0s autopkgtest [23:53:23]: starting date and time: 2024-04-18 23:53:23+0000 0s autopkgtest [23:53:23]: git checkout: 43bc6cdf gitlab-ci: do not include the salsa pipeline 0s autopkgtest [23:53:23]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qrk4e4f6/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:gsl --apt-upgrade pscan-tfbs --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=gsl/2.7.1+dfsg-6ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-ppc64el-21.secgroup --name adt-noble-ppc64el-pscan-tfbs-20240418-235323-juju-7f2275-prod-proposed-migration-environment-2-931115e9-3920-4c40-95f8-f8d63a850c3e --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 118s autopkgtest [23:55:21]: testbed dpkg architecture: ppc64el 118s autopkgtest [23:55:21]: testbed apt version: 2.7.14build2 118s autopkgtest [23:55:21]: @@@@@@@@@@@@@@@@@@@@ test bed setup 119s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 119s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [12.2 kB] 119s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [381 kB] 119s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [57.5 kB] 119s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [2340 B] 119s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [112 kB] 119s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 119s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [976 B] 119s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 119s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [587 kB] 119s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 119s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [1004 B] 119s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 122s Fetched 1282 kB in 1s (1210 kB/s) 122s Reading package lists... 124s sh: 4: dhclient: not found 125s Reading package lists... 125s Building dependency tree... 125s Reading state information... 125s Calculating upgrade... 125s The following packages will be upgraded: 125s libkeyutils1 libnuma1 make netcat-openbsd numactl 125s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 125s Need to get 343 kB of archives. 125s After this operation, 16.4 kB disk space will be freed. 125s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el libkeyutils1 ppc64el 1.6.3-3build1 [11.0 kB] 126s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el netcat-openbsd ppc64el 1.226-1ubuntu2 [46.2 kB] 126s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libnuma1 ppc64el 2.0.18-1build1 [28.2 kB] 126s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el make ppc64el 4.3-4.1build2 [214 kB] 126s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el numactl ppc64el 2.0.18-1build1 [43.9 kB] 126s Fetched 343 kB in 1s (638 kB/s) 126s (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 ... 71981 files and directories currently installed.) 126s Preparing to unpack .../libkeyutils1_1.6.3-3build1_ppc64el.deb ... 126s Unpacking libkeyutils1:ppc64el (1.6.3-3build1) over (1.6.3-3) ... 126s Preparing to unpack .../netcat-openbsd_1.226-1ubuntu2_ppc64el.deb ... 126s Unpacking netcat-openbsd (1.226-1ubuntu2) over (1.226-1ubuntu1) ... 126s Preparing to unpack .../libnuma1_2.0.18-1build1_ppc64el.deb ... 126s Unpacking libnuma1:ppc64el (2.0.18-1build1) over (2.0.18-1) ... 126s Preparing to unpack .../make_4.3-4.1build2_ppc64el.deb ... 126s Unpacking make (4.3-4.1build2) over (4.3-4.1build1) ... 126s Preparing to unpack .../numactl_2.0.18-1build1_ppc64el.deb ... 126s Unpacking numactl (2.0.18-1build1) over (2.0.18-1) ... 126s Setting up libkeyutils1:ppc64el (1.6.3-3build1) ... 126s Setting up netcat-openbsd (1.226-1ubuntu2) ... 126s Setting up make (4.3-4.1build2) ... 126s Setting up libnuma1:ppc64el (2.0.18-1build1) ... 126s Setting up numactl (2.0.18-1build1) ... 126s Processing triggers for man-db (2.12.0-4build1) ... 127s Processing triggers for libc-bin (2.39-0ubuntu8) ... 128s Reading package lists... 128s Building dependency tree... 128s Reading state information... 128s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 128s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 128s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 129s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 129s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 130s Reading package lists... 130s Reading package lists... 130s Building dependency tree... 130s Reading state information... 130s Calculating upgrade... 130s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 130s Reading package lists... 131s Building dependency tree... 131s Reading state information... 