0s autopkgtest [11:26:57]: starting date and time: 2025-01-21 11:26:57+0000 0s autopkgtest [11:26:57]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [11:26:57]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.p1utczm_/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:libisal --apt-upgrade fastp --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=libisal/2.31.1-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-31.secgroup --name adt-plucky-amd64-fastp-20250121-112656-juju-7f2275-prod-proposed-migration-environment-20-f29b986e-132b-4de0-9d84-28add15536e5 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-amd64 -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,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 54s autopkgtest [11:27:51]: testbed dpkg architecture: amd64 54s autopkgtest [11:27:51]: testbed apt version: 2.9.18 54s autopkgtest [11:27:51]: @@@@@@@@@@@@@@@@@@@@ test bed setup 55s autopkgtest [11:27:52]: testbed release detected to be: None 55s autopkgtest [11:27:52]: updating testbed package index (apt update) 56s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 56s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 56s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 56s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 56s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.6 kB] 56s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [119 kB] 56s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [9736 B] 56s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [791 kB] 56s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [152 kB] 56s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [238 kB] 56s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted i386 Packages [2408 B] 56s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [42.6 kB] 56s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [870 kB] 56s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [333 kB] 56s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [3416 B] 56s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [23.9 kB] 58s Fetched 2674 kB in 1s (2610 kB/s) 58s Reading package lists... 59s Reading package lists... 59s Building dependency tree... 59s Reading state information... 59s Calculating upgrade... 60s The following packages will be upgraded: 60s e2fsprogs e2fsprogs-l10n gir1.2-glib-2.0 libcom-err2 libext2fs2t64 60s libglib2.0-0t64 libglib2.0-data libss2 libwrap0 logsave publicsuffix 60s python3-attr python3-jinja2 60s 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 60s Need to get 3201 kB of archives. 60s After this operation, 171 kB of additional disk space will be used. 60s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 e2fsprogs-l10n all 1.47.2-1ubuntu1 [7030 B] 60s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 logsave amd64 1.47.2-1ubuntu1 [26.7 kB] 60s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libext2fs2t64 amd64 1.47.2-1ubuntu1 [241 kB] 60s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 e2fsprogs amd64 1.47.2-1ubuntu1 [638 kB] 60s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libcom-err2 amd64 1.47.2-1ubuntu1 [26.5 kB] 60s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libss2 amd64 1.47.2-1ubuntu1 [17.9 kB] 60s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.83.2-2 [185 kB] 60s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.83.2-2 [1664 kB] 60s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.83.2-2 [52.7 kB] 60s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 publicsuffix all 20250108.1153-0.1 [134 kB] 60s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libwrap0 amd64 7.6.q-35 [49.2 kB] 60s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-attr all 24.3.0-1 [50.5 kB] 60s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.3-2 [108 kB] 61s Fetched 3201 kB in 1s (4118 kB/s) 61s (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 ... 75821 files and directories currently installed.) 61s Preparing to unpack .../e2fsprogs-l10n_1.47.2-1ubuntu1_all.deb ... 61s Unpacking e2fsprogs-l10n (1.47.2-1ubuntu1) over (1.47.1-1ubuntu1) ... 61s Preparing to unpack .../logsave_1.47.2-1ubuntu1_amd64.deb ... 61s Unpacking logsave (1.47.2-1ubuntu1) over (1.47.1-1ubuntu1) ... 61s Preparing to unpack .../libext2fs2t64_1.47.2-1ubuntu1_amd64.deb ... 61s Leaving 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' 61s Leaving 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' 61s Leaving 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' 61s Leaving 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' 61s Unpacking libext2fs2t64:amd64 (1.47.2-1ubuntu1) over (1.47.1-1ubuntu1) ... 