0s autopkgtest [06:56:05]: starting date and time: 2024-05-29 06:56:05+0000 0s autopkgtest [06:56:05]: git checkout: 930f72e5 setup-testbed: don't install 'Recommends' for 'linux-generic' 0s autopkgtest [06:56:05]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.p63d5ctv/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:dazzdb --apt-upgrade pbdagcon --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=dazzdb/1.0+git20240115.be65e59-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos01-ppc64el-22.secgroup --name adt-oracular-ppc64el-pbdagcon-20240529-065605-juju-7f2275-prod-proposed-migration-environment-3-2d487af7-a8d4-4209-8165-6eb720808749 --image adt/ubuntu-oracular-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,keyserver.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/ 134s autopkgtest [06:58:19]: testbed dpkg architecture: ppc64el 134s autopkgtest [06:58:19]: testbed apt version: 2.9.3 134s autopkgtest [06:58:19]: @@@@@@@@@@@@@@@@@@@@ test bed setup 135s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [73.9 kB] 135s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [58.2 kB] 135s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [1964 B] 135s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [508 kB] 135s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [2568 B] 135s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main ppc64el Packages [129 kB] 135s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/universe ppc64el Packages [556 kB] 135s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse ppc64el Packages [1392 B] 135s Fetched 1330 kB in 1s (1614 kB/s) 136s Reading package lists... 138s Reading package lists... 138s Building dependency tree... 138s Reading state information... 138s Calculating upgrade... 138s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 138s Reading package lists... 138s Building dependency tree... 138s Reading state information... 138s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 139s Hit:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 139s Hit:2 http://ftpmaster.internal/ubuntu oracular InRelease 139s Hit:3 http://ftpmaster.internal/ubuntu oracular-updates InRelease 139s Hit:4 http://ftpmaster.internal/ubuntu oracular-security InRelease 140s Reading package lists... 140s Reading package lists... 140s Building dependency tree... 140s Reading state information... 140s Calculating upgrade... 140s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 140s Reading package lists... 140s Building dependency tree... 140s Reading state information... 141s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 143s autopkgtest [06:58:28]: testbed running kernel: Linux 6.8.0-31-generic #31-Ubuntu SMP Sat Apr 20 00:05:55 UTC 2024 143s autopkgtest [06:58:28]: @@@@@@@@@@@@@@@@@@@@ apt-source pbdagcon 145s Get:1 http://ftpmaster.internal/ubuntu oracular/universe pbdagcon 0.3+git20180411.c14c422+dfsg-8build3 (dsc) [2475 B] 145s Get:2 http://ftpmaster.internal/ubuntu oracular/universe pbdagcon 0.3+git20180411.c14c422+dfsg-8build3 (tar) [79.8 kB] 145s Get:3 http://ftpmaster.internal/ubuntu oracular/universe pbdagcon 0.3+git20180411.c14c422+dfsg-8build3 (diff) [58.3 kB] 145s gpgv: Signature made Mon Nov 13 17:59:32 2023 UTC 145s gpgv: using RSA key 92978A6E195E4921825F7FF0F34F09744E9F5DD9 145s gpgv: Can't check signature: No public key 145s dpkg-source: warning: cannot verify inline signature for ./pbdagcon_0.3+git20180411.c14c422+dfsg-8build3.dsc: no acceptable signature found 145s autopkgtest [06:58:30]: testing package pbdagcon version 0.3+git20180411.c14c422+dfsg-8build3 146s autopkgtest [06:58:31]: build not needed 146s autopkgtest [06:58:31]: test run-unit-test: preparing testbed 147s Reading package lists... 147s Building dependency tree... 147s Reading state information... 