0s autopkgtest [15:16:30]: starting date and time: 2024-03-23 15:16:30+0000 0s autopkgtest [15:16:30]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [15:16:30]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ez2_v3_r/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:python-pysam,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade atropos --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python-pysam/0.22.0+ds-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-2@bos01-ppc64el-20.secgroup --name adt-noble-ppc64el-atropos-20240323-151630-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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/ 130s autopkgtest [15:18:40]: testbed dpkg architecture: ppc64el 130s autopkgtest [15:18:40]: testbed apt version: 2.7.12 130s autopkgtest [15:18:40]: @@@@@@@@@@@@@@@@@@@@ test bed setup 132s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 132s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 132s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB] 132s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3969 kB] 132s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [493 kB] 132s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [659 kB] 132s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 132s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 132s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 132s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4248 kB] 132s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 132s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [60.8 kB] 132s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 135s Fetched 9623 kB in 2s (4066 kB/s) 136s Reading package lists... 138s Reading package lists... 138s Building dependency tree... 138s Reading state information... 138s Calculating upgrade... 138s The following packages will be REMOVED: 138s libssl3 138s The following NEW packages will be installed: 138s libssl3t64 138s The following packages have been kept back: 138s curl 138s The following packages will be upgraded: 138s cloud-init fonts-ubuntu-console libbsd0 libc-bin libc6 locales openssl 138s python3-markupsafe 139s 8 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 139s Need to get 12.1 MB of archives. 139s After this operation, 10.2 kB of additional disk space will be used. 139s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el libc6 ppc64el 2.39-0ubuntu6 [3274 kB] 139s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libc-bin ppc64el 2.39-0ubuntu6 [751 kB] 139s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el openssl ppc64el 3.0.13-0ubuntu2 [1026 kB] 139s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libssl3t64 ppc64el 3.0.13-0ubuntu2 [2125 kB] 139s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libbsd0 ppc64el 0.12.1-1 [56.9 kB] 139s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el locales all 2.39-0ubuntu6 [4232 kB] 140s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB] 140s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-markupsafe ppc64el 2.1.5-1build1 [13.2 kB] 140s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el cloud-init all 24.1.2-0ubuntu1 [597 kB] 140s Preconfiguring packages ... 140s Fetched 12.1 MB in 1s (8776 kB/s) 140s (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.) 140s Preparing to unpack .../libc6_2.39-0ubuntu6_ppc64el.deb ... 140s Unpacking libc6:ppc64el (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 141s Setting up libc6:ppc64el (2.39-0ubuntu6) ... 141s (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.) 141s Preparing to unpack .../libc-bin_2.39-0ubuntu6_ppc64el.deb ... 141s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 141s Setting up libc-bin (2.39-0ubuntu6) ... 