0s autopkgtest [03:10:51]: starting date and time: 2024-03-22 03:10:51+0000 0s autopkgtest [03:10:51]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [03:10:51]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.pgbb56og/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:r-base --apt-upgrade r-bioc-mofa --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-base/4.3.3-2build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-62.secgroup --name adt-noble-i386-r-bioc-mofa-20240322-031051-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-amd64-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/ 454s autopkgtest [03:18:25]: testbed dpkg architecture: amd64 454s autopkgtest [03:18:25]: testbed apt version: 2.7.12 454s autopkgtest [03:18:25]: test architecture: i386 454s autopkgtest [03:18:25]: @@@@@@@@@@@@@@@@@@@@ test bed setup 455s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 455s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 455s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB] 455s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [53.9 kB] 455s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3805 kB] 455s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [467 kB] 455s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [703 kB] 455s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B] 455s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [30.5 kB] 455s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [6700 B] 455s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B] 455s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [1277 kB] 455s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [4237 kB] 455s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B] 455s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [26.8 kB] 455s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [93.7 kB] 455s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B] 458s Fetched 11.3 MB in 1s (7916 kB/s) 458s Reading package lists... 460s Reading package lists... 460s Building dependency tree... 460s Reading state information... 460s Calculating upgrade... 461s The following packages will be upgraded: 461s cloud-init fonts-ubuntu-console python3-markupsafe 461s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 461s Need to get 629 kB of archives. 461s After this operation, 11.3 kB disk space will be freed. 461s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB] 461s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 python3-markupsafe amd64 2.1.5-1build1 [12.6 kB] 461s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 cloud-init all 24.1.2-0ubuntu1 [597 kB] 461s Preconfiguring packages ... 461s Fetched 629 kB in 0s (15.7 MB/s) 461s (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 ... 71865 files and directories currently installed.) 461s Preparing to unpack .../fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ... 461s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ... 461s Preparing to unpack .../python3-markupsafe_2.1.5-1build1_amd64.deb ... 461s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ... 461s Preparing to unpack .../cloud-init_24.1.2-0ubuntu1_all.deb ... 462s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ... 462s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ... 462s Setting up cloud-init (24.1.2-0ubuntu1) ... 463s Setting up python3-markupsafe (2.1.5-1build1) ... 463s Processing triggers for man-db (2.12.0-3) ... 464s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 464s Reading package lists... 464s Building dependency tree... 464s Reading state information... 465s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 465s sh: Attempting to set up Debian/Ubuntu apt sources automatically 465s sh: Distribution appears to be Ubuntu 466s Reading package lists... 466s Building dependency tree... 466s Reading state information... 467s eatmydata is already the newest version (131-1). 467s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 467s Reading package lists... 467s Building dependency tree... 467s Reading state information... 467s dbus is already the newest version (1.14.10-4ubuntu1). 467s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 467s Reading package lists... 467s Building dependency tree... 467s Reading state information... 467s rng-tools-debian is already the newest version (2.4). 467s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 468s Reading package lists... 468s Building dependency tree... 468s Reading state information... 