0s autopkgtest [01:47:42]: starting date and time: 2026-02-05 01:47:42+0000 0s autopkgtest [01:47:42]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [01:47:42]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.u9aucys3/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 filtlong --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-arm64-22.secgroup --name adt-resolute-arm64-filtlong-20260205-014742-juju-7f2275-prod-proposed-migration-environment-2-95c3b53a-a387-42ad-afed-a486e9043e6e --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-filtlong-20260205-014742-juju-7f2275-prod-proposed-migration-environment-2-95c3b53a-a387-42ad-afed-a486e9043e6e from image adt/ubuntu-resolute-arm64-server-20260204.img (UUID f58d981d-b271-4157-b9b1-fd704695563c)... 69s autopkgtest [01:48:51]: testbed dpkg architecture: arm64 70s autopkgtest [01:48:52]: testbed apt version: 3.1.14 70s autopkgtest [01:48:52]: @@@@@@@@@@@@@@@@@@@@ test bed setup 70s autopkgtest [01:48:52]: testbed release detected to be: None 71s autopkgtest [01:48:53]: updating testbed package index (apt update) 73s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 73s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 73s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 73s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 73s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1768 kB] 73s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [35.4 kB] 73s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [5260 B] 73s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [228 kB] 73s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 Packages [262 kB] 73s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 c-n-f Metadata [7248 B] 73s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 Packages [52.9 kB] 73s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted arm64 c-n-f Metadata [328 B] 73s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 Packages [1540 kB] 73s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe arm64 c-n-f Metadata [40.2 kB] 73s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 Packages [26.0 kB] 73s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse arm64 c-n-f Metadata [776 B] 77s Fetched 4091 kB in 2s (2008 kB/s) 78s Reading package lists... 80s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 80s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 80s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 80s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 81s Reading package lists... 81s Reading package lists... 81s Building dependency tree... 81s Reading state information... 81s Calculating upgrade... 82s The following packages will be upgraded: 82s libc-bin libc-gconv-modules-extra libc6 locales python3-linkify-it 83s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 83s Need to get 7881 kB of archives. 83s After this operation, 0 B of additional disk space will be used. 83s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc-gconv-modules-extra arm64 2.42-2ubuntu5 [1413 kB] 83s Get:2 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc6 arm64 2.42-2ubuntu5 [1594 kB] 83s Get:3 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 libc-bin arm64 2.42-2ubuntu5 [599 kB] 83s Get:4 http://ftpmaster.internal/ubuntu resolute-proposed/main arm64 locales all 2.42-2ubuntu5 [4255 kB] 83s Get:5 http://ftpmaster.internal/ubuntu resolute/main arm64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB] 84s dpkg-preconfigure: unable to re-open stdin: No such file or directory 84s Fetched 7881 kB in 2s (4748 kB/s) 84s (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.) 84s Preparing to unpack .../libc-gconv-modules-extra_2.42-2ubuntu5_arm64.deb ... 84s Unpacking libc-gconv-modules-extra:arm64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 84s Setting up libc-gconv-modules-extra:arm64 (2.42-2ubuntu5) ... 84s (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.) 84s Preparing to unpack .../libc6_2.42-2ubuntu5_arm64.deb ... 84s Unpacking libc6:arm64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 85s Setting up libc6:arm64 (2.42-2ubuntu5) ... 