141s (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.) 141s Preparing to unpack .../openssl_3.0.13-0ubuntu2_ppc64el.deb ... 141s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 141s dpkg: libssl3:ppc64el: dependency problems, but removing anyway as you requested: 141s wget depends on libssl3 (>= 3.0.0). 141s tnftp depends on libssl3 (>= 3.0.0). 141s tcpdump depends on libssl3 (>= 3.0.0). 141s systemd-resolved depends on libssl3 (>= 3.0.0). 141s systemd depends on libssl3 (>= 3.0.0). 141s sudo depends on libssl3 (>= 3.0.0). 141s rsync depends on libssl3 (>= 3.0.0). 141s python3-cryptography depends on libssl3 (>= 3.0.0). 141s openssh-server depends on libssl3 (>= 3.0.10). 141s openssh-client depends on libssl3 (>= 3.0.10). 141s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 141s libsystemd-shared:ppc64el depends on libssl3 (>= 3.0.0). 141s libssh-4:ppc64el depends on libssl3 (>= 3.0.0). 141s libsasl2-modules:ppc64el depends on libssl3 (>= 3.0.0). 141s libsasl2-2:ppc64el depends on libssl3 (>= 3.0.0). 141s libpython3.12-minimal:ppc64el depends on libssl3 (>= 3.0.0). 141s libpython3.11-minimal:ppc64el depends on libssl3 (>= 3.0.0). 141s libnvme1 depends on libssl3 (>= 3.0.0). 141s libkrb5-3:ppc64el depends on libssl3 (>= 3.0.0). 141s libkmod2:ppc64el depends on libssl3 (>= 3.0.0). 141s libfido2-1:ppc64el depends on libssl3 (>= 3.0.0). 141s libcurl4:ppc64el depends on libssl3 (>= 3.0.0). 141s libcryptsetup12:ppc64el depends on libssl3 (>= 3.0.0). 141s kmod depends on libssl3 (>= 3.0.0). 141s dhcpcd-base depends on libssl3 (>= 3.0.0). 141s bind9-libs:ppc64el depends on libssl3 (>= 3.0.0). 141s 141s (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.) 141s Removing libssl3:ppc64el (3.0.10-1ubuntu4) ... 141s Selecting previously unselected package libssl3t64:ppc64el. 141s (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.) 141s Preparing to unpack .../0-libssl3t64_3.0.13-0ubuntu2_ppc64el.deb ... 141s Unpacking libssl3t64:ppc64el (3.0.13-0ubuntu2) ... 141s Preparing to unpack .../1-libbsd0_0.12.1-1_ppc64el.deb ... 141s Unpacking libbsd0:ppc64el (0.12.1-1) over (0.11.8-1) ... 141s Preparing to unpack .../2-locales_2.39-0ubuntu6_all.deb ... 141s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 142s Preparing to unpack .../3-fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ... 142s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ... 142s Preparing to unpack .../4-python3-markupsafe_2.1.5-1build1_ppc64el.deb ... 142s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ... 142s Preparing to unpack .../5-cloud-init_24.1.2-0ubuntu1_all.deb ... 142s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ... 142s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ... 142s Setting up cloud-init (24.1.2-0ubuntu1) ... 146s Setting up libssl3t64:ppc64el (3.0.13-0ubuntu2) ... 146s Setting up locales (2.39-0ubuntu6) ... 146s Generating locales (this might take a while)... 146s en_US.UTF-8... done 146s Generation complete. 146s Setting up python3-markupsafe (2.1.5-1build1) ... 146s Setting up openssl (3.0.13-0ubuntu2) ... 146s Setting up libbsd0:ppc64el (0.12.1-1) ... 146s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 146s Processing triggers for man-db (2.12.0-3) ... 147s Processing triggers for libc-bin (2.39-0ubuntu6) ... 147s Reading package lists... 147s Building dependency tree... 147s Reading state information... 147s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 150s sh: Attempting to set up Debian/Ubuntu apt sources automatically 150s Reading package lists...sh: Distribution appears to be Ubuntu 150s 150s Building dependency tree... 150s Reading state information... 150s eatmydata is already the newest version (131-1). 150s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 150s Reading package lists... 