147s Starting pkgProblemResolver with broken count: 0 147s Starting 2 pkgProblemResolver with broken count: 0 147s Done 147s The following additional packages will be installed: 147s blasr daligner dazzdb libaec0 libblasr5.3.5 libhdf5-103-1t64 147s libhdf5-cpp-103-1t64 libhts3t64 libhtscodecs2 libpbbam2.4.0 libpbcopper2.3.0 147s libpbseq libsz2 pbdagcon 147s Suggested packages: 147s dascrubber 147s The following NEW packages will be installed: 147s autopkgtest-satdep blasr daligner dazzdb libaec0 libblasr5.3.5 147s libhdf5-103-1t64 libhdf5-cpp-103-1t64 libhts3t64 libhtscodecs2 libpbbam2.4.0 147s libpbcopper2.3.0 libpbseq libsz2 pbdagcon 148s 0 upgraded, 15 newly installed, 0 to remove and 0 not upgraded. 148s Need to get 5719 kB/5720 kB of archives. 148s After this operation, 20.7 MB of additional disk space will be used. 148s Get:1 /tmp/autopkgtest.EpcTAX/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [740 B] 148s Get:2 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libaec0 ppc64el 1.1.3-1 [30.1 kB] 148s Get:3 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libsz2 ppc64el 1.1.3-1 [5566 B] 148s Get:4 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libhdf5-103-1t64 ppc64el 1.10.10+repack-3.1ubuntu4 [1395 kB] 148s Get:5 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libhdf5-cpp-103-1t64 ppc64el 1.10.10+repack-3.1ubuntu4 [130 kB] 148s Get:6 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1build1 [110 kB] 148s Get:7 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libhts3t64 ppc64el 1.19+ds-1.1build3 [569 kB] 148s Get:8 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libpbcopper2.3.0 ppc64el 2.3.0+dfsg-2 [594 kB] 148s Get:9 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libpbbam2.4.0 ppc64el 2.4.0+dfsg-1build2 [752 kB] 148s Get:10 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libblasr5.3.5 ppc64el 5.3.5+dfsg-6build5 [1255 kB] 148s Get:11 http://ftpmaster.internal/ubuntu oracular/universe ppc64el libpbseq ppc64el 5.3.5+dfsg-6build5 [3062 B] 148s Get:12 http://ftpmaster.internal/ubuntu oracular/universe ppc64el blasr ppc64el 5.3.5+dfsg-6build5 [264 kB] 148s Get:13 http://ftpmaster.internal/ubuntu oracular/universe ppc64el daligner ppc64el 1.0+git20240119.335105d-2 [172 kB] 148s Get:14 http://ftpmaster.internal/ubuntu oracular-proposed/universe ppc64el dazzdb ppc64el 1.0+git20240115.be65e59-1 [159 kB] 148s Get:15 http://ftpmaster.internal/ubuntu oracular/universe ppc64el pbdagcon ppc64el 0.3+git20180411.c14c422+dfsg-8build3 [279 kB] 149s Fetched 5719 kB in 1s (6416 kB/s) 149s Selecting previously unselected package libaec0:ppc64el. 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 72607 files and directories currently installed.) 149s Preparing to unpack .../00-libaec0_1.1.3-1_ppc64el.deb ... 149s Unpacking libaec0:ppc64el (1.1.3-1) ... 149s Selecting previously unselected package libsz2:ppc64el. 149s Preparing to unpack .../01-libsz2_1.1.3-1_ppc64el.deb ... 149s Unpacking libsz2:ppc64el (1.1.3-1) ... 149s Selecting previously unselected package libhdf5-103-1t64:ppc64el. 149s Preparing to unpack .../02-libhdf5-103-1t64_1.10.10+repack-3.1ubuntu4_ppc64el.deb ... 149s Unpacking libhdf5-103-1t64:ppc64el (1.10.10+repack-3.1ubuntu4) ... 149s Selecting previously unselected package libhdf5-cpp-103-1t64:ppc64el. 149s Preparing to unpack .../03-libhdf5-cpp-103-1t64_1.10.10+repack-3.1ubuntu4_ppc64el.deb ... 149s Unpacking libhdf5-cpp-103-1t64:ppc64el (1.10.10+repack-3.1ubuntu4) ... 149s Selecting previously unselected package libhtscodecs2:ppc64el. 149s Preparing to unpack .../04-libhtscodecs2_1.6.0-1build1_ppc64el.deb ... 149s Unpacking libhtscodecs2:ppc64el (1.6.0-1build1) ... 149s Selecting previously unselected package libhts3t64:ppc64el. 149s Preparing to unpack .../05-libhts3t64_1.19+ds-1.1build3_ppc64el.deb ... 149s Unpacking libhts3t64:ppc64el (1.19+ds-1.1build3) ... 149s Selecting previously unselected package libpbcopper2.3.0:ppc64el. 149s Preparing to unpack .../06-libpbcopper2.3.0_2.3.0+dfsg-2_ppc64el.deb ... 