85s (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.) 85s Preparing to unpack .../libc-bin_2.42-2ubuntu5_arm64.deb ... 85s Unpacking libc-bin (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 85s Setting up libc-bin (2.42-2ubuntu5) ... 85s (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.) 85s Preparing to unpack .../locales_2.42-2ubuntu5_all.deb ... 85s Unpacking locales (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 85s Preparing to unpack .../python3-linkify-it_2.0.3-1ubuntu3_all.deb ... 85s Unpacking python3-linkify-it (2.0.3-1ubuntu3) over (2.0.3-1ubuntu2) ... 86s Setting up locales (2.42-2ubuntu5) ... 86s Generating locales (this might take a while)... 88s en_US.UTF-8... done 88s Generation complete. 88s Setting up python3-linkify-it (2.0.3-1ubuntu3) ... 88s Processing triggers for man-db (2.13.1-1) ... 90s Processing triggers for systemd (259-1ubuntu3) ... 91s autopkgtest [01:49:13]: upgrading testbed (apt dist-upgrade and autopurge) 91s Reading package lists... 92s Building dependency tree... 92s Reading state information... 92s Calculating upgrade... 92s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 93s Reading package lists... 93s Building dependency tree... 93s Reading state information... 93s Solving dependencies... 93s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 96s autopkgtest [01:49:18]: testbed running kernel: Linux 6.18.0-9-generic #9-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 12 16:41:39 UTC 2026 96s autopkgtest [01:49:18]: @@@@@@@@@@@@@@@@@@@@ apt-source filtlong 101s Get:1 http://ftpmaster.internal/ubuntu resolute/universe filtlong 0.2.1-4build1 (dsc) [2064 B] 101s Get:2 http://ftpmaster.internal/ubuntu resolute/universe filtlong 0.2.1-4build1 (tar) [3009 kB] 101s Get:3 http://ftpmaster.internal/ubuntu resolute/universe filtlong 0.2.1-4build1 (diff) [6960 B] 102s gpgv: Signature made Thu Dec 11 20:32:45 2025 UTC 102s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 102s gpgv: Can't check signature: No public key 102s dpkg-source: warning: cannot verify inline signature for ./filtlong_0.2.1-4build1.dsc: no acceptable signature found 102s autopkgtest [01:49:24]: testing package filtlong version 0.2.1-4build1 103s autopkgtest [01:49:25]: build not needed 104s autopkgtest [01:49:26]: test run-unit-test: preparing testbed 104s Reading package lists... 104s Building dependency tree... 104s Reading state information... 105s Solving dependencies... 105s The following NEW packages will be installed: 105s filtlong filtlong-data 105s 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 105s Need to get 4767 kB of archives. 105s After this operation, 5310 kB of additional disk space will be used. 105s Get:1 http://ftpmaster.internal/ubuntu resolute/universe arm64 filtlong arm64 0.2.1-4build1 [2867 kB] 105s Get:2 http://ftpmaster.internal/ubuntu resolute/universe arm64 filtlong-data all 0.2.1-4build1 [1900 kB] 106s Fetched 4767 kB in 1s (9183 kB/s) 106s Selecting previously unselected package filtlong. 106s (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.) 106s Preparing to unpack .../filtlong_0.2.1-4build1_arm64.deb ... 106s Unpacking filtlong (0.2.1-4build1) ... 106s Selecting previously unselected package filtlong-data. 106s Preparing to unpack .../filtlong-data_0.2.1-4build1_all.deb ... 106s Unpacking filtlong-data (0.2.1-4build1) ... 106s Setting up filtlong (0.2.1-4build1) ... 106s Setting up filtlong-data (0.2.1-4build1) ... 106s Processing triggers for man-db (2.13.1-1) ... 