150s Building dependency tree... 150s Reading state information... 150s dbus is already the newest version (1.14.10-4ubuntu1). 150s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 150s Reading package lists... 150s Building dependency tree... 150s Reading state information... 150s rng-tools-debian is already the newest version (2.4). 150s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 150s Reading package lists... 150s Building dependency tree... 150s Reading state information... 150s The following packages will be REMOVED: 150s cloud-init* python3-configobj* python3-debconf* 150s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 150s After this operation, 3256 kB disk space will be freed. 150s (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.) 150s Removing cloud-init (24.1.2-0ubuntu1) ... 150s Removing python3-configobj (5.0.8-3) ... 151s Removing python3-debconf (1.5.86) ... 151s Processing triggers for man-db (2.12.0-3) ... 151s (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.) 151s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 152s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 152s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 152s invoke-rc.d: policy-rc.d denied execution of try-restart. 152s Reading package lists... 152s Building dependency tree... 152s Reading state information... 152s linux-generic is already the newest version (6.8.0-11.11+1). 152s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 152s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 152s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 152s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 155s Reading package lists... 155s Reading package lists... 155s Building dependency tree... 155s Reading state information... 155s Calculating upgrade... 155s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 155s Reading package lists... 155s Building dependency tree... 155s Reading state information... 156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 156s autopkgtest [15:19:06]: rebooting testbed after setup commands that affected boot 326s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 333s autopkgtest [15:22:03]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 335s autopkgtest [15:22:05]: @@@@@@@@@@@@@@@@@@@@ apt-source atropos 337s Get:1 http://ftpmaster.internal/ubuntu noble/universe atropos 1.1.32+dfsg-1 (dsc) [2266 B] 337s Get:2 http://ftpmaster.internal/ubuntu noble/universe atropos 1.1.32+dfsg-1 (tar) [3117 kB] 337s Get:3 http://ftpmaster.internal/ubuntu noble/universe atropos 1.1.32+dfsg-1 (diff) [6496 B] 337s gpgv: Signature made Mon Dec 11 14:17:36 2023 UTC 337s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 337s gpgv: issuer "tille@debian.org" 337s gpgv: Can't check signature: No public key 337s dpkg-source: warning: cannot verify inline signature for ./atropos_1.1.32+dfsg-1.dsc: no acceptable signature found 338s autopkgtest [15:22:08]: testing package atropos version 1.1.32+dfsg-1 338s autopkgtest [15:22:08]: build not needed 338s autopkgtest [15:22:08]: test run-unit-test: preparing testbed 347s Reading package lists... 347s Building dependency tree... 347s Reading state information... 347s Starting pkgProblemResolver with broken count: 0 347s Starting 2 pkgProblemResolver with broken count: 0 347s Done 347s The following additional packages will be installed: 347s atropos libdeflate0 libhts3 libhtscodecs2 python3-all python3-iniconfig 347s python3-packaging python3-pluggy python3-pysam python3-pytest 347s The following NEW packages will be installed: 347s atropos autopkgtest-satdep libdeflate0 libhts3 libhtscodecs2 python3-all 347s python3-iniconfig python3-packaging python3-pluggy python3-pysam 347s python3-pytest 347s 0 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. 