131s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 134s autopkgtest [23:55:37]: testbed running kernel: Linux 6.8.0-22-generic #22-Ubuntu SMP Thu Apr 4 22:47:57 UTC 2024 134s autopkgtest [23:55:37]: @@@@@@@@@@@@@@@@@@@@ apt-source pscan-tfbs 136s Get:1 http://ftpmaster.internal/ubuntu noble/universe pscan-tfbs 1.2.2-4build1 (dsc) [2104 B] 136s Get:2 http://ftpmaster.internal/ubuntu noble/universe pscan-tfbs 1.2.2-4build1 (tar) [42.9 kB] 136s Get:3 http://ftpmaster.internal/ubuntu noble/universe pscan-tfbs 1.2.2-4build1 (diff) [7428 B] 136s gpgv: Signature made Tue Dec 7 17:40:29 2021 UTC 136s gpgv: using RSA key AC483F68DE728F43F2202FCA568D30F321B2133D 136s gpgv: issuer "steve.langasek@ubuntu.com" 136s gpgv: Can't check signature: No public key 136s dpkg-source: warning: cannot verify inline signature for ./pscan-tfbs_1.2.2-4build1.dsc: no acceptable signature found 136s autopkgtest [23:55:39]: testing package pscan-tfbs version 1.2.2-4build1 136s autopkgtest [23:55:39]: build not needed 136s autopkgtest [23:55:39]: test run-unit-test: preparing testbed 137s Reading package lists... 138s Building dependency tree... 138s Reading state information... 138s Starting pkgProblemResolver with broken count: 0 138s Starting 2 pkgProblemResolver with broken count: 0 138s Done 138s The following additional packages will be installed: 138s libgsl27 libgslcblas0 pscan-tfbs 138s Suggested packages: 138s gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html 138s The following NEW packages will be installed: 138s autopkgtest-satdep libgsl27 libgslcblas0 pscan-tfbs 138s 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. 138s Need to get 1269 kB/1269 kB of archives. 138s After this operation, 4388 kB of additional disk space will be used. 138s Get:1 /tmp/autopkgtest.k0Dt8G/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [712 B] 138s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el libgslcblas0 ppc64el 2.7.1+dfsg-6ubuntu2 [86.6 kB] 139s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el libgsl27 ppc64el 2.7.1+dfsg-6ubuntu2 [1090 kB] 139s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el pscan-tfbs ppc64el 1.2.2-4build1 [92.5 kB] 139s Fetched 1269 kB in 1s (1445 kB/s) 139s Selecting previously unselected package libgslcblas0:ppc64el. 139s (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 ... 71981 files and directories currently installed.) 139s Preparing to unpack .../libgslcblas0_2.7.1+dfsg-6ubuntu2_ppc64el.deb ... 139s Unpacking libgslcblas0:ppc64el (2.7.1+dfsg-6ubuntu2) ... 139s Selecting previously unselected package libgsl27:ppc64el. 139s Preparing to unpack .../libgsl27_2.7.1+dfsg-6ubuntu2_ppc64el.deb ... 139s Unpacking libgsl27:ppc64el (2.7.1+dfsg-6ubuntu2) ... 139s Selecting previously unselected package pscan-tfbs. 139s Preparing to unpack .../pscan-tfbs_1.2.2-4build1_ppc64el.deb ... 139s Unpacking pscan-tfbs (1.2.2-4build1) ... 139s Selecting previously unselected package autopkgtest-satdep. 139s Preparing to unpack .../1-autopkgtest-satdep.deb ... 139s Unpacking autopkgtest-satdep (0) ... 139s Setting up libgslcblas0:ppc64el (2.7.1+dfsg-6ubuntu2) ... 139s Setting up libgsl27:ppc64el (2.7.1+dfsg-6ubuntu2) ... 140s Setting up pscan-tfbs (1.2.2-4build1) ... 140s Setting up autopkgtest-satdep (0) ... 140s Processing triggers for man-db (2.12.0-4build1) ... 140s Processing triggers for libc-bin (2.39-0ubuntu8) ... 142s (Reading database ... 72015 files and directories currently installed.) 142s Removing autopkgtest-satdep (0) ... 143s autopkgtest [23:55:46]: test run-unit-test: [----------------------- 143s Test 1 143s sh: 1: dos2unix: not found 143s 143s Reading matrix file(s)... 2 matrices acquired. 143s 143s Reading background sequence file... 1 background sequences acquired. 143s Processing >NM_000546.3 Homo sapien (1) 143s Writing short matrix output...done 143s 143s [SHORT TFBS MATRIX] 143s 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 143s 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 143s PASS 143s Test 2 143s sh: 1: dos2unix: not found 143s 143s Reading matrix file(s)... 1 matrices acquired. 143s 143s Reading background sequence file... 1 background sequences acquired. 143s Processing >NM_000546.3 Homo sapien (1) 143s Writing short matrix output...done 143s 143s [SHORT TFBS MATRIX] 143s 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 143s PASS 143s autopkgtest [23:55:46]: test run-unit-test: -----------------------] 144s run-unit-test PASS 144s autopkgtest [23:55:47]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 144s autopkgtest [23:55:47]: @@@@@@@@@@@@@@@@@@@@ summary 144s run-unit-test PASS 155s Creating nova instance adt-noble-ppc64el-pscan-tfbs-20240418-235323-juju-7f2275-prod-proposed-migration-environment-2-931115e9-3920-4c40-95f8-f8d63a850c3e from image adt/ubuntu-noble-ppc64el-server-20240418.img (UUID eb57e9e5-70fe-4878-ae85-dd88e864cb24)...