107s autopkgtest [01:49:29]: test run-unit-test: [----------------------- 108s Test 1 108s 108s Scoring long reads 108s 3 reads (15000 bp) 108s 108s Filtering long reads 108s target: 11250 bp 108s keeping 15000 bp 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 2 108s 108s Scoring long reads 108s 3 reads (15000 bp) 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 3 108s 108s Hashing 16-mers from assembly 108s test_reference.fasta 108s test_reference.fasta (100000 bp) 108s 1 contig, 199964 16-mers 108s 108s Scoring long reads 108s 4 reads (11600 bp) 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 4 108s 108s Scoring long reads 108s 3 reads (15000 bp) 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 5 108s 108s Scoring long reads 108s 3 reads (15000 bp) 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 6 108s 108s Scoring long reads 108s 3 reads (15000 bp) 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 7 108s 108s Scoring long reads 108s 3 reads (15000 bp) 108s 108s Filtering long reads 108s target: 10000 bp 108s keeping 10000 bp 108s 108s Outputting passed long reads 108s 108s Passed 108s 108s Test 8 108s 108s Hashing 16-mers from Illumina reads 110s test_reference_1.fastq.gz (483700 bp) test_reference_1.fastq.gz (967400 bp) test_reference_1.fastq.gz (1451100 bp) test_reference_1.fastq.gz (1934800 bp) test_reference_1.fastq.gz (2000000 bp) 111s test_reference_2.fastq.gz (483700 bp) test_reference_2.fastq.gz (967400 bp) test_reference_2.fastq.gz (1451100 bp) test_reference_2.fastq.gz (1934800 bp) test_reference_2.fastq.gz (2000000 bp) 111s 40000 reads, 204833 16-mers 111s 111s Scoring long reads 111s 4 reads (11600 bp) 111s after splitting: 7 reads (11250 bp) 111s 111s Outputting passed long reads 111s 111s Passed 111s 111s Test 9 111s 111s Hashing 16-mers from Illumina reads 113s test_reference_1.fastq.gz (483700 bp) test_reference_1.fastq.gz (967400 bp) test_reference_1.fastq.gz (1451100 bp) test_reference_1.fastq.gz (1934800 bp) test_reference_1.fastq.gz (2000000 bp) 114s test_reference_2.fastq.gz (483700 bp) test_reference_2.fastq.gz (967400 bp) test_reference_2.fastq.gz (1451100 bp) test_reference_2.fastq.gz (1934800 bp) test_reference_2.fastq.gz (2000000 bp) 114s 40000 reads, 204833 16-mers 114s 114s Scoring long reads 114s 3 reads (15000 bp) 114s 114s Filtering long reads 114s target: 10000 bp 114s keeping 10000 bp 114s 114s Outputting passed long reads 114s 114s Passed 114s 114s Test 10 114s 114s Hashing 16-mers from Illumina reads 116s test_reference_1.fastq.gz (483700 bp) test_reference_1.fastq.gz (967400 bp) test_reference_1.fastq.gz (1451100 bp) test_reference_1.fastq.gz (1934800 bp) test_reference_1.fastq.gz (2000000 bp) 117s test_reference_2.fastq.gz (483700 bp) test_reference_2.fastq.gz (967400 bp) test_reference_2.fastq.gz (1451100 bp) test_reference_2.fastq.gz (1934800 bp) test_reference_2.fastq.gz (2000000 bp) 117s 40000 reads, 204833 16-mers 117s 117s Scoring long reads 117s 4 reads (4901 bp) 117s after trimming: 4 reads (4824 bp) 117s 117s Outputting passed long reads 117s 117s Passed 117s 117s Test 11 117s 117s Hashing 16-mers from assembly 117s test_reference.fasta 117s test_reference.fasta (100000 bp) 117s 1 contig, 199964 16-mers 117s 117s Scoring long reads 117s 4 reads (11600 bp) 117s after splitting: 4 reads (11600 bp) 117s 117s Outputting passed long reads 117s 118s Passed 118s 118s Test 12 118s 118s Hashing 16-mers from assembly 118s test_reference.fasta 118s test_reference.fasta (100000 bp) 118s 1 contig, 199964 16-mers 118s 118s Scoring long reads 118s 3 reads (15000 bp) 118s 118s Filtering long reads 118s target: 1 bp 118s keeping 5000 bp 118s 118s Outputting passed long reads 118s 118s Passed 118s 118s Test 13 118s 118s Hashing 16-mers from assembly 118s test_reference.fasta 118s test_reference.fasta (100000 bp) 118s 1 contig, 199964 16-mers 118s 118s Scoring long reads 118s 3 reads (15000 bp) 118s 118s Filtering long reads 118s target: 10000 bp 118s keeping 10000 bp 118s 118s Outputting passed long reads 118s 118s Passed 118s 118s Test 14 118s 118s Hashing 16-mers from assembly 118s test_reference.fasta 118s test_reference.fasta (100000 bp) 118s 1 contig, 199964 16-mers 118s 118s Scoring long reads 118s 4 reads (4901 bp) 118s after trimming: 4 reads (4824 bp) 118s 118s Outputting passed long reads 118s 118s Passed 118s 118s autopkgtest [01:49:40]: test run-unit-test: -----------------------] 119s autopkgtest [01:49:41]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 119s run-unit-test PASS 119s autopkgtest [01:49:41]: @@@@@@@@@@@@@@@@@@@@ summary 119s run-unit-test PASS