0s autopkgtest [04:13:19]: starting date and time: 2026-02-05 04:13:19+0000 0s autopkgtest [04:13:19]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [04:13:19]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.dk2nt3c6/out --timeout-copy=6000 --needs-internet=try --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc,src:chiark-tcl --apt-upgrade mira --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=glibc/2.42-2ubuntu5 chiark-tcl/1.3.7build1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-arm64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-arm64-37.secgroup --name adt-resolute-arm64-mira-20260205-041318-juju-7f2275-prod-proposed-migration-environment-2-42fedfc8-95b3-4fac-9a28-3856e2479023 --image adt/ubuntu-resolute-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-arm64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-arm64-mira-20260205-041318-juju-7f2275-prod-proposed-migration-environment-2-42fedfc8-95b3-4fac-9a28-3856e2479023 from image adt/ubuntu-resolute-arm64-server-20260204.img (UUID f58d981d-b271-4157-b9b1-fd704695563c)... 66s autopkgtest [04:14:25]: testbed dpkg architecture: arm64 66s autopkgtest [04:14:25]: testbed apt version: 3.1.14 67s autopkgtest [04:14:26]: @@@@@@@@@@@@@@@@@@@@ test bed setup 67s autopkgtest [04:14:26]: testbed release detected to be: None 68s autopkgtest [04:14:27]: updating testbed package index (apt update) 69s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 69s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 69s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 69s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 69s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [35.4 kB] 69s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [227 kB] 69s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [5260 B] 69s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1719 kB] 70s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 Packages [265 kB] 70s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 c-n-f Metadata [7328 B] 70s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 Packages [52.9 kB] 70s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 c-n-f Metadata [328 B] 70s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 Packages [1481 kB] 70s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 c-n-f Metadata [40.2 kB] 70s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 Packages [26.0 kB] 70s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 c-n-f Metadata [776 B] 74s Fetched 3984 kB in 2s (1779 kB/s) 75s Reading package lists... 75s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 75s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 75s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 75s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 76s Reading package lists... 76s Reading package lists... 77s Building dependency tree... 77s Reading state information... 77s Calculating upgrade... 77s The following packages will be upgraded: 77s libc-bin libc-gconv-modules-extra libc6 locales pollinate python3-linkify-it 77s python3-referencing sed 77s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 77s Need to get 8110 kB of archives. 77s After this operation, 0 B of additional disk space will be used. 77s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 sed arm64 4.9-2build3 [193 kB] 77s Get:2 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc-gconv-modules-extra arm64 2.42-2ubuntu5 [1413 kB] 78s Get:3 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc6 arm64 2.42-2ubuntu5 [1594 kB] 78s Get:4 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc-bin arm64 2.42-2ubuntu5 [599 kB] 78s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 locales all 2.42-2ubuntu5 [4255 kB] 78s Get:6 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB] 78s Get:7 http://ftpmaster.internal/ubuntu resolute/main arm64 pollinate all 4.33-4ubuntu5 [14.0 kB] 78s Get:8 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB] 78s dpkg-preconfigure: unable to re-open stdin: No such file or directory 78s Fetched 8110 kB in 1s (15.3 MB/s) 79s (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 ... 