149s Unpacking libpbcopper2.3.0:ppc64el (2.3.0+dfsg-2) ... 149s Selecting previously unselected package libpbbam2.4.0:ppc64el. 149s Preparing to unpack .../07-libpbbam2.4.0_2.4.0+dfsg-1build2_ppc64el.deb ... 149s Unpacking libpbbam2.4.0:ppc64el (2.4.0+dfsg-1build2) ... 149s Selecting previously unselected package libblasr5.3.5:ppc64el. 149s Preparing to unpack .../08-libblasr5.3.5_5.3.5+dfsg-6build5_ppc64el.deb ... 149s Unpacking libblasr5.3.5:ppc64el (5.3.5+dfsg-6build5) ... 149s Selecting previously unselected package libpbseq:ppc64el. 149s Preparing to unpack .../09-libpbseq_5.3.5+dfsg-6build5_ppc64el.deb ... 149s Unpacking libpbseq:ppc64el (5.3.5+dfsg-6build5) ... 149s Selecting previously unselected package blasr. 149s Preparing to unpack .../10-blasr_5.3.5+dfsg-6build5_ppc64el.deb ... 149s Unpacking blasr (5.3.5+dfsg-6build5) ... 149s Selecting previously unselected package daligner. 149s Preparing to unpack .../11-daligner_1.0+git20240119.335105d-2_ppc64el.deb ... 149s Unpacking daligner (1.0+git20240119.335105d-2) ... 149s Selecting previously unselected package dazzdb. 149s Preparing to unpack .../12-dazzdb_1.0+git20240115.be65e59-1_ppc64el.deb ... 149s Unpacking dazzdb (1.0+git20240115.be65e59-1) ... 149s Selecting previously unselected package pbdagcon. 149s Preparing to unpack .../13-pbdagcon_0.3+git20180411.c14c422+dfsg-8build3_ppc64el.deb ... 149s Unpacking pbdagcon (0.3+git20180411.c14c422+dfsg-8build3) ... 149s Selecting previously unselected package autopkgtest-satdep. 149s Preparing to unpack .../14-1-autopkgtest-satdep.deb ... 149s Unpacking autopkgtest-satdep (0) ... 149s Setting up libhtscodecs2:ppc64el (1.6.0-1build1) ... 149s Setting up libaec0:ppc64el (1.1.3-1) ... 149s Setting up dazzdb (1.0+git20240115.be65e59-1) ... 149s Setting up daligner (1.0+git20240119.335105d-2) ... 149s Setting up libhts3t64:ppc64el (1.19+ds-1.1build3) ... 149s Setting up libsz2:ppc64el (1.1.3-1) ... 149s Setting up libpbcopper2.3.0:ppc64el (2.3.0+dfsg-2) ... 149s Setting up libpbbam2.4.0:ppc64el (2.4.0+dfsg-1build2) ... 149s Setting up libhdf5-103-1t64:ppc64el (1.10.10+repack-3.1ubuntu4) ... 149s Setting up libhdf5-cpp-103-1t64:ppc64el (1.10.10+repack-3.1ubuntu4) ... 149s Setting up libblasr5.3.5:ppc64el (5.3.5+dfsg-6build5) ... 149s Setting up libpbseq:ppc64el (5.3.5+dfsg-6build5) ... 149s Setting up blasr (5.3.5+dfsg-6build5) ... 149s Setting up pbdagcon (0.3+git20180411.c14c422+dfsg-8build3) ... 149s Setting up autopkgtest-satdep (0) ... 149s Processing triggers for man-db (2.12.1-1) ... 150s Processing triggers for libc-bin (2.39-0ubuntu8.1) ... 152s (Reading database ... 72782 files and directories currently installed.) 152s Removing autopkgtest-satdep (0) ... 152s autopkgtest [06:58:37]: test run-unit-test: [----------------------- 152s Test 1 152s [INFO] 2024-05-29T06:58:37 [blasr] started. 153s [INFO] 2024-05-29T06:58:37 [blasr] ended. 153s 2024-05-29 06:58:37,998 INFO [default] Multi-threaded. Input: mapped.m5, Threads: 4 153s 2024-05-29 06:58:38,000 DEBUG [Reader] [ubuntu@unknown-host] [FUNCTION] [FILE:0] Consensus candidate: random 153s 2024-05-29 06:58:38,000 INFO [Consensus] Consensus calling: random Alignments: 21 153s consensus.fasta: OK 153s mapped.m5: OK 153s queries.fasta: OK 153s target.dam: FAILED 153s target.fasta: OK 153s md5sum: WARNING: 1 computed checksum did NOT match 153s autopkgtest [06:58:38]: test run-unit-test: -----------------------] 153s autopkgtest [06:58:38]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 153s run-unit-test FAIL non-zero exit status 1 154s autopkgtest [06:58:39]: @@@@@@@@@@@@@@@@@@@@ summary 154s run-unit-test FAIL non-zero exit status 1 166s Creating nova instance adt-oracular-ppc64el-pbdagcon-20240529-065605-juju-7f2275-prod-proposed-migration-environment-3-2d487af7-a8d4-4209-8165-6eb720808749 from image adt/ubuntu-oracular-ppc64el-server-20240528.img (UUID 0c801691-adf3-4066-841d-d887bf6e372c)...