468s The following packages will be REMOVED: 468s cloud-init* python3-configobj* python3-debconf* 468s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 468s After this operation, 3256 kB disk space will be freed. 468s (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 ... 71864 files and directories currently installed.) 468s Removing cloud-init (24.1.2-0ubuntu1) ... 469s Removing python3-configobj (5.0.8-3) ... 469s Removing python3-debconf (1.5.86) ... 469s Processing triggers for man-db (2.12.0-3) ... 469s (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 ... 71475 files and directories currently installed.) 469s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 470s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 470s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 470s invoke-rc.d: policy-rc.d denied execution of try-restart. 470s Reading package lists... 470s Building dependency tree... 470s Reading state information... 471s linux-generic is already the newest version (6.8.0-11.11+1). 471s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 471s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 471s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 471s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 473s Reading package lists... 473s Reading package lists... 473s Building dependency tree... 473s Reading state information... 473s Calculating upgrade... 474s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 474s Reading package lists... 474s Building dependency tree... 474s Reading state information... 474s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 474s autopkgtest [03:18:45]: rebooting testbed after setup commands that affected boot 491s autopkgtest [03:19:02]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 00:29:05 UTC 2024 492s autopkgtest [03:19:03]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-mofa 493s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-bioc-mofa 1.6.1+dfsg-12 (dsc) [2554 B] 493s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-bioc-mofa 1.6.1+dfsg-12 (tar) [915 kB] 493s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-bioc-mofa 1.6.1+dfsg-12 (diff) [4216 B] 494s gpgv: Signature made Thu Nov 30 17:10:43 2023 UTC 494s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 494s gpgv: issuer "tille@debian.org" 494s gpgv: Can't check signature: No public key 494s dpkg-source: warning: cannot verify inline signature for ./r-bioc-mofa_1.6.1+dfsg-12.dsc: no acceptable signature found 494s autopkgtest [03:19:05]: testing package r-bioc-mofa version 1.6.1+dfsg-12 494s autopkgtest [03:19:05]: build not needed 494s autopkgtest [03:19:05]: test autodep8-python3: preparing testbed 496s Note, using file '/tmp/autopkgtest.jVijKD/1-autopkgtest-satdep.dsc' to get the build dependencies 496s Reading package lists... 496s Building dependency tree... 496s Reading state information... 497s Starting pkgProblemResolver with broken count: 0 497s Starting 2 pkgProblemResolver with broken count: 0 497s Done 497s The following NEW packages will be installed: 497s build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu g++ 497s g++-13 g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-13 497s gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu libaec0 libasan8 libatomic1 497s libblas3 libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libgcc-13-dev 497s libgfortran5 libgomp1 libhdf5-103-1 libhdf5-hl-100 libhwasan0 libisl23 497s libitm1 liblapack3 liblbfgsb0 liblsan0 liblzf1 libmpc3 libnsl-dev 497s libquadmath0 libstdc++-13-dev libsz2 libtirpc-dev libtsan2 libubsan1 497s linux-libc-dev python3-all python3-dateutil python3-decorator python3-h5py 497s python3-h5py-serial python3-mofapy python3-numpy python3-pandas 497s python3-pandas-lib python3-scipy rpcsvc-proto 497s 0 upgraded, 53 newly installed, 0 to remove and 0 not upgraded. 497s Need to get 111 MB of archives. 497s After this operation, 473 MB of additional disk space will be used. 497s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 libc-dev-bin amd64 2.39-0ubuntu2 [20.4 kB] 497s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 linux-libc-dev amd64 6.8.0-11.11 [1595 kB] 497s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 libcrypt-dev amd64 1:4.4.36-4 [128 kB] 497s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 libtirpc-dev amd64 1.3.4+ds-1build1 [222 kB] 497s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 libnsl-dev amd64 1.3.0-3 [71.2 kB] 497s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 rpcsvc-proto amd64 1.4.2-0ubuntu6 [68.5 kB] 497s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 