89360 files and directories currently installed.) 79s Preparing to unpack .../sed_4.9-2build3_arm64.deb ... 79s Unpacking sed (4.9-2build3) over (4.9-2build2) ... 79s Setting up sed (4.9-2build3) ... 79s (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 ... 89360 files and directories currently installed.) 79s Preparing to unpack .../libc-gconv-modules-extra_2.42-2ubuntu5_arm64.deb ... 79s Unpacking libc-gconv-modules-extra:arm64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 79s Setting up libc-gconv-modules-extra:arm64 (2.42-2ubuntu5) ... 79s (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 ... 89360 files and directories currently installed.) 79s Preparing to unpack .../libc6_2.42-2ubuntu5_arm64.deb ... 80s Unpacking libc6:arm64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 80s Setting up libc6:arm64 (2.42-2ubuntu5) ... 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 ... 89360 files and directories currently installed.) 80s Preparing to unpack .../libc-bin_2.42-2ubuntu5_arm64.deb ... 80s Unpacking libc-bin (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 80s Setting up libc-bin (2.42-2ubuntu5) ... 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 ... 89360 files and directories currently installed.) 80s Preparing to unpack .../locales_2.42-2ubuntu5_all.deb ... 81s Unpacking locales (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 81s Preparing to unpack .../python3-linkify-it_2.0.3-1ubuntu3_all.deb ... 81s Unpacking python3-linkify-it (2.0.3-1ubuntu3) over (2.0.3-1ubuntu2) ... 81s Preparing to unpack .../pollinate_4.33-4ubuntu5_all.deb ... 81s Unpacking pollinate (4.33-4ubuntu5) over (4.33-4ubuntu4) ... 81s Preparing to unpack .../python3-referencing_0.36.2-1ubuntu2_all.deb ... 81s Unpacking python3-referencing (0.36.2-1ubuntu2) over (0.36.2-1ubuntu1) ... 81s Setting up locales (2.42-2ubuntu5) ... 82s Generating locales (this might take a while)... 84s en_US.UTF-8... done 84s Generation complete. 84s Setting up pollinate (4.33-4ubuntu5) ... 95s Setting up python3-linkify-it (2.0.3-1ubuntu3) ... 95s Setting up python3-referencing (0.36.2-1ubuntu2) ... 95s Processing triggers for man-db (2.13.1-1) ... 97s Processing triggers for install-info (7.2-5) ... 97s Processing triggers for systemd (259-1ubuntu3) ... 99s autopkgtest [04:14:58]: upgrading testbed (apt dist-upgrade and autopurge) 99s Reading package lists... 99s Building dependency tree... 99s Reading state information... 99s Calculating upgrade... 100s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 100s Reading package lists... 100s Building dependency tree... 100s Reading state information... 100s Solving dependencies... 101s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 101s autopkgtest [04:15:00]: rebooting testbed after setup commands that affected boot 140s autopkgtest [04:15:39]: testbed running kernel: Linux 6.18.0-9-generic #9-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 12 16:41:39 UTC 2026 143s autopkgtest [04:15:42]: @@@@@@@@@@@@@@@@@@@@ apt-source mira 146s Get:1 http://ftpmaster.internal/ubuntu resolute/universe mira 4.9.6-11build2 (dsc) [2441 B] 146s Get:2 http://ftpmaster.internal/ubuntu resolute/universe mira 4.9.6-11build2 (tar) [15.0 MB] 146s Get:3 http://ftpmaster.internal/ubuntu resolute/universe mira 4.9.6-11build2 (diff) [34.0 kB] 146s gpgv: Signature made Wed Aug 6 15:08:30 2025 UTC 146s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 146s gpgv: Can't check signature: No public key 146s dpkg-source: warning: cannot verify inline signature for ./mira_4.9.6-11build2.dsc: no acceptable signature found 148s autopkgtest [04:15:47]: testing package mira version 4.9.6-11build2 149s autopkgtest [04:15:48]: build not needed 151s autopkgtest [04:15:50]: test run-unit-test: preparing testbed 151s Reading package lists... 