0s autopkgtest [17:56:54]: starting date and time: 2024-03-24 17:56:54+0000 0s autopkgtest [17:56:54]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [17:56:54]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.mo2rwv2e/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 wtdbg2 --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@bos03-arm64-6.secgroup --name adt-noble-arm64-wtdbg2-20240324-175652-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-arm64-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://ftpmaster.internal/ubuntu/ 63s autopkgtest [17:57:57]: testbed dpkg architecture: arm64 63s autopkgtest [17:57:57]: testbed apt version: 2.7.12 63s autopkgtest [17:57:57]: @@@@@@@@@@@@@@@@@@@@ test bed setup 64s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 65s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [57.3 kB] 65s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3986 kB] 65s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [496 kB] 65s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 65s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [710 kB] 65s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 65s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [33.7 kB] 65s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 65s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [4364 kB] 65s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 65s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [70.1 kB] 65s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 66s Fetched 9851 kB in 2s (5756 kB/s) 67s Reading package lists... 70s Reading package lists... 70s Building dependency tree... 70s Reading state information... 70s Calculating upgrade... 71s The following packages will be REMOVED: 71s libssl3 71s The following NEW packages will be installed: 71s libssl3t64 71s The following packages have been kept back: 71s curl 71s The following packages will be upgraded: 71s openssl 71s 1 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 71s Need to get 2777 kB of archives. 71s After this operation, 139 kB of additional disk space will be used. 71s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu2 [985 kB] 71s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu2 [1793 kB] 72s Fetched 2777 kB in 1s (4077 kB/s) 72s (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 ... 74819 files and directories currently installed.) 72s Preparing to unpack .../openssl_3.0.13-0ubuntu2_arm64.deb ... 72s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 72s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 72s wget depends on libssl3 (>= 3.0.0). 72s u-boot-tools depends on libssl3 (>= 3.0.0). 72s tnftp depends on libssl3 (>= 3.0.0). 72s tcpdump depends on libssl3 (>= 3.0.0). 72s systemd-resolved depends on libssl3 (>= 3.0.0). 72s systemd depends on libssl3 (>= 3.0.0). 72s sudo depends on libssl3 (>= 3.0.0). 72s sbsigntool depends on libssl3 (>= 3.0.0). 72s rsync depends on libssl3 (>= 3.0.0). 72s python3-cryptography depends on libssl3 (>= 3.0.0). 72s openssh-server depends on libssl3 (>= 3.0.10). 72s openssh-client depends on libssl3 (>= 3.0.10). 72s mtd-utils depends on libssl3 (>= 3.0.0). 72s mokutil depends on libssl3 (>= 3.0.0). 72s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 72s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 72s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 72s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 72s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 72s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 72s libnvme1 depends on libssl3 (>= 3.0.0). 72s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 72s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 72s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 72s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 72s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 72s kmod depends on libssl3 (>= 3.0.0). 72s dhcpcd-base depends on libssl3 (>= 3.0.0). 72s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 72s 72s (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 ... 74819 files and directories currently installed.) 72s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 72s Selecting previously unselected package libssl3t64:arm64. 72s (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 ... 74808 files and directories currently installed.) 72s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_arm64.deb ... 72s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu2) ... 72s Setting up libssl3t64:arm64 (3.0.13-0ubuntu2) ... 72s Setting up openssl (3.0.13-0ubuntu2) ... 72s Processing triggers for man-db (2.12.0-3) ... 73s Processing triggers for libc-bin (2.39-0ubuntu6) ... 73s Reading package lists... 74s Building dependency tree... 74s Reading state information... 74s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 75s sh: Attempting to set up Debian/Ubuntu apt sources automatically 75s sh: Distribution appears to be Ubuntu 76s Reading package lists... 76s Building dependency tree... 76s Reading state information... 76s eatmydata is already the newest version (131-1). 76s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 77s Reading package lists... 77s Building dependency tree... 77s Reading state information... 77s dbus is already the newest version (1.14.10-4ubuntu1). 77s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 78s Reading package lists... 78s Building dependency tree... 78s Reading state information... 79s rng-tools-debian is already the newest version (2.4). 79s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 79s Reading package lists... 79s Building dependency tree... 79s Reading state information... 79s The following packages will be REMOVED: 79s cloud-init* python3-configobj* python3-debconf* 79s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 79s After this operation, 3256 kB disk space will be freed. 80s (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 ... 74821 files and directories currently installed.) 80s Removing cloud-init (24.1.2-0ubuntu1) ... 80s Removing python3-configobj (5.0.8-3) ... 80s Removing python3-debconf (1.5.86) ... 80s Processing triggers for man-db (2.12.0-3) ... 80s (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 ... 