post-processing.... 398s - Computing Alignment score 398s - Checking genotype consistency 398s - Resolving ambigous alignments 398s - Generating outputs 398s Post-process done! Elapsed time: 0.04s 398s 398s OptimiR Run Completed. 398s Results are available in results/OptimiR_Results/ 398s Total time: 0.27s 398s 398s 399s 399s ############################# 399s # OPTIMIR: Summary tables # 399s ############################# 399s OptimiR summary tables are available. 399s autopkgtest [15:54:36]: test run-unit-test: -----------------------] 399s autopkgtest [15:54:36]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 399s run-unit-test PASS 400s autopkgtest [15:54:37]: @@@@@@@@@@@@@@@@@@@@ summary 400s run-unit-test PASS 415s Creating nova instance adt-noble-ppc64el-optimir-20240323-154757-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-ppc64el-server-20240321.img (UUID 024d6af5-fcba-4a84-85f9-01f41e1878d6)...