libc6-dev amd64 2.39-0ubuntu2 [2126 kB] 497s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 libisl23 amd64 0.26-3 [741 kB] 497s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 libmpc3 amd64 1.3.1-1 [54.1 kB] 497s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.2 MB] 497s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13 amd64 13.2.0-17ubuntu2 [1030 B] 497s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B] 497s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB] 497s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 libcc1-0 amd64 14-20240303-1ubuntu1 [47.7 kB] 497s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libgomp1 amd64 14-20240303-1ubuntu1 [147 kB] 497s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libitm1 amd64 14-20240303-1ubuntu1 [29.1 kB] 497s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 libatomic1 amd64 14-20240303-1ubuntu1 [10.4 kB] 497s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libasan8 amd64 14-20240303-1ubuntu1 [3026 kB] 497s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 liblsan0 amd64 14-20240303-1ubuntu1 [1310 kB] 497s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 libtsan2 amd64 14-20240303-1ubuntu1 [2732 kB] 497s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 libubsan1 amd64 14-20240303-1ubuntu1 [1172 kB] 497s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 libhwasan0 amd64 14-20240303-1ubuntu1 [1629 kB] 497s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 libquadmath0 amd64 14-20240303-1ubuntu1 [155 kB] 497s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 libgcc-13-dev amd64 13.2.0-17ubuntu2 [2687 kB] 497s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [21.9 MB] 498s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13 amd64 13.2.0-17ubuntu2 [477 kB] 498s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B] 498s Get:28 http://ftpmaster.internal/ubuntu noble/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B] 498s Get:29 http://ftpmaster.internal/ubuntu noble/main amd64 libstdc++-13-dev amd64 13.2.0-17ubuntu2 [2340 kB] 498s Get:30 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [12.5 MB] 498s Get:31 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13 amd64 13.2.0-17ubuntu2 [14.5 kB] 498s Get:32 http://ftpmaster.internal/ubuntu noble/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B] 498s Get:33 http://ftpmaster.internal/ubuntu noble/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B] 498s Get:34 http://ftpmaster.internal/ubuntu noble/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 498s Get:35 http://ftpmaster.internal/ubuntu noble/universe amd64 libaec0 amd64 1.1.2-1 [22.6 kB] 498s Get:36 http://ftpmaster.internal/ubuntu noble/main amd64 libblas3 amd64 3.12.0-3 [238 kB] 498s Get:37 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran5 amd64 14-20240303-1ubuntu1 [924 kB] 498s Get:38 http://ftpmaster.internal/ubuntu noble/universe amd64 libsz2 amd64 1.1.2-1 [5416 B] 498s Get:39 http://ftpmaster.internal/ubuntu noble/universe amd64 libhdf5-103-1 amd64 1.10.10+repack-3ubuntu1 [1327 kB] 498s Get:40 http://ftpmaster.internal/ubuntu noble/universe amd64 libhdf5-hl-100 amd64 1.10.10+repack-3ubuntu1 [56.2 kB] 498s Get:41 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack3 amd64 3.12.0-3 [2649 kB] 498s Get:42 http://ftpmaster.internal/ubuntu noble/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1 [30.4 kB] 498s Get:43 http://ftpmaster.internal/ubuntu noble/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 498s Get:44 http://ftpmaster.internal/ubuntu noble/main amd64 python3-all amd64 3.12.1-0ubuntu2 [906 B] 498s Get:45 http://ftpmaster.internal/ubuntu noble/main amd64 python3-dateutil all 2.8.2-3 [79.2 kB] 498s Get:46 http://ftpmaster.internal/ubuntu noble/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 498s Get:47 http://ftpmaster.internal/ubuntu noble/main amd64 python3-numpy amd64 1:1.24.2-2 [7141 kB] 498s Get:48 http://ftpmaster.internal/ubuntu noble/universe amd64 python3-h5py-serial amd64 3.10.0-1ubuntu1 [1510 kB] 498s Get:49 http://ftpmaster.internal/ubuntu noble/universe amd64 python3-h5py all 3.10.0-1ubuntu1 [7970 B] 498s Get:50 http://ftpmaster.internal/ubuntu noble/universe amd64 python3-pandas-lib amd64 2.1.4+dfsg-4ubuntu2 [8348 kB] 498s Get:51 http://ftpmaster.internal/ubuntu noble/universe amd64 python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB] 498s Get:52 http://ftpmaster.internal/ubuntu noble/universe amd64 python3-scipy amd64 1.11.4-6 [19.4 MB] 498s Get:53 http://ftpmaster.internal/ubuntu noble/universe amd64 python3-mofapy all 1.6.1+dfsg-12 [34.8 kB] 498s Fetched 111 MB in 1s (138 MB/s) 498s Selecting previously unselected package libc-dev-bin. 498s (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 ... 