151s Building dependency tree... 151s Reading state information... 151s Solving dependencies... 152s The following NEW packages will be installed: 152s libboost-filesystem1.88.0 libboost-thread1.88.0 libgomp1 mira-assembler 152s mira-doc mira-rfam-12s-rrna 152s 0 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. 152s Need to get 16.5 MB of archives. 152s After this operation, 25.7 MB of additional disk space will be used. 152s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 libboost-filesystem1.88.0 arm64 1.88.0-1.4ubuntu3 [290 kB] 152s Get:2 http://ftpmaster.internal/ubuntu resolute/main arm64 libboost-thread1.88.0 arm64 1.88.0-1.4ubuntu3 [273 kB] 152s Get:3 http://ftpmaster.internal/ubuntu resolute/main arm64 libgomp1 arm64 15.2.0-12ubuntu1 [147 kB] 152s Get:4 http://ftpmaster.internal/ubuntu resolute/universe arm64 mira-assembler arm64 4.9.6-11build2 [2578 kB] 153s Get:5 http://ftpmaster.internal/ubuntu resolute/universe arm64 mira-rfam-12s-rrna all 4.9.6-11build2 [10.4 MB] 153s Get:6 http://ftpmaster.internal/ubuntu resolute/universe arm64 mira-doc all 4.9.6-11build2 [2817 kB] 154s Fetched 16.5 MB in 2s (8830 kB/s) 154s Selecting previously unselected package libboost-filesystem1.88.0:arm64. 154s (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 ... 89360 files and directories currently installed.) 154s Preparing to unpack .../libboost-filesystem1.88.0_1.88.0-1.4ubuntu3_arm64.deb ... 154s Unpacking libboost-filesystem1.88.0:arm64 (1.88.0-1.4ubuntu3) ... 154s Selecting previously unselected package libboost-thread1.88.0:arm64. 154s Preparing to unpack .../libboost-thread1.88.0_1.88.0-1.4ubuntu3_arm64.deb ... 154s Unpacking libboost-thread1.88.0:arm64 (1.88.0-1.4ubuntu3) ... 154s Selecting previously unselected package libgomp1:arm64. 154s Preparing to unpack .../libgomp1_15.2.0-12ubuntu1_arm64.deb ... 154s Unpacking libgomp1:arm64 (15.2.0-12ubuntu1) ... 155s Selecting previously unselected package mira-assembler. 155s Preparing to unpack .../mira-assembler_4.9.6-11build2_arm64.deb ... 155s Unpacking mira-assembler (4.9.6-11build2) ... 155s Setting up libboost-filesystem1.88.0:arm64 (1.88.0-1.4ubuntu3) ... 155s Setting up libboost-thread1.88.0:arm64 (1.88.0-1.4ubuntu3) ... 155s Setting up libgomp1:arm64 (15.2.0-12ubuntu1) ... 155s Setting up mira-assembler (4.9.6-11build2) ... 155s Selecting previously unselected package mira-rfam-12s-rrna. 155s (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 ... 89413 files and directories currently installed.) 155s Preparing to unpack .../mira-rfam-12s-rrna_4.9.6-11build2_all.deb ... 155s Unpacking mira-rfam-12s-rrna (4.9.6-11build2) ... 155s Selecting previously unselected package mira-doc. 155s Preparing to unpack .../mira-doc_4.9.6-11build2_all.deb ... 155s Unpacking mira-doc (4.9.6-11build2) ... 155s Setting up mira-doc (4.9.6-11build2) ... 155s Setting up mira-rfam-12s-rrna (4.9.6-11build2) ... 155s readlink: /usr/bin/mira: Invalid argument 155s Will install rfam_rrna-21-12 with kmer size 21 as MIRA default rRNA filter in 155s /usr/bin/../share/mira/mhs 155s 155s Installing. This can take a minute or two, please be patient. 186s Done. 186s 186s MIRA can now use the functionality to filter for rRNA during assemblies. 186s MIRABAIT can now use the '-j rrna' option. 186s Processing triggers for man-db (2.13.1-1) ... 187s Processing triggers for libc-bin (2.42-2ubuntu5) ... 189s autopkgtest [04:16:28]: test run-unit-test: [----------------------- 214s autopkgtest [04:16:53]: test run-unit-test: -----------------------] 215s autopkgtest [04:16:54]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 215s run-unit-test PASS 215s autopkgtest [04:16:54]: @@@@@@@@@@@@@@@@@@@@ summary 215s run-unit-test PASS