0s autopkgtest [17:01:35]: starting date and time: 2025-11-17 17:01:35+0000 0s autopkgtest [17:01:35]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [17:01:35]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.32ibzwcp/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:dnarrange --apt-upgrade dnarrange --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=dnarrange/1.6.3-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-5.secgroup --name adt-resolute-arm64-dnarrange-20251117-170135-juju-7f2275-prod-proposed-migration-environment-2-456c1944-9f26-4162-8044-e302ef722400 --image adt/ubuntu-resolute-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 3s Creating nova instance adt-resolute-arm64-dnarrange-20251117-170135-juju-7f2275-prod-proposed-migration-environment-2-456c1944-9f26-4162-8044-e302ef722400 from image adt/ubuntu-resolute-arm64-server-20251117.img (UUID 1cd33fbb-18df-4c5a-b8f0-2dcb25269485)... 57s autopkgtest [17:02:32]: testbed dpkg architecture: arm64 57s autopkgtest [17:02:32]: testbed apt version: 3.1.11 58s autopkgtest [17:02:33]: @@@@@@@@@@@@@@@@@@@@ test bed setup 58s autopkgtest [17:02:33]: testbed release detected to be: None 59s autopkgtest [17:02:34]: updating testbed package index (apt update) 60s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [87.8 kB] 60s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 60s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 60s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 60s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [73.2 kB] 60s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [779 kB] 61s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [22.9 kB] 61s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [9852 B] 61s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 Packages [143 kB] 61s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 c-n-f Metadata [3224 B] 61s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 Packages [107 kB] 61s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 c-n-f Metadata [324 B] 61s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 Packages [517 kB] 61s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 c-n-f Metadata [17.1 kB] 61s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 Packages [12.5 kB] 61s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 c-n-f Metadata [576 B] 62s Fetched 1774 kB in 1s (1591 kB/s) 62s Reading package lists... 63s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 63s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 63s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 64s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 64s Reading package lists... 64s Reading package lists... 65s Building dependency tree... 65s Reading state information... 65s Calculating upgrade... 65s The following packages will be upgraded: 65s apt libapt-pkg7.0 libcrypt-dev libcrypt1 usbutils 65s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 65s Need to get 2764 kB of archives. 65s After this operation, 104 kB of additional disk space will be used. 65s Get:1 http://ftpmaster.internal/ubuntu resolute/main arm64 libcrypt-dev arm64 1:4.5.1-1 [123 kB] 66s Get:2 http://ftpmaster.internal/ubuntu resolute/main arm64 libcrypt1 arm64 1:4.5.1-1 [88.3 kB] 66s Get:3 http://ftpmaster.internal/ubuntu resolute/main arm64 libapt-pkg7.0 arm64 3.1.12 [1063 kB] 66s Get:4 http://ftpmaster.internal/ubuntu resolute/main arm64 apt arm64 3.1.12 [1407 kB] 67s Get:5 http://ftpmaster.internal/ubuntu resolute/main arm64 usbutils arm64 1:019-1 [81.7 kB] 68s dpkg-preconfigure: unable to re-open stdin: No such file or directory 68s Fetched 2764 kB in 2s (1505 kB/s) 68s (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 ... 88137 files and directories currently installed.) 68s Preparing to unpack .../libcrypt-dev_1%3a4.5.1-1_arm64.deb ... 68s Unpacking libcrypt-dev:arm64 (1:4.5.1-1) over (1:4.4.38-1build1) ... 68s Preparing to unpack .../libcrypt1_1%3a4.5.1-1_arm64.deb ... 68s Unpacking libcrypt1:arm64 (1:4.5.1-1) over (1:4.4.38-1build1) ... 68s Setting up libcrypt1:arm64 (1:4.5.1-1) ... 68s (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 ... 88137 files and directories currently installed.) 