347s Need to get 6440 kB/6441 kB of archives. 347s After this operation, 50.5 MB of additional disk space will be used. 347s Get:1 /tmp/autopkgtest.j2xbRe/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [720 B] 348s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] 348s Get:3 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1 [110 kB] 348s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhts3 ppc64el 1.18+ds-1 [553 kB] 348s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pysam ppc64el 0.22.0+ds-1 [5037 kB] 348s Get:6 http://ftpmaster.internal/ubuntu noble/universe ppc64el atropos ppc64el 1.1.32+dfsg-1 [307 kB] 348s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-all ppc64el 3.12.1-0ubuntu2 [904 B] 348s Get:8 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-iniconfig all 1.1.1-2 [6024 B] 348s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-packaging all 23.2-1 [40.6 kB] 348s Get:10 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pluggy all 1.4.0-1 [20.4 kB] 348s Get:11 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pytest all 7.4.4-1 [305 kB] 349s Fetched 6440 kB in 1s (7489 kB/s) 349s Selecting previously unselected package libdeflate0:ppc64el. 349s (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.) 349s Preparing to unpack .../00-libdeflate0_1.19-1_ppc64el.deb ... 349s Unpacking libdeflate0:ppc64el (1.19-1) ... 349s Selecting previously unselected package libhtscodecs2:ppc64el. 349s Preparing to unpack .../01-libhtscodecs2_1.6.0-1_ppc64el.deb ... 349s Unpacking libhtscodecs2:ppc64el (1.6.0-1) ... 349s Selecting previously unselected package libhts3:ppc64el. 349s Preparing to unpack .../02-libhts3_1.18+ds-1_ppc64el.deb ... 349s Unpacking libhts3:ppc64el (1.18+ds-1) ... 349s Selecting previously unselected package python3-pysam. 349s Preparing to unpack .../03-python3-pysam_0.22.0+ds-1_ppc64el.deb ... 349s Unpacking python3-pysam (0.22.0+ds-1) ... 349s Selecting previously unselected package atropos. 349s Preparing to unpack .../04-atropos_1.1.32+dfsg-1_ppc64el.deb ... 349s Unpacking atropos (1.1.32+dfsg-1) ... 349s Selecting previously unselected package python3-all. 349s Preparing to unpack .../05-python3-all_3.12.1-0ubuntu2_ppc64el.deb ... 349s Unpacking python3-all (3.12.1-0ubuntu2) ... 349s Selecting previously unselected package python3-iniconfig. 349s Preparing to unpack .../06-python3-iniconfig_1.1.1-2_all.deb ... 349s Unpacking python3-iniconfig (1.1.1-2) ... 349s Selecting previously unselected package python3-packaging. 349s Preparing to unpack .../07-python3-packaging_23.2-1_all.deb ... 349s Unpacking python3-packaging (23.2-1) ... 349s Selecting previously unselected package python3-pluggy. 349s Preparing to unpack .../08-python3-pluggy_1.4.0-1_all.deb ... 349s Unpacking python3-pluggy (1.4.0-1) ... 349s Selecting previously unselected package python3-pytest. 349s Preparing to unpack .../09-python3-pytest_7.4.4-1_all.deb ... 349s Unpacking python3-pytest (7.4.4-1) ... 349s Selecting previously unselected package autopkgtest-satdep. 349s Preparing to unpack .../10-1-autopkgtest-satdep.deb ... 349s Unpacking autopkgtest-satdep (0) ... 349s Setting up libhtscodecs2:ppc64el (1.6.0-1) ... 349s Setting up python3-iniconfig (1.1.1-2) ... 349s Setting up libdeflate0:ppc64el (1.19-1) ... 349s Setting up python3-all (3.12.1-0ubuntu2) ... 349s Setting up python3-packaging (23.2-1) ... 349s Setting up python3-pluggy (1.4.0-1) ... 350s Setting up libhts3:ppc64el (1.18+ds-1) ... 350s Setting up python3-pysam (0.22.0+ds-1) ... 350s Setting up python3-pytest (7.4.4-1) ... 350s Setting up atropos (1.1.32+dfsg-1) ... 350s Setting up autopkgtest-satdep (0) ... 350s Processing triggers for man-db (2.12.0-3) ... 351s Processing triggers for libc-bin (2.39-0ubuntu6) ... 353s (Reading database ... 