0s autopkgtest [16:40:26]: starting date and time: 2025-03-15 16:40:26+0000 0s autopkgtest [16:40:26]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [16:40:26]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.q9h41so2/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade phipack --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-s390x-2.secgroup --name adt-plucky-s390x-phipack-20250315-164025-juju-7f2275-prod-proposed-migration-environment-20-a8235540-6d33-4c50-8990-e8b9f5672e36 --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-s390x -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/ 128s autopkgtest [16:42:34]: testbed dpkg architecture: s390x 128s autopkgtest [16:42:34]: testbed apt version: 2.9.33 129s autopkgtest [16:42:35]: @@@@@@@@@@@@@@@@@@@@ test bed setup 129s autopkgtest [16:42:35]: testbed release detected to be: None 129s autopkgtest [16:42:35]: updating testbed package index (apt update) 130s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 130s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 130s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 130s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 130s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 130s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 131s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 131s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [113 kB] 131s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x c-n-f Metadata [1824 B] 131s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted s390x c-n-f Metadata [116 B] 131s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [320 kB] 131s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x c-n-f Metadata [13.4 kB] 131s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [3776 B] 131s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x c-n-f Metadata [240 B] 131s Fetched 1073 kB in 2s (688 kB/s) 132s Reading package lists... 132s Reading package lists... 132s Building dependency tree... 132s Reading state information... 133s Calculating upgrade... 133s Calculating upgrade... 133s The following packages were automatically installed and are no longer required: 133s libnsl2 libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 133s linux-headers-6.11.0-8 linux-headers-6.11.0-8-generic 133s linux-modules-6.11.0-8-generic linux-tools-6.11.0-8 133s linux-tools-6.11.0-8-generic 133s Use 'sudo apt autoremove' to remove them. 133s The following packages will be upgraded: 133s pinentry-curses python3-jinja2 strace 133s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 133s Need to get 652 kB of archives. 133s After this operation, 27.6 kB of additional disk space will be used. 133s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x strace s390x 6.13+ds-1ubuntu1 [500 kB] 134s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x pinentry-curses s390x 1.3.1-2ubuntu3 [42.9 kB] 134s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 134s Fetched 652 kB in 1s (629 kB/s) 134s (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 ... 81428 files and directories currently installed.) 134s Preparing to unpack .../strace_6.13+ds-1ubuntu1_s390x.deb ... 134s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 134s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_s390x.deb ... 134s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 134s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 134s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 134s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 134s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 134s Setting up strace (6.13+ds-1ubuntu1) ... 134s Processing triggers for man-db (2.13.0-1) ... 135s Reading package lists... 135s Building dependency tree... 135s Reading state information... 135s Solving dependencies... 135s The following packages will be REMOVED: 135s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 135s linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 135s linux-modules-6.11.0-8-generic* linux-tools-6.11.0-8* 135s linux-tools-6.11.0-8-generic* 135s 0 upgraded, 0 newly installed, 9 to remove and 5 not upgraded. 135s After this operation, 167 MB disk space will be freed. 135s (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 ... 81428 files and directories currently installed.) 135s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 135s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 136s Removing libpython3.12t64:s390x (3.12.9-1) ... 136s Removing libpython3.12-stdlib:s390x (3.12.9-1) ... 136s Removing libnsl2:s390x (1.3.0-3build3) ... 136s Removing libpython3.12-minimal:s390x (3.12.9-1) ... 136s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 136s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 136s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 136s Processing triggers for libc-bin (2.41-1ubuntu1) ... 136s (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 ... 56328 files and directories currently installed.) 136s Purging configuration files for libpython3.12-minimal:s390x (3.12.9-1) ... 136s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 137s autopkgtest [16:42:43]: upgrading testbed (apt dist-upgrade and autopurge) 137s Reading package lists... 137s Building dependency tree... 137s Reading state information... 137s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 137s Starting 2 pkgProblemResolver with broken count: 0 137s Done 137s Entering ResolveByKeep 137s 137s Calculating upgrade... 138s The following packages will be upgraded: 138s libc-bin libc-dev-bin libc6 libc6-dev locales 138s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 138s Need to get 9512 kB of archives. 138s After this operation, 8192 B of additional disk space will be used. 138s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc6-dev s390x 2.41-1ubuntu2 [1678 kB] 140s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc-dev-bin s390x 2.41-1ubuntu2 [24.3 kB] 140s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc6 s390x 2.41-1ubuntu2 [2892 kB] 142s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc-bin s390x 2.41-1ubuntu2 [671 kB] 143s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x locales all 2.41-1ubuntu2 [4246 kB] 147s Preconfiguring packages ... 147s Fetched 9512 kB in 9s (1041 kB/s) 147s (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 ... 56326 files and directories currently installed.) 