71420 files and directories currently installed.) 498s Preparing to unpack .../00-libc-dev-bin_2.39-0ubuntu2_amd64.deb ... 498s Unpacking libc-dev-bin (2.39-0ubuntu2) ... 498s Selecting previously unselected package linux-libc-dev:amd64. 499s Preparing to unpack .../01-linux-libc-dev_6.8.0-11.11_amd64.deb ... 499s Unpacking linux-libc-dev:amd64 (6.8.0-11.11) ... 499s Selecting previously unselected package libcrypt-dev:amd64. 499s Preparing to unpack .../02-libcrypt-dev_1%3a4.4.36-4_amd64.deb ... 499s Unpacking libcrypt-dev:amd64 (1:4.4.36-4) ... 499s Selecting previously unselected package libtirpc-dev:amd64. 499s Preparing to unpack .../03-libtirpc-dev_1.3.4+ds-1build1_amd64.deb ... 499s Unpacking libtirpc-dev:amd64 (1.3.4+ds-1build1) ... 499s Selecting previously unselected package libnsl-dev:amd64. 499s Preparing to unpack .../04-libnsl-dev_1.3.0-3_amd64.deb ... 499s Unpacking libnsl-dev:amd64 (1.3.0-3) ... 499s Selecting previously unselected package rpcsvc-proto. 499s Preparing to unpack .../05-rpcsvc-proto_1.4.2-0ubuntu6_amd64.deb ... 499s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... 499s Selecting previously unselected package libc6-dev:amd64. 499s Preparing to unpack .../06-libc6-dev_2.39-0ubuntu2_amd64.deb ... 499s Unpacking libc6-dev:amd64 (2.39-0ubuntu2) ... 499s Selecting previously unselected package libisl23:amd64. 499s Preparing to unpack .../07-libisl23_0.26-3_amd64.deb ... 499s Unpacking libisl23:amd64 (0.26-3) ... 499s Selecting previously unselected package libmpc3:amd64. 499s Preparing to unpack .../08-libmpc3_1.3.1-1_amd64.deb ... 499s Unpacking libmpc3:amd64 (1.3.1-1) ... 499s Selecting previously unselected package cpp-13-x86-64-linux-gnu. 499s Preparing to unpack .../09-cpp-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ... 499s Unpacking cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ... 499s Selecting previously unselected package cpp-13. 499s Preparing to unpack .../10-cpp-13_13.2.0-17ubuntu2_amd64.deb ... 499s Unpacking cpp-13 (13.2.0-17ubuntu2) ... 499s Selecting previously unselected package cpp-x86-64-linux-gnu. 499s Preparing to unpack .../11-cpp-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 499s Unpacking cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 499s Selecting previously unselected package cpp. 499s Preparing to unpack .../12-cpp_4%3a13.2.0-7ubuntu1_amd64.deb ... 499s Unpacking cpp (4:13.2.0-7ubuntu1) ... 499s Selecting previously unselected package libcc1-0:amd64. 499s Preparing to unpack .../13-libcc1-0_14-20240303-1ubuntu1_amd64.deb ... 499s Unpacking libcc1-0:amd64 (14-20240303-1ubuntu1) ... 499s Selecting previously unselected package libgomp1:amd64. 499s Preparing to unpack .../14-libgomp1_14-20240303-1ubuntu1_amd64.deb ... 499s Unpacking libgomp1:amd64 (14-20240303-1ubuntu1) ... 499s Selecting previously unselected package libitm1:amd64. 499s Preparing to unpack .../15-libitm1_14-20240303-1ubuntu1_amd64.deb ... 499s Unpacking libitm1:amd64 (14-20240303-1ubuntu1) ... 499s Selecting previously unselected package libatomic1:amd64. 499s Preparing to unpack .../16-libatomic1_14-20240303-1ubuntu1_amd64.deb ... 499s Unpacking libatomic1:amd64 (14-20240303-1ubuntu1) ... 499s Selecting previously unselected package libasan8:amd64. 499s Preparing to unpack .../17-libasan8_14-20240303-1ubuntu1_amd64.deb ... 499s Unpacking libasan8:amd64 (14-20240303-1ubuntu1) ... 499s Selecting previously unselected package liblsan0:amd64. 499s Preparing to unpack .../18-liblsan0_14-20240303-1ubuntu1_amd64.deb ... 499s Unpacking liblsan0:amd64 (14-20240303-1ubuntu1) ... 500s Selecting previously unselected package libtsan2:amd64. 500s Preparing to unpack .../19-libtsan2_14-20240303-1ubuntu1_amd64.deb ... 500s Unpacking libtsan2:amd64 (14-20240303-1ubuntu1) ... 500s Selecting previously unselected package libubsan1:amd64. 500s Preparing to unpack .../20-libubsan1_14-20240303-1ubuntu1_amd64.deb ... 500s Unpacking libubsan1:amd64 (14-20240303-1ubuntu1) ... 500s Selecting previously unselected package libhwasan0:amd64. 500s Preparing to unpack .../21-libhwasan0_14-20240303-1ubuntu1_amd64.deb ... 500s Unpacking libhwasan0:amd64 (14-20240303-1ubuntu1) ... 500s Selecting previously unselected package libquadmath0:amd64. 500s Preparing to unpack .../22-libquadmath0_14-20240303-1ubuntu1_amd64.deb ... 500s Unpacking libquadmath0:amd64 (14-20240303-1ubuntu1) ... 