70342 files and directories currently installed.) 353s Removing autopkgtest-satdep (0) ... 353s autopkgtest [15:22:23]: test run-unit-test: [----------------------- 354s ============================= test session starts ============================== 354s platform linux -- Python 3.12.2, pytest-7.4.4, pluggy-1.4.0 -- /usr/bin/python3.12 354s cachedir: .pytest_cache 354s rootdir: /tmp/autopkgtest.j2xbRe/autopkgtest_tmp 362s collecting ... collected 222 items 362s 362s tests/test_adapters.py::test_issue_52 PASSED [ 0%] 362s tests/test_adapters.py::test_issue_80 PASSED [ 0%] 362s tests/test_adapters.py::test_str PASSED [ 1%] 362s tests/test_adapters.py::test_color PASSED [ 1%] 362s tests/test_adapters.py::test_parse_braces PASSED [ 2%] 362s tests/test_adapters.py::test_parse_braces_fail PASSED [ 2%] 362s tests/test_adapters.py::test_linked_adapter PASSED [ 3%] 362s tests/test_adapters.py::test_random_match_probabilities PASSED [ 3%] 362s tests/test_align.py::TestAligner::test PASSED [ 4%] 362s tests/test_align.py::TestAligner::test_100_percent_error_rate PASSED [ 4%] 362s tests/test_align.py::test_polya PASSED [ 4%] 362s tests/test_align.py::test_compare_prefixes PASSED [ 5%] 362s tests/test_align.py::test_compare_suffixes PASSED [ 5%] 362s tests/test_align.py::test_wildcards_in_adapter PASSED [ 6%] 362s tests/test_align.py::test_wildcards_in_read PASSED [ 6%] 362s tests/test_align.py::test_wildcards_in_both PASSED [ 7%] 362s tests/test_align.py::test_no_match PASSED [ 7%] 362s tests/test_align.py::test_factorial PASSED [ 8%] 362s tests/test_align.py::test_match_probability PASSED [ 8%] 362s tests/test_align.py::test_insert_align PASSED [ 9%] 362s tests/test_align.py::test_short_adapter_overlap PASSED [ 9%] 362s tests/test_align.py::test_insert_align_different_lengths PASSED [ 9%] 362s tests/test_align.py::test_multi_aligner_no_mismatches PASSED [ 10%] 362s tests/test_align.py::test_multi_aligner_with_mismatches PASSED [ 10%] 362s tests/test_atropos.py::test_example PASSED [ 11%] 362s tests/test_atropos.py::test_small PASSED [ 11%] 362s tests/test_atropos.py::test_empty PASSED [ 12%] 362s tests/test_atropos.py::test_newlines PASSED [ 12%] 362s tests/test_atropos.py::test_lowercase PASSED [ 13%] 363s tests/test_atropos.py::test_rest PASSED [ 13%] 363s tests/test_atropos.py::test_restfront PASSED [ 13%] 363s tests/test_atropos.py::test_discard PASSED [ 14%] 363s tests/test_atropos.py::test_discard_untrimmed PASSED [ 14%] 363s tests/test_atropos.py::test_plus PASSED [ 15%] 363s tests/test_atropos.py::test_extensiontxtgz PASSED [ 15%] 363s tests/test_atropos.py::test_format PASSED [ 16%] 363s tests/test_atropos.py::test_minimum_length PASSED [ 16%] 363s tests/test_atropos.py::test_too_short PASSED [ 17%] 363s tests/test_atropos.py::test_too_short_no_primer PASSED [ 17%] 363s tests/test_atropos.py::test_maximum_length PASSED [ 18%] 363s tests/test_atropos.py::test_too_long PASSED [ 18%] 363s tests/test_atropos.py::test_length_tag PASSED [ 18%] 363s tests/test_atropos.py::test_overlap_a PASSED [ 19%] 363s tests/test_atropos.py::test_overlap_b PASSED [ 19%] 363s tests/test_atropos.py::test_qualtrim PASSED [ 20%] 363s tests/test_atropos.py::test_qualbase PASSED [ 20%] 363s tests/test_atropos.py::test_quality_trim_only PASSED [ 21%] 363s tests/test_atropos.py::test_twoadapters PASSED [ 21%] 363s tests/test_atropos.py::test_polya PASSED [ 22%] 363s tests/test_atropos.py::test_polya_brace_notation PASSED [ 22%] 363s tests/test_atropos.py::test_mask_adapter PASSED [ 22%] 363s tests/test_atropos.py::test_gz_multiblock PASSED [ 23%] 363s tests/test_atropos.py::test_suffix PASSED [ 23%] 363s tests/test_atropos.py::test_read_wildcard PASSED [ 24%] 363s tests/test_atropos.py::test_adapter_wildcard PASSED [ 24%] 363s tests/test_atropos.py::test_wildcard_N