74432 files and directories currently installed.) 80s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 81s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 81s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 81s invoke-rc.d: policy-rc.d denied execution of try-restart. 81s Reading package lists... 81s Building dependency tree... 81s Reading state information... 82s linux-generic is already the newest version (6.8.0-11.11+1). 82s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 82s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 83s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 83s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 85s Reading package lists... 85s Reading package lists... 85s Building dependency tree... 85s Reading state information... 85s Calculating upgrade... 86s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 87s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 87s autopkgtest [17:58:21]: rebooting testbed after setup commands that affected boot 114s autopkgtest [17:58:48]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 117s autopkgtest [17:58:51]: @@@@@@@@@@@@@@@@@@@@ apt-source wtdbg2 122s Get:1 http://ftpmaster.internal/ubuntu noble/universe wtdbg2 2.5-9 (dsc) [2079 B] 122s Get:2 http://ftpmaster.internal/ubuntu noble/universe wtdbg2 2.5-9 (tar) [237 kB] 122s Get:3 http://ftpmaster.internal/ubuntu noble/universe wtdbg2 2.5-9 (diff) [121 MB] 123s gpgv: Signature made Thu Dec 1 16:43:57 2022 UTC 123s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 123s gpgv: issuer "tille@debian.org" 123s gpgv: Can't check signature: No public key 123s dpkg-source: warning: cannot verify inline signature for ./wtdbg2_2.5-9.dsc: no acceptable signature found 124s autopkgtest [17:58:58]: testing package wtdbg2 version 2.5-9 129s autopkgtest [17:59:03]: build not needed 133s autopkgtest [17:59:07]: test run-unit-test: preparing testbed 139s Reading package lists... 140s Building dependency tree... 140s Reading state information... 140s Starting pkgProblemResolver with broken count: 0 140s Starting 2 pkgProblemResolver with broken count: 0 140s Done 141s The following additional packages will be installed: 141s bwa libdeflate0 libhts3 libhtscodecs2 minimap2 samtools wtdbg2-examples 141s Suggested packages: 141s cwltool 141s The following NEW packages will be installed: 141s autopkgtest-satdep bwa libdeflate0 libhts3 libhtscodecs2 minimap2 samtools 141s wtdbg2-examples 141s 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. 141s Need to get 123 MB/123 MB of archives. 141s After this operation, 125 MB of additional disk space will be used. 141s Get:1 /tmp/autopkgtest.eljlau/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [728 B] 142s Get:2 http://ftpmaster.internal/ubuntu noble/universe arm64 bwa arm64 0.7.17-7 [192 kB] 142s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 142s Get:4 http://ftpmaster.internal/ubuntu noble/universe arm64 libhtscodecs2 arm64 1.6.0-1 [78.1 kB] 142s Get:5 http://ftpmaster.internal/ubuntu noble/universe arm64 libhts3 arm64 1.18+ds-1 [422 kB] 142s Get:6 http://ftpmaster.internal/ubuntu noble/universe arm64 minimap2 arm64 2.24+dfsg-3build2 [379 kB] 142s Get:7 http://ftpmaster.internal/ubuntu noble/universe arm64 samtools arm64 1.19.2-1 [584 kB] 142s Get:8 http://ftpmaster.internal/ubuntu noble/universe arm64 wtdbg2-examples all 2.5-9 [121 MB] 146s Fetched 123 MB in 4s (33.1 MB/s) 146s Selecting previously unselected package bwa. 146s (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 ... 74377 files and directories currently installed.) 146s Preparing to unpack .../0-bwa_0.7.17-7_arm64.deb ... 146s Unpacking bwa (0.7.17-7) ... 146s Selecting previously unselected package libdeflate0:arm64. 146s Preparing to unpack .../1-libdeflate0_1.19-1_arm64.deb ... 146s Unpacking libdeflate0:arm64 (1.19-1) ... 146s Selecting previously unselected package libhtscodecs2:arm64. 146s Preparing to unpack .../2-libhtscodecs2_1.6.0-1_arm64.deb ... 146s Unpacking libhtscodecs2:arm64 (1.6.0-1) ... 146s Selecting previously unselected package libhts3:arm64. 146s Preparing to unpack .../3-libhts3_1.18+ds-1_arm64.deb ... 146s Unpacking libhts3:arm64 (1.18+ds-1) ... 146s Selecting previously unselected package minimap2. 146s Preparing to unpack .../4-minimap2_2.24+dfsg-3build2_arm64.deb ... 146s Unpacking minimap2 (2.24+dfsg-3build2) ... 146s Selecting previously unselected package samtools. 146s Preparing to unpack .../5-samtools_1.19.2-1_arm64.deb ... 146s Unpacking samtools (1.19.2-1) ... 146s Selecting previously unselected package wtdbg2-examples. 146s Preparing to unpack .../6-wtdbg2-examples_2.5-9_all.deb ... 146s Unpacking wtdbg2-examples (2.5-9) ... 147s Selecting previously unselected package autopkgtest-satdep. 147s Preparing to unpack .../7-1-autopkgtest-satdep.deb ... 147s Unpacking autopkgtest-satdep (0) ... 147s Setting up libhtscodecs2:arm64 (1.6.0-1) ... 147s Setting up bwa (0.7.17-7) ... 147s Setting up minimap2 (2.24+dfsg-3build2) ... 147s Setting up libdeflate0:arm64 (1.19-1) ... 147s Setting up wtdbg2-examples (2.5-9) ... 147s Setting up libhts3:arm64 (1.18+ds-1) ... 147s Setting up samtools (1.19.2-1) ... 147s Setting up autopkgtest-satdep (0) ... 147s Processing triggers for man-db (2.12.0-3) ... 147s Processing triggers for libc-bin (2.39-0ubuntu6) ... 151s (Reading database ... 74524 files and directories currently installed.) 151s Removing autopkgtest-satdep (0) ... 151s autopkgtest [17:59:25]: test run-unit-test: [----------------------- 154s selfSampleData/reference.fasta 154s selfSampleData/pacbio_filtered.fastq 154s selfSampleData/README 154s selfSampleData/pacbio.spec 154s Begin Execution 154s /tmp/autopkgtest.eljlau/build.0ze/src/debian/tests/run-unit-test: line 19: wtdbg2: command not found 155s autopkgtest [17:59:29]: test run-unit-test: -----------------------] 155s autopkgtest [17:59:29]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 155s run-unit-test FAIL non-zero exit status 127 155s autopkgtest [17:59:29]: @@@@@@@@@@@@@@@@@@@@ summary 155s run-unit-test FAIL non-zero exit status 127 160s Creating nova instance adt-noble-arm64-wtdbg2-20240324-175652-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-arm64-server-20240324.img (UUID 943dd583-2042-4622-b4ce-bdf10ad153ac)...