147s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_s390x.deb ... 147s Unpacking libc6-dev:s390x (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 147s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_s390x.deb ... 147s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 147s Preparing to unpack .../libc6_2.41-1ubuntu2_s390x.deb ... 147s Unpacking libc6:s390x (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 147s Setting up libc6:s390x (2.41-1ubuntu2) ... 147s (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 ... 56326 files and directories currently installed.) 147s Preparing to unpack .../libc-bin_2.41-1ubuntu2_s390x.deb ... 147s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 147s Setting up libc-bin (2.41-1ubuntu2) ... 147s (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 ... 56326 files and directories currently installed.) 147s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 147s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 148s Setting up locales (2.41-1ubuntu2) ... 148s Generating locales (this might take a while)... 149s en_US.UTF-8... done 149s Generation complete. 149s Setting up libc-dev-bin (2.41-1ubuntu2) ... 149s Setting up libc6-dev:s390x (2.41-1ubuntu2) ... 149s Processing triggers for man-db (2.13.0-1) ... 149s Processing triggers for systemd (257.3-1ubuntu3) ... 150s Reading package lists... 151s Building dependency tree... 151s Reading state information... 151s Starting pkgProblemResolver with broken count: 0 151s Starting 2 pkgProblemResolver with broken count: 0 151s Done 151s Solving dependencies... 151s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 151s autopkgtest [16:42:57]: rebooting testbed after setup commands that affected boot 170s autopkgtest [16:43:16]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP Wed Mar 12 14:53:49 UTC 2025 173s autopkgtest [16:43:19]: @@@@@@@@@@@@@@@@@@@@ apt-source phipack 174s Get:1 http://ftpmaster.internal/ubuntu plucky/universe phipack 0.0.20160614-5 (dsc) [2021 B] 174s Get:2 http://ftpmaster.internal/ubuntu plucky/universe phipack 0.0.20160614-5 (tar) [54.2 kB] 174s Get:3 http://ftpmaster.internal/ubuntu plucky/universe phipack 0.0.20160614-5 (diff) [6792 B] 174s gpgv: Signature made Wed Sep 9 06:32:48 2020 UTC 174s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 174s gpgv: issuer "tille@debian.org" 174s gpgv: Can't check signature: No public key 174s dpkg-source: warning: cannot verify inline signature for ./phipack_0.0.20160614-5.dsc: no acceptable signature found 174s autopkgtest [16:43:20]: testing package phipack version 0.0.20160614-5 175s autopkgtest [16:43:21]: build not needed 175s autopkgtest [16:43:21]: test run-unit-test: preparing testbed 175s Reading package lists... 175s Building dependency tree... 175s Reading state information... 176s Starting pkgProblemResolver with broken count: 0 176s Starting 2 pkgProblemResolver with broken count: 0 176s Done 176s The following NEW packages will be installed: 176s phipack 176s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 176s Need to get 56.5 kB of archives. 176s After this operation, 291 kB of additional disk space will be used. 176s Get:1 http://ftpmaster.internal/ubuntu plucky/universe s390x phipack s390x 0.0.20160614-5 [56.5 kB] 176s Fetched 56.5 kB in 0s (186 kB/s) 176s Selecting previously unselected package phipack. 176s (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 ... 56326 files and directories currently installed.) 176s Preparing to unpack .../phipack_0.0.20160614-5_s390x.deb ... 176s Unpacking phipack (0.0.20160614-5) ... 176s Setting up phipack (0.0.20160614-5) ... 176s Processing triggers for man-db (2.13.0-1) ... 178s autopkgtest [16:43:24]: test run-unit-test: [----------------------- 178s Run test for functionality ... 178s Reading sequence file noro.fasta 178s Found 25 sequences of length 1617 178s Alignment looks like a valid DNA alignment. 178s Estimated diversity is (pairwise deletion - ignoring missing/ambig): 2.2% 178s Found 103 informative sites. 178s Writing alignment of informative sites to: Phi.inf.sites 178s Writing list of informative sites to: Phi.inf.list 178s Calculating all pairwise incompatibilities... 178s Done: 0.0% 99.9%100.0% 178s 178s Using a window size of 100 with k as 6 178s 178s Calculating analytical mean and variance 178s 178s Outputting incompatibility matrix to file matrix.ppm 178s 178s **p-Value(s)** 178s ---------- 178s 178s PHI (Normal): 2.32e-03 178s 178s Reading sequence file rana.fasta 178s Found 8 sequences of length 1143 178s Alignment looks like a valid OTHER alignment. 178s 178s PHI is calculated with w as 100 178s 178s Checking for recombination using a window size of 1000 and a step size of 25 178s 178s Checking for recombination at 500 between 0 and 1000 178s PHI (Normal): 6.18e-13 178s Checking for recombination at 525 between 25 and 1025 178s PHI (Normal): 1.38e-14 178s Checking for recombination at 550 between 50 and 1050 178s PHI (Normal): 6.66e-18 178s Checking for recombination at 575 between 75 and 1075 178s PHI (Normal): 6.42e-20 178s Checking for recombination at 600 between 100 and 1100 178s PHI (Normal): 7.36e-24 178s Checking for recombination at 625 between 125 and 1125 178s PHI (Normal): 2.15e-28 178s Number of tests performed is 6 178s 178s 178s 15 March 2025 04:44:50 PM 178s 178s PPMA_2_BMP: 178s 178s Compiled on Sep 9 2020 at 06:30:55. 178s 178s Convert a NetPBM ASCII PPM file to Microsoft BMP format. 178s 178s PPMA_2_BMP: 178s XSIZE = 685. 178s YSIZE = 685. 178s 178s PPMA_2_BMP: 178s Flipping data orientation. 178s 178s PPMA_2_BMP: 178s Normal end of translation. 178s 178s PPMA_2_BMP: 178s Normal end of execution. 178s 178s 15 March 2025 04:44:50 PM 178s PASS 179s autopkgtest [16:43:25]: test run-unit-test: -----------------------] 179s autopkgtest [16:43:25]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 179s run-unit-test PASS 180s autopkgtest [16:43:26]: @@@@@@@@@@@@@@@@@@@@ summary 180s run-unit-test PASS 197s nova [W] Using flock in prodstack6-s390x 197s Creating nova instance adt-plucky-s390x-phipack-20250315-164025-juju-7f2275-prod-proposed-migration-environment-20-a8235540-6d33-4c50-8990-e8b9f5672e36 from image adt/ubuntu-plucky-s390x-server-20250315.img (UUID 3d3557fa-fd0f-4bba-9b89-8d5964e09f61)... 197s nova [W] Timed out waiting for a312444c-fcdc-4442-a6dd-7a21565efce6 to get deleted.