0s autopkgtest [19:55:23]: starting date and time: 2024-11-16 19:55:23+0000 0s autopkgtest [19:55:23]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [19:55:23]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5l546w_u/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:openmpi,src:armci-mpi,src:murasaki --apt-upgrade prime-phylo --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=openmpi/5.0.5-6 armci-mpi/0.4-4 murasaki/1.68.6-14' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-s390x-31.secgroup --name adt-plucky-s390x-prime-phylo-20241116-195523-juju-7f2275-prod-proposed-migration-environment-20-5aadc3f0-b4b1-4b0d-9c53-db1da096f57b --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'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 122s autopkgtest [19:57:25]: testbed dpkg architecture: s390x 122s autopkgtest [19:57:25]: testbed apt version: 2.9.8 122s autopkgtest [19:57:25]: @@@@@@@@@@@@@@@@@@@@ test bed setup 123s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 123s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1005 kB] 123s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [90.7 kB] 123s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 123s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 123s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [147 kB] 123s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [743 kB] 123s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [4940 B] 123s Fetched 2087 kB in 1s (2660 kB/s) 124s Reading package lists... 126s Reading package lists... 126s Building dependency tree... 126s Reading state information... 126s Calculating upgrade... 126s The following NEW packages will be installed: 126s python3.13-gdbm 126s The following packages will be upgraded: 126s debianutils libftdi1-2 libnvme1t64 python3-gdbm 127s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 127s Need to get 248 kB of archives. 127s After this operation, 100 kB of additional disk space will be used. 127s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x debianutils s390x 5.21 [93.3 kB] 127s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x python3.13-gdbm s390x 3.13.0-2 [31.0 kB] 127s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3-gdbm s390x 3.12.7-1 [8642 B] 127s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libftdi1-2 s390x 1.5-7build1 [29.3 kB] 127s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libnvme1t64 s390x 1.11-2 [85.6 kB] 127s Fetched 248 kB in 0s (610 kB/s) 127s (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 ... 55524 files and directories currently installed.) 127s Preparing to unpack .../debianutils_5.21_s390x.deb ... 127s Unpacking debianutils (5.21) over (5.20) ... 127s Setting up debianutils (5.21) ... 127s Selecting previously unselected package python3.13-gdbm. 127s (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 ... 55524 files and directories currently installed.) 127s Preparing to unpack .../python3.13-gdbm_3.13.0-2_s390x.deb ... 127s Unpacking python3.13-gdbm (3.13.0-2) ... 127s Preparing to unpack .../python3-gdbm_3.12.7-1_s390x.deb ... 127s Unpacking python3-gdbm:s390x (3.12.7-1) over (3.12.6-1ubuntu1) ... 127s Preparing to unpack .../libftdi1-2_1.5-7build1_s390x.deb ... 127s Unpacking libftdi1-2:s390x (1.5-7build1) over (1.5-7) ... 127s Preparing to unpack .../libnvme1t64_1.11-2_s390x.deb ... 127s Unpacking libnvme1t64 (1.11-2) over (1.11-1) ... 127s Setting up libftdi1-2:s390x (1.5-7build1) ... 127s Setting up libnvme1t64 (1.11-2) ... 127s Setting up python3.13-gdbm (3.13.0-2) ... 127s Setting up python3-gdbm:s390x (3.12.7-1) ... 127s Processing triggers for man-db (2.13.0-1) ... 128s Processing triggers for libc-bin (2.40-1ubuntu3) ... 129s Reading package lists... 129s Building dependency tree... 129s Reading state information... 129s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 129s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 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 Reading package lists... 130s Reading package lists... 131s Building dependency tree... 131s Reading state information... 131s Calculating upgrade... 131s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 131s 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 [19:57:37]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 12:49:35 UTC 2024 134s autopkgtest [19:57:37]: @@@@@@@@@@@@@@@@@@@@ apt-source prime-phylo 135s Get:1 http://ftpmaster.internal/ubuntu plucky/universe prime-phylo 1.0.11-12 (dsc) [2366 B] 135s Get:2 http://ftpmaster.internal/ubuntu plucky/universe prime-phylo 1.0.11-12 (tar) [751 kB] 135s Get:3 http://ftpmaster.internal/ubuntu plucky/universe prime-phylo 1.0.11-12 (diff) [10.5 kB] 136s gpgv: Signature made Wed Aug 7 15:34:26 2024 UTC 136s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 136s gpgv: issuer "emollier@debian.org" 136s gpgv: Can't check signature: No public key 136s dpkg-source: warning: cannot verify inline signature for ./prime-phylo_1.0.11-12.dsc: no acceptable signature found 136s autopkgtest [19:57:39]: testing package prime-phylo version 1.0.11-12 136s autopkgtest [19:57:39]: build not needed 136s autopkgtest [19:57:39]: test run-unit-test: preparing testbed 141s Reading package lists... 141s Building dependency tree... 141s Reading state information... 141s Starting pkgProblemResolver with broken count: 0 141s Starting 2 pkgProblemResolver with broken count: 0 141s Done 141s The following additional packages will be installed: 141s libblas3 libboost-mpi1.83.0 libboost-serialization1.83.0 141s libevent-pthreads-2.1-7t64 libfabric1 libgfortran5 libhwloc-plugins 141s libhwloc15 liblapack3 libmunge2 libopenmpi3t64 libpciaccess0 libpmix2t64 141s librdmacm1t64 libxnvctrl0 ocl-icd-libopencl1 prime-phylo 141s Suggested packages: 141s opencl-icd njplot treeviewx muscle probalign mafft python3-biopython mrbayes 141s phyml raxml 141s The following NEW packages will be installed: 141s autopkgtest-satdep libblas3 libboost-mpi1.83.0 libboost-serialization1.83.0 141s libevent-pthreads-2.1-7t64 libfabric1 libgfortran5 libhwloc-plugins 141s libhwloc15 liblapack3 libmunge2 libopenmpi3t64 libpciaccess0 libpmix2t64 141s librdmacm1t64 libxnvctrl0 ocl-icd-libopencl1 prime-phylo 141s 0 upgraded, 18 newly installed, 0 to remove and 0 not upgraded. 141s Need to get 8982 kB/8983 kB of archives. 141s After this operation, 31.4 MB of additional disk space will be used. 141s Get:1 /tmp/autopkgtest.zoh7P0/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [708 B] 141s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.0-3build2 [238 kB] 142s Get:3 http://ftpmaster.internal/ubuntu plucky/universe s390x libboost-serialization1.83.0 s390x 1.83.0-3.2ubuntu2 [350 kB] 142s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libevent-pthreads-2.1-7t64 s390x 2.1.12-stable-10 [7870 B] 142s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x librdmacm1t64 s390x 52.0-2ubuntu1 [73.8 kB] 142s Get:6 http://ftpmaster.internal/ubuntu plucky/universe s390x libfabric1 s390x 1.17.0-3ubuntu1 [558 kB] 142s Get:7 