68s Preparing to unpack .../libapt-pkg7.0_3.1.12_arm64.deb ... 68s Unpacking libapt-pkg7.0:arm64 (3.1.12) over (3.1.11) ... 68s Preparing to unpack .../archives/apt_3.1.12_arm64.deb ... 68s Unpacking apt (3.1.12) over (3.1.11) ... 69s Preparing to unpack .../usbutils_1%3a019-1_arm64.deb ... 69s Unpacking usbutils (1:019-1) over (1:018-2) ... 69s Setting up usbutils (1:019-1) ... 69s Setting up libcrypt-dev:arm64 (1:4.5.1-1) ... 69s Setting up libapt-pkg7.0:arm64 (3.1.12) ... 69s Setting up apt (3.1.12) ... 69s Processing triggers for man-db (2.13.1-1) ... 71s Processing triggers for libc-bin (2.42-2ubuntu2) ... 71s autopkgtest [17:02:46]: upgrading testbed (apt dist-upgrade and autopurge) 72s Reading package lists... 72s Building dependency tree... 72s Reading state information... 73s Calculating upgrade... 73s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 73s Reading package lists... 74s Building dependency tree... 74s Reading state information... 74s Solving dependencies... 74s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 74s autopkgtest [17:02:49]: rebooting testbed after setup commands that affected boot 104s autopkgtest [17:03:19]: testbed running kernel: Linux 6.17.0-5-generic #5-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 22 09:50:31 UTC 2025 107s autopkgtest [17:03:22]: @@@@@@@@@@@@@@@@@@@@ apt-source dnarrange 110s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed/universe dnarrange 1.6.3-1 (dsc) [1699 B] 110s Get:2 http://ftpmaster.internal/ubuntu resolute-proposed/universe dnarrange 1.6.3-1 (tar) [1734 kB] 110s Get:3 http://ftpmaster.internal/ubuntu resolute-proposed/universe dnarrange 1.6.3-1 (tar) [30.8 kB] 110s Get:4 http://ftpmaster.internal/ubuntu resolute-proposed/universe dnarrange 1.6.3-1 (diff) [2740 B] 110s gpgv: Signature made Sat Nov 1 16:35:01 2025 UTC 110s gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA 110s gpgv: issuer "nilesh@debian.org" 110s gpgv: Can't check signature: No public key 110s dpkg-source: warning: cannot verify inline signature for ./dnarrange_1.6.3-1.dsc: no acceptable signature found 110s autopkgtest [17:03:25]: testing package dnarrange version 1.6.3-1 110s autopkgtest [17:03:25]: build not needed 114s autopkgtest [17:03:29]: test run-unit-test: preparing testbed 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s Solving dependencies... 115s The following NEW packages will be installed: 115s dnarrange python3-all 115s 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 115s Need to get 20.8 kB of archives. 115s After this operation, 96.3 kB of additional disk space will be used. 115s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 dnarrange all 1.6.3-1 [19.9 kB] 115s Get:2 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-all arm64 3.13.7-1 [884 B] 115s Fetched 20.8 kB in 0s (64.5 kB/s) 115s Selecting previously unselected package dnarrange. 115s (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 ... 88137 files and directories currently installed.) 115s Preparing to unpack .../dnarrange_1.6.3-1_all.deb ... 115s Unpacking dnarrange (1.6.3-1) ... 115s Selecting previously unselected package python3-all. 116s Preparing to unpack .../python3-all_3.13.7-1_arm64.deb ... 116s Unpacking python3-all (3.13.7-1) ... 116s Setting up python3-all (3.13.7-1) ... 116s Setting up dnarrange (1.6.3-1) ... 117s autopkgtest [17:03:32]: test run-unit-test: [----------------------- 117s number of groups: 0 117s # dnarrange 117s 119s --- tests.out 2022-05-29 08:18:16.000000000 +0000 119s +++ - 2025-11-17 17:03:34.189146198 +0000 119s @@ -22,8 +22,10 @@ 119s -m PROB, --max-mismap=PROB 119s discard any alignment with mismap probability > PROB 119s (default=1.0) 119s + --insert=NAME find insertions of the sequence with this name 119s --shrink shrink the output 119s -v, --verbose show progress messages 119s + -w W, --width=W line-wrap width of group summary lines (default=79) 119s 119s TEST dnarrange alns.maf 119s # dnarrange alns.maf 119s autopkgtest [17:03:34]: test run-unit-test: -----------------------] 120s autopkgtest [17:03:35]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 120s run-unit-test FAIL non-zero exit status 1 120s autopkgtest [17:03:35]: @@@@@@@@@@@@@@@@@@@@ summary 120s run-unit-test FAIL non-zero exit status 1