61s Setting up libext2fs2t64:amd64 (1.47.2-1ubuntu1) ... 61s (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 ... 75821 files and directories currently installed.) 61s Preparing to unpack .../0-e2fsprogs_1.47.2-1ubuntu1_amd64.deb ... 61s Unpacking e2fsprogs (1.47.2-1ubuntu1) over (1.47.1-1ubuntu1) ... 61s Preparing to unpack .../1-libcom-err2_1.47.2-1ubuntu1_amd64.deb ... 61s Unpacking libcom-err2:amd64 (1.47.2-1ubuntu1) over (1.47.1-1ubuntu1) ... 61s Preparing to unpack .../2-libss2_1.47.2-1ubuntu1_amd64.deb ... 61s Unpacking libss2:amd64 (1.47.2-1ubuntu1) over (1.47.1-1ubuntu1) ... 61s Preparing to unpack .../3-gir1.2-glib-2.0_2.83.2-2_amd64.deb ... 61s Unpacking gir1.2-glib-2.0:amd64 (2.83.2-2) over (2.82.4-2) ... 61s Preparing to unpack .../4-libglib2.0-0t64_2.83.2-2_amd64.deb ... 61s Unpacking libglib2.0-0t64:amd64 (2.83.2-2) over (2.82.4-2) ... 61s Preparing to unpack .../5-libglib2.0-data_2.83.2-2_all.deb ... 61s Unpacking libglib2.0-data (2.83.2-2) over (2.82.4-2) ... 61s Preparing to unpack .../6-publicsuffix_20250108.1153-0.1_all.deb ... 61s Unpacking publicsuffix (20250108.1153-0.1) over (20241206.1516-0.1) ... 61s Preparing to unpack .../7-libwrap0_7.6.q-35_amd64.deb ... 61s Unpacking libwrap0:amd64 (7.6.q-35) over (7.6.q-34) ... 61s Preparing to unpack .../8-python3-attr_24.3.0-1_all.deb ... 61s Unpacking python3-attr (24.3.0-1) over (24.2.0-1) ... 62s Preparing to unpack .../9-python3-jinja2_3.1.3-2_all.deb ... 62s Unpacking python3-jinja2 (3.1.3-2) over (3.1.3-1.1) ... 62s Setting up python3-attr (24.3.0-1) ... 62s Setting up libcom-err2:amd64 (1.47.2-1ubuntu1) ... 62s Setting up python3-jinja2 (3.1.3-2) ... 62s Setting up libglib2.0-0t64:amd64 (2.83.2-2) ... 62s No schema files found: doing nothing. 62s Setting up libglib2.0-data (2.83.2-2) ... 62s Setting up libwrap0:amd64 (7.6.q-35) ... 62s Setting up libss2:amd64 (1.47.2-1ubuntu1) ... 62s Setting up gir1.2-glib-2.0:amd64 (2.83.2-2) ... 62s Setting up logsave (1.47.2-1ubuntu1) ... 62s Setting up publicsuffix (20250108.1153-0.1) ... 62s Setting up e2fsprogs (1.47.2-1ubuntu1) ... 62s update-initramfs: deferring update (trigger activated) 62s Setting up e2fsprogs-l10n (1.47.2-1ubuntu1) ... 62s Processing triggers for man-db (2.13.0-1) ... 64s Processing triggers for libc-bin (2.40-4ubuntu1) ... 64s Processing triggers for initramfs-tools (0.142ubuntu35) ... 64s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 64s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 73s Reading package lists... 73s Building dependency tree... 73s Reading state information... 73s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 73s autopkgtest [11:28:10]: upgrading testbed (apt dist-upgrade and autopurge) 74s Reading package lists... 74s Building dependency tree... 74s Reading state information... 74s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 74s Starting 2 pkgProblemResolver with broken count: 0 74s Done 75s Entering ResolveByKeep 75s 75s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 75s Reading package lists... 75s Building dependency tree... 75s Reading state information... 76s Starting pkgProblemResolver with broken count: 0 76s Starting 2 pkgProblemResolver with broken count: 0 76s Done 76s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 76s autopkgtest [11:28:13]: rebooting testbed after setup commands that affected boot 99s autopkgtest [11:28:36]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 102s autopkgtest [11:28:39]: @@@@@@@@@@@@@@@@@@@@ apt-source fastp 104s Get:1 http://ftpmaster.internal/ubuntu plucky/universe fastp 0.23.4+dfsg-1 (dsc) [1993 B] 104s Get:2 http://ftpmaster.internal/ubuntu plucky/universe fastp 0.23.4+dfsg-1 (tar) [83.0 kB] 104s Get:3 http://ftpmaster.internal/ubuntu plucky/universe fastp 0.23.4+dfsg-1 (diff) [8504 B] 104s gpgv: Signature made Tue Jul 11 15:26:05 2023 UTC 104s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 104s gpgv: issuer "tille@debian.org" 104s gpgv: Can't check signature: No public key 104s dpkg-source: warning: cannot verify inline signature for ./fastp_0.23.4+dfsg-1.dsc: no acceptable signature found 104s autopkgtest [11:28:41]: testing package fastp version 0.23.4+dfsg-1 104s autopkgtest [11:28:41]: build not needed 105s autopkgtest [11:28:42]: test run-sample-analysis: preparing testbed 105s Reading package lists... 105s Building dependency tree... 105s Reading state information... 106s Starting pkgProblemResolver with broken count: 0 106s Starting 2 pkgProblemResolver with broken count: 0 106s Done 106s The following NEW packages will be installed: 106s fastp libdeflate0 libisal2 106s 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 106s Need to get 362 kB of archives. 106s After this operation, 1043 kB of additional disk space will be used. 106s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 106s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libisal2 amd64 2.31.1-1 [133 kB] 106s Get:3 http://ftpmaster.internal/ubuntu plucky/universe amd64 fastp amd64 0.23.4+dfsg-1 [165 kB] 107s Fetched 362 kB in 0s (738 kB/s) 107s Selecting previously unselected package libdeflate0:amd64. 107s (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 ... 75821 files and directories currently installed.) 107s Preparing to unpack .../libdeflate0_1.23-1_amd64.deb ... 107s Unpacking libdeflate0:amd64 (1.23-1) ... 107s Selecting previously unselected package libisal2. 107s Preparing to unpack .../libisal2_2.31.1-1_amd64.deb ... 107s Unpacking libisal2 (2.31.1-1) ... 107s Selecting previously unselected package fastp. 107s Preparing to unpack .../fastp_0.23.4+dfsg-1_amd64.deb ... 107s Unpacking fastp (0.23.4+dfsg-1) ... 107s Setting up libisal2 (2.31.1-1) ... 107s Setting up libdeflate0:amd64 (1.23-1) ... 107s Setting up fastp (0.23.4+dfsg-1) ... 107s Processing triggers for man-db (2.13.0-1) ... 108s Processing triggers for libc-bin (2.40-4ubuntu1) ... 109s autopkgtest [11:28:46]: test run-sample-analysis: [----------------------- 109s Detecting adapter sequence for read1... 109s No adapter detected for read1 109s 110s Read1 before filtering: 110s total reads: 9 110s total bases: 1208 110s Q20 bases: 1078(89.2384%) 110s Q30 bases: 1005(83.1954%) 110s 110s Read1 after filtering: 110s total reads: 8 110s total bases: 1208 110s Q20 bases: 1078(89.2384%) 110s Q30 bases: 1005(83.1954%) 110s 110s Filtering result: 110s reads passed filter: 8 110s reads failed due to low quality: 0 110s reads failed due to too many N: 0 110s reads failed due to too short: 1 110s reads with adapter trimmed: 0 110s bases trimmed due to adapters: 0 110s 110s Duplication rate (may be overestimated since this is SE data): 55.5556% 110s 110s JSON report: fastp.json 110s HTML report: fastp.html 110s 110s fastp -i R1.fq -o out.R1.fq 110s fastp v0.23.4, time used: 1 seconds 110s Read1 before filtering: 110s total reads: 9 110s total bases: 1208 110s Q20 bases: 1078(89.2384%) 110s Q30 bases: 1005(83.1954%) 110s 110s Read2 before filtering: 110s total reads: 9 110s total bases: 1359 110s Q20 bases: 1100(80.9419%) 110s Q30 bases: 959(70.5666%) 110s 110s Read1 after filtering: 110s total reads: 8 110s total bases: 1208 110s Q20 bases: 1078(89.2384%) 110s Q30 bases: 1005(83.1954%) 110s 110s Read2 after filtering: 110s total reads: 8 110s total bases: 1208 110s Q20 bases: 991(82.0364%) 110s Q30 bases: 874(72.351%) 110s 110s Filtering result: 110s reads passed filter: 16 110s reads failed due to low quality: 0 110s reads failed due to too many N: 0 110s reads failed due to too short: 2 110s reads with adapter trimmed: 0 110s bases trimmed due to adapters: 0 110s 110s Duplication rate: 55.5556% 110s 110s Insert size peak (evaluated by paired-end reads): 187 110s 110s JSON report: fastp.json 110s HTML report: fastp.html 110s 110s fastp -i R1.fq.gz -I R2.fq.gz -o out.R1.fq.gz -O out.R2.fq.gz 110s fastp v0.23.4, time used: 0 seconds 110s Detecting adapter sequence for read1... 110s No adapter detected for read1 110s 111s Read1 before filtering: 111s total reads: 9 111s total bases: 1359 111s Q20 bases: 1100(80.9419%) 111s Q30 bases: 959(70.5666%) 111s 111s Read1 after filtering: 111s total reads: 9 111s total bases: 1287 111s Q20 bases: 1032(80.1865%) 111s Q30 bases: 891(69.2308%) 111s 111s Filtering result: 111s reads passed filter: 9 111s reads failed due to low quality: 0 111s reads failed due to too many N: 0 111s reads failed due to too short: 0 111s reads with adapter trimmed: 0 111s bases trimmed due to adapters: 0 111s 111s Duplication rate (may be overestimated since this is SE data): 66.6667% 111s 111s JSON report: fastp.json 111s HTML report: fastp.html 111s 111s fastp -i R2.fq -o out.R2.fq -U --umi_loc=read1 --umi_len=8 111s fastp v0.23.4, time used: 1 seconds 111s autopkgtest [11:28:48]: test run-sample-analysis: -----------------------] 112s run-sample-analysis PASS 112s autopkgtest [11:28:49]: test run-sample-analysis: - - - - - - - - - - results - - - - - - - - - - 112s autopkgtest [11:28:49]: @@@@@@@@@@@@@@@@@@@@ summary 112s run-sample-analysis PASS 153s nova [W] Skipping flock for amd64 153s Creating nova instance adt-plucky-amd64-fastp-20250121-112656-juju-7f2275-prod-proposed-migration-environment-20-f29b986e-132b-4de0-9d84-28add15536e5 from image adt/ubuntu-plucky-amd64-server-20250121.img (UUID faa533b5-88a8-4061-8e8e-74c7e63adf52)... 153s nova [W] Timed out waiting for d3698198-1785-4e6c-be49-7020e09733a5 to get deleted.