500s Selecting previously unselected package libgcc-13-dev:amd64. 500s Preparing to unpack .../23-libgcc-13-dev_13.2.0-17ubuntu2_amd64.deb ... 500s Unpacking libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ... 500s Selecting previously unselected package gcc-13-x86-64-linux-gnu. 500s Preparing to unpack .../24-gcc-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ... 500s Unpacking gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ... 500s Selecting previously unselected package gcc-13. 500s Preparing to unpack .../25-gcc-13_13.2.0-17ubuntu2_amd64.deb ... 500s Unpacking gcc-13 (13.2.0-17ubuntu2) ... 500s Selecting previously unselected package gcc-x86-64-linux-gnu. 500s Preparing to unpack .../26-gcc-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 500s Unpacking gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 500s Selecting previously unselected package gcc. 500s Preparing to unpack .../27-gcc_4%3a13.2.0-7ubuntu1_amd64.deb ... 500s Unpacking gcc (4:13.2.0-7ubuntu1) ... 500s Selecting previously unselected package libstdc++-13-dev:amd64. 500s Preparing to unpack .../28-libstdc++-13-dev_13.2.0-17ubuntu2_amd64.deb ... 500s Unpacking libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ... 501s Selecting previously unselected package g++-13-x86-64-linux-gnu. 501s Preparing to unpack .../29-g++-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ... 501s Unpacking g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ... 501s Selecting previously unselected package g++-13. 501s Preparing to unpack .../30-g++-13_13.2.0-17ubuntu2_amd64.deb ... 501s Unpacking g++-13 (13.2.0-17ubuntu2) ... 501s Selecting previously unselected package g++-x86-64-linux-gnu. 501s Preparing to unpack .../31-g++-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 501s Unpacking g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 501s Selecting previously unselected package g++. 501s Preparing to unpack .../32-g++_4%3a13.2.0-7ubuntu1_amd64.deb ... 501s Unpacking g++ (4:13.2.0-7ubuntu1) ... 501s Selecting previously unselected package build-essential. 501s Preparing to unpack .../33-build-essential_12.10ubuntu1_amd64.deb ... 501s Unpacking build-essential (12.10ubuntu1) ... 501s Selecting previously unselected package libaec0:amd64. 501s Preparing to unpack .../34-libaec0_1.1.2-1_amd64.deb ... 501s Unpacking libaec0:amd64 (1.1.2-1) ... 501s Selecting previously unselected package libblas3:amd64. 501s Preparing to unpack .../35-libblas3_3.12.0-3_amd64.deb ... 501s Unpacking libblas3:amd64 (3.12.0-3) ... 501s Selecting previously unselected package libgfortran5:amd64. 501s Preparing to unpack .../36-libgfortran5_14-20240303-1ubuntu1_amd64.deb ... 501s Unpacking libgfortran5:amd64 (14-20240303-1ubuntu1) ... 501s Selecting previously unselected package libsz2:amd64. 501s Preparing to unpack .../37-libsz2_1.1.2-1_amd64.deb ... 501s Unpacking libsz2:amd64 (1.1.2-1) ... 501s Selecting previously unselected package libhdf5-103-1:amd64. 501s Preparing to unpack .../38-libhdf5-103-1_1.10.10+repack-3ubuntu1_amd64.deb ... 501s Unpacking libhdf5-103-1:amd64 (1.10.10+repack-3ubuntu1) ... 501s Selecting previously unselected package libhdf5-hl-100:amd64. 501s Preparing to unpack .../39-libhdf5-hl-100_1.10.10+repack-3ubuntu1_amd64.deb ... 501s Unpacking libhdf5-hl-100:amd64 (1.10.10+repack-3ubuntu1) ... 501s Selecting previously unselected package liblapack3:amd64. 501s Preparing to unpack .../40-liblapack3_3.12.0-3_amd64.deb ... 501s Unpacking liblapack3:amd64 (3.12.0-3) ... 501s Selecting previously unselected package liblbfgsb0:amd64. 501s Preparing to unpack .../41-liblbfgsb0_3.0+dfsg.4-1_amd64.deb ... 501s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1) ... 501s Selecting previously unselected package liblzf1:amd64. 501s Preparing to unpack .../42-liblzf1_3.6-4_amd64.deb ... 501s Unpacking liblzf1:amd64 (3.6-4) ... 501s Selecting previously unselected package python3-all. 501s Preparing to unpack .../43-python3-all_3.12.1-0ubuntu2_amd64.deb ... 501s Unpacking python3-all (3.12.1-0ubuntu2) ... 501s Selecting previously unselected package python3-dateutil. 501s Preparing to unpack .../44-python3-dateutil_2.8.2-3_all.deb ... 501s Unpacking python3-dateutil (2.8.2-3) ... 501s Selecting previously unselected package python3-decorator. 501s Preparing to unpack .../45-python3-decorator_5.1.1-5_all.deb ... 501s Unpacking python3-decorator (5.1.1-5) ... 501s Selecting previously unselected package python3-numpy. 501s Preparing to unpack .../46-python3-numpy_1%3a1.24.2-2_amd64.deb ... