0s autopkgtest [15:28:09]: starting date and time: 2025-03-15 15:28:09+0000 0s autopkgtest [15:28:09]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [15:28:09]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.pcynugwy/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_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\n" >> /etc/environment' --apt-pocket=proposed=src:glibc --apt-upgrade pscan-tfbs --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.28 lxd-armhf-10.145.243.28:autopkgtest/ubuntu/plucky/armhf 21s autopkgtest [15:28:30]: testbed dpkg architecture: armhf 23s autopkgtest [15:28:32]: testbed apt version: 2.9.33 27s autopkgtest [15:28:36]: @@@@@@@@@@@@@@@@@@@@ test bed setup 29s autopkgtest [15:28:38]: testbed release detected to be: None 37s autopkgtest [15:28:46]: updating testbed package index (apt update) 39s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 39s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 39s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 39s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 40s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 40s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [404 kB] 40s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [101 kB] 40s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [81.0 kB] 40s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1944 B] 40s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 40s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [326 kB] 41s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [12.1 kB] 41s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 41s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [332 B] 41s Get:15 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 65s Get:16 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 65s Get:17 http://ftpmaster.internal/ubuntu plucky/main Sources [1400 kB] 66s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 68s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 68s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 68s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 85s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 87s Fetched 41.0 MB in 48s (847 kB/s) 89s Reading package lists... 95s autopkgtest [15:29:44]: upgrading testbed (apt dist-upgrade and autopurge) 96s Reading package lists... 97s Building dependency tree... 97s Reading state information... 98s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 99s Starting 2 pkgProblemResolver with broken count: 0 99s Done 100s Entering ResolveByKeep 101s 102s Calculating upgrade... 103s The following packages will be upgraded: 103s libc-bin libc6 locales python3-jinja2 sos strace 103s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 103s Need to get 8642 kB of archives. 103s After this operation, 23.6 kB of additional disk space will be used. 103s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 106s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 107s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 111s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 112s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 112s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 113s Preconfiguring packages ... 113s Fetched 8642 kB in 10s (905 kB/s) 113s (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 ... 64655 files and directories currently installed.) 113s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 113s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 114s Setting up libc6:armhf (2.41-1ubuntu2) ... 114s (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 ... 64655 files and directories currently installed.) 114s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 114s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 114s Setting up libc-bin (2.41-1ubuntu2) ... 114s (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 ... 64655 files and directories currently installed.) 114s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 114s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 115s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 115s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 115s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 115s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 115s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 115s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 115s Setting up sos (4.9.0-5) ... 116s Setting up locales (2.41-1ubuntu2) ... 117s Generating locales (this might take a while)... 119s en_US.UTF-8... done 119s Generation complete. 119s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 119s Setting up strace (6.13+ds-1ubuntu1) ... 119s Processing triggers for man-db (2.13.0-1) ... 120s Processing triggers for systemd (257.3-1ubuntu3) ... 123s Reading package lists... 123s Building dependency tree... 123s Reading state information... 124s Starting pkgProblemResolver with broken count: 0 124s Starting 2 pkgProblemResolver with broken count: 0 124s Done 125s Solving dependencies... 125s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 127s autopkgtest [15:30:16]: rebooting testbed after setup commands that affected boot 167s autopkgtest [15:30:56]: testbed running kernel: Linux 6.8.0-52-generic #53~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jan 15 18:10:51 UTC 2 191s autopkgtest [15:31:20]: @@@@@@@@@@@@@@@@@@@@ apt-source pscan-tfbs 202s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pscan-tfbs 1.2.2-4build2 (dsc) [2067 B] 202s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pscan-tfbs 1.2.2-4build2 (tar) [42.9 kB] 202s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pscan-tfbs 1.2.2-4build2 (diff) [7476 B] 202s gpgv: Signature made Tue Jul 30 06:52:29 2024 UTC 202s gpgv: using RSA key 92978A6E195E4921825F7FF0F34F09744E9F5DD9 202s gpgv: Can't check signature: No public key 202s dpkg-source: warning: cannot verify inline signature for ./pscan-tfbs_1.2.2-4build2.dsc: no acceptable signature found 202s autopkgtest [15:31:31]: testing package pscan-tfbs version 1.2.2-4build2 204s autopkgtest [15:31:33]: build not needed 207s autopkgtest [15:31:36]: test run-unit-test: preparing testbed 208s Reading package lists... 209s Building dependency tree... 209s Reading state information... 209s Starting pkgProblemResolver with broken count: 0 209s Starting 2 pkgProblemResolver with broken count: 0 209s Done 210s The following NEW packages will be installed: 210s libgsl28 libgslcblas0 pscan-tfbs 211s 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 211s Need to get 1030 kB of archives. 211s After this operation, 2344 kB of additional disk space will be used. 211s Get:1 http://ftpmaster.internal/ubuntu plucky/universe armhf libgslcblas0 armhf 2.8+dfsg-5 [84.1 kB] 211s Get:2 http://ftpmaster.internal/ubuntu plucky/universe armhf libgsl28 armhf 2.8+dfsg-5 [876 kB] 212s Get:3 http://ftpmaster.internal/ubuntu plucky/universe armhf pscan-tfbs armhf 1.2.2-4build2 [70.0 kB] 212s Fetched 1030 kB in 2s (667 kB/s) 212s Selecting previously unselected package libgslcblas0:armhf. 213s (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 ... 64655 files and directories currently installed.) 213s Preparing to unpack .../libgslcblas0_2.8+dfsg-5_armhf.deb ... 213s Unpacking libgslcblas0:armhf (2.8+dfsg-5) ... 213s Selecting previously unselected package libgsl28:armhf. 213s Preparing to unpack .../libgsl28_2.8+dfsg-5_armhf.deb ... 213s Unpacking libgsl28:armhf (2.8+dfsg-5) ... 213s Selecting previously unselected package pscan-tfbs. 213s Preparing to unpack .../pscan-tfbs_1.2.2-4build2_armhf.deb ... 213s Unpacking pscan-tfbs (1.2.2-4build2) ... 213s Setting up libgslcblas0:armhf (2.8+dfsg-5) ... 213s Setting up libgsl28:armhf (2.8+dfsg-5) ... 213s Setting up pscan-tfbs (1.2.2-4build2) ... 213s Processing triggers for man-db (2.13.0-1) ... 213s Processing triggers for libc-bin (2.41-1ubuntu2) ... 220s autopkgtest [15:31:49]: test run-unit-test: [----------------------- 222s Test 1 222s sh: 1: dos2unix: not found 222s 222s Reading matrix file(s)... 2 matrices acquired. 222s 222s Reading background sequence file... 1 background sequences acquired. 222s Processing >NM_000546.3 Homo sapien (1) 222s Writing short matrix output...done 222s 222s [SHORT TFBS MATRIX] 222s NFY 1 0.816888 0.816888 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 222s 1 0.944058 0.944058 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 222s PASS 222s Test 2 222s sh: 1: dos2unix: not found 222s 222s Reading matrix file(s)... 1 matrices acquired. 222s 222s Reading background sequence file... 1 background sequences acquired. 222s Processing >NM_000546.3 Homo sapien (1) 222s Writing short matrix output...done 222s 222s [SHORT TFBS MATRIX] 222s NFY 1 0.816888 0.816888 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 222s PASS 223s autopkgtest [15:31:52]: test run-unit-test: -----------------------] 227s autopkgtest [15:31:56]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 227s run-unit-test PASS 231s autopkgtest [15:32:00]: @@@@@@@@@@@@@@@@@@@@ summary 231s run-unit-test PASS