http://ftpmaster.internal/ubuntu plucky/universe s390x libhwloc15 s390x 2.11.2-1 [176 kB] 142s Get:8 http://ftpmaster.internal/ubuntu plucky/universe s390x libmunge2 s390x 0.5.15-4build1 [15.6 kB] 142s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libpciaccess0 s390x 0.17-3build1 [19.0 kB] 142s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libxnvctrl0 s390x 510.47.03-0ubuntu4 [12.7 kB] 142s Get:11 http://ftpmaster.internal/ubuntu plucky/universe s390x ocl-icd-libopencl1 s390x 2.3.2-1build1 [41.1 kB] 142s Get:12 http://ftpmaster.internal/ubuntu plucky/universe s390x libhwloc-plugins s390x 2.11.2-1 [16.1 kB] 142s Get:13 http://ftpmaster.internal/ubuntu plucky/universe s390x libpmix2t64 s390x 5.0.3-2 [718 kB] 142s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x libopenmpi3t64 s390x 5.0.5-6 [2104 kB] 142s Get:15 http://ftpmaster.internal/ubuntu plucky/universe s390x libboost-mpi1.83.0 s390x 1.83.0-3.2ubuntu2 [271 kB] 142s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 14.2.0-8ubuntu1 [587 kB] 142s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.0-3build2 [2953 kB] 142s Get:18 http://ftpmaster.internal/ubuntu plucky/universe s390x prime-phylo s390x 1.0.11-12 [842 kB] 143s Fetched 8982 kB in 1s (7019 kB/s) 143s Selecting previously unselected package libblas3:s390x. 143s (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 ... 55531 files and directories currently installed.) 143s Preparing to unpack .../00-libblas3_3.12.0-3build2_s390x.deb ... 143s Unpacking libblas3:s390x (3.12.0-3build2) ... 143s Selecting previously unselected package libboost-serialization1.83.0:s390x. 143s Preparing to unpack .../01-libboost-serialization1.83.0_1.83.0-3.2ubuntu2_s390x.deb ... 143s Unpacking libboost-serialization1.83.0:s390x (1.83.0-3.2ubuntu2) ... 143s Selecting previously unselected package libevent-pthreads-2.1-7t64:s390x. 143s Preparing to unpack .../02-libevent-pthreads-2.1-7t64_2.1.12-stable-10_s390x.deb ... 143s Unpacking libevent-pthreads-2.1-7t64:s390x (2.1.12-stable-10) ... 143s Selecting previously unselected package librdmacm1t64:s390x. 143s Preparing to unpack .../03-librdmacm1t64_52.0-2ubuntu1_s390x.deb ... 143s Unpacking librdmacm1t64:s390x (52.0-2ubuntu1) ... 143s Selecting previously unselected package libfabric1:s390x. 143s Preparing to unpack .../04-libfabric1_1.17.0-3ubuntu1_s390x.deb ... 143s Unpacking libfabric1:s390x (1.17.0-3ubuntu1) ... 143s Selecting previously unselected package libhwloc15:s390x. 143s Preparing to unpack .../05-libhwloc15_2.11.2-1_s390x.deb ... 143s Unpacking libhwloc15:s390x (2.11.2-1) ... 143s Selecting previously unselected package libmunge2:s390x. 143s Preparing to unpack .../06-libmunge2_0.5.15-4build1_s390x.deb ... 143s Unpacking libmunge2:s390x (0.5.15-4build1) ... 143s Selecting previously unselected package libpciaccess0:s390x. 143s Preparing to unpack .../07-libpciaccess0_0.17-3build1_s390x.deb ... 143s Unpacking libpciaccess0:s390x (0.17-3build1) ... 143s Selecting previously unselected package libxnvctrl0:s390x. 143s Preparing to unpack .../08-libxnvctrl0_510.47.03-0ubuntu4_s390x.deb ... 143s Unpacking libxnvctrl0:s390x (510.47.03-0ubuntu4) ... 143s Selecting previously unselected package ocl-icd-libopencl1:s390x. 143s Preparing to unpack .../09-ocl-icd-libopencl1_2.3.2-1build1_s390x.deb ... 143s Unpacking ocl-icd-libopencl1:s390x (2.3.2-1build1) ... 143s Selecting previously unselected package libhwloc-plugins:s390x. 143s Preparing to unpack .../10-libhwloc-plugins_2.11.2-1_s390x.deb ... 