PASSED [ 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tests/test_atropos.py::test_sra SKIPPED (No internet connection or s...) [ 46%] 363s tests/test_colorspace.py::test_encode PASSED [ 46%] 363s tests/test_colorspace.py::test_decode PASSED [ 47%] 363s tests/test_colorspace.py::test_qualtrim_csfastaqual PASSED [ 47%] 363s tests/test_colorspace.py::test_E3M PASSED [ 48%] 363s tests/test_colorspace.py::test_bwa PASSED [ 48%] 363s tests/test_colorspace.py::test_bfast PASSED [ 49%] 363s tests/test_colorspace.py::test_trim_095 PASSED [ 49%] 363s tests/test_colorspace.py::test_solid PASSED [ 50%] 363s tests/test_colorspace.py::test_solid_basespace_adapter PASSED [ 50%] 363s tests/test_colorspace.py::test_solid5p PASSED [ 50%] 363s tests/test_colorspace.py::test_solid5p_prefix_notrim PASSED [ 51%] 363s tests/test_colorspace.py::test_solid5p_prefix PASSED [ 51%] 363s tests/test_colorspace.py::test_solid5p_fastq PASSED [ 52%] 363s tests/test_colorspace.py::test_solid5p_prefix_notrim_fastq PASSED [ 52%] 363s tests/test_colorspace.py::test_solid5p_prefix_fastq PASSED [ 53%] 363s tests/test_colorspace.py::test_sra_fastq 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tests/test_seqio.py::TestInterleavedReader::test PASSED [ 91%] 394s tests/test_seqio.py::TestInterleavedReader::test_missing_partner PASSED [ 92%] 394s tests/test_seqio.py::TestInterleavedReader::test_incorrectly_paired PASSED [ 92%] 394s tests/test_seqio.py::TestFastaWriter::test PASSED [ 93%] 394s tests/test_seqio.py::TestFastaWriter::test_linelength PASSED [ 93%] 394s tests/test_seqio.py::TestFastaWriter::test_write_sequence_object PASSED [ 94%] 394s tests/test_seqio.py::TestFastaWriter::test_write_zero_length_sequence PASSED [ 94%] 394s tests/test_seqio.py::TestFastqWriter::test PASSED [ 95%] 394s tests/test_seqio.py::TestFastqWriter::test_twoheaders PASSED [ 95%] 394s tests/test_seqio.py::TestInterleavedWriter::test PASSED [ 95%] 394s tests/test_seqio.py::TestPairedSequenceReader::test_sequence_names_match PASSED [ 96%] 394s tests/test_seqio.py::test_truncated_gz PASSED [ 96%] 394s tests/test_seqio.py::test_truncated_gz_iter PASSED [ 97%] 394s tests/test_trim.py::test_cs_5p PASSED [ 97%] 394s tests/test_trim.py::test_statistics PASSED [ 98%] 394s tests/test_xopen.py::test_context_manager PASSED [ 98%] 394s tests/test_xopen.py::test_append PASSED [ 99%] 394s tests/test_xopen.py::test_xopen_text PASSED [ 99%] 394s tests/test_xopen.py::test_xopen_binary PASSED [100%] 394s 394s =============================== warnings summary =============================== 394s tests/test_paired.py:638 394s /tmp/autopkgtest.j2xbRe/autopkgtest_tmp/tests/test_paired.py:638: PytestUnknownMarkWarning: Unknown pytest.mark.timeout - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html 394s @pytest.mark.timeout(10) 394s 394s tests/test_paired.py::test_no_writer_process 394s tests/test_paired.py::test_no_writer_process 394s tests/test_paired.py::test_summary 394s tests/test_paired.py::test_summary 394s /usr/lib/python3.12/multiprocessing/popen_fork.py:66: DeprecationWarning: This process (pid=1400) is multi-threaded, use of fork() may lead to deadlocks in the child. 394s self.pid = os.fork() 394s 394s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 394s ================= 221 passed, 1 skipped, 5 warnings in 40.27s ================== 394s autopkgtest [15:23:04]: test run-unit-test: -----------------------] 395s run-unit-test PASS 395s autopkgtest [15:23:05]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 395s autopkgtest [15:23:05]: @@@@@@@@@@@@@@@@@@@@ summary 395s run-unit-test PASS 410s Creating nova instance adt-noble-ppc64el-atropos-20240323-151630-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240321.img (UUID 024d6af5-fcba-4a84-85f9-01f41e1878d6)...