143s Unpacking libhwloc-plugins:s390x (2.11.2-1) ... 143s Selecting previously unselected package libpmix2t64:s390x. 143s Preparing to unpack .../11-libpmix2t64_5.0.3-2_s390x.deb ... 143s Unpacking libpmix2t64:s390x (5.0.3-2) ... 143s Selecting previously unselected package libopenmpi3t64:s390x. 143s Preparing to unpack .../12-libopenmpi3t64_5.0.5-6_s390x.deb ... 143s Unpacking libopenmpi3t64:s390x (5.0.5-6) ... 143s Selecting previously unselected package libboost-mpi1.83.0. 143s Preparing to unpack .../13-libboost-mpi1.83.0_1.83.0-3.2ubuntu2_s390x.deb ... 143s Unpacking libboost-mpi1.83.0 (1.83.0-3.2ubuntu2) ... 143s Selecting previously unselected package libgfortran5:s390x. 143s Preparing to unpack .../14-libgfortran5_14.2.0-8ubuntu1_s390x.deb ... 143s Unpacking libgfortran5:s390x (14.2.0-8ubuntu1) ... 143s Selecting previously unselected package liblapack3:s390x. 143s Preparing to unpack .../15-liblapack3_3.12.0-3build2_s390x.deb ... 143s Unpacking liblapack3:s390x (3.12.0-3build2) ... 143s Selecting previously unselected package prime-phylo. 143s Preparing to unpack .../16-prime-phylo_1.0.11-12_s390x.deb ... 143s Unpacking prime-phylo (1.0.11-12) ... 143s Selecting previously unselected package autopkgtest-satdep. 143s Preparing to unpack .../17-1-autopkgtest-satdep.deb ... 143s Unpacking autopkgtest-satdep (0) ... 143s Setting up libpciaccess0:s390x (0.17-3build1) ... 143s Setting up libevent-pthreads-2.1-7t64:s390x (2.1.12-stable-10) ... 143s Setting up libxnvctrl0:s390x (510.47.03-0ubuntu4) ... 143s Setting up libboost-serialization1.83.0:s390x (1.83.0-3.2ubuntu2) ... 143s Setting up libblas3:s390x (3.12.0-3build2) ... 143s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 143s Setting up libmunge2:s390x (0.5.15-4build1) ... 143s Setting up libhwloc15:s390x (2.11.2-1) ... 143s Setting up libgfortran5:s390x (14.2.0-8ubuntu1) ... 143s Setting up ocl-icd-libopencl1:s390x (2.3.2-1build1) ... 143s Setting up librdmacm1t64:s390x (52.0-2ubuntu1) ... 143s Setting up libfabric1:s390x (1.17.0-3ubuntu1) ... 143s Setting up liblapack3:s390x (3.12.0-3build2) ... 143s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 143s Setting up libhwloc-plugins:s390x (2.11.2-1) ... 143s Setting up libpmix2t64:s390x (5.0.3-2) ... 143s Setting up libopenmpi3t64:s390x (5.0.5-6) ... 143s Setting up libboost-mpi1.83.0 (1.83.0-3.2ubuntu2) ... 143s Setting up prime-phylo (1.0.11-12) ... 143s Setting up autopkgtest-satdep (0) ... 143s Processing triggers for man-db (2.13.0-1) ... 143s Processing triggers for libc-bin (2.40-1ubuntu3) ... 145s (Reading database ... 55738 files and directories currently installed.) 145s Removing autopkgtest-satdep (0) ... 146s autopkgtest [19:57:49]: test run-unit-test: [----------------------- 146s treesize: error while loading shared libraries: libmpi_cxx.so.40: cannot open shared object file: No such file or directory 146s autopkgtest [19:57:49]: test run-unit-test: -----------------------] 147s autopkgtest [19:57:50]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 147s run-unit-test FAIL non-zero exit status 127 147s autopkgtest [19:57:50]: @@@@@@@@@@@@@@@@@@@@ summary 147s run-unit-test FAIL non-zero exit status 127 159s nova [W] Using flock in prodstack6-s390x 159s flock: timeout while waiting to get lock 159s Creating nova instance adt-plucky-s390x-prime-phylo-20241116-195523-juju-7f2275-prod-proposed-migration-environment-20-5aadc3f0-b4b1-4b0d-9c53-db1da096f57b from image adt/ubuntu-plucky-s390x-server-20241116.img (UUID 8b9ebbc2-c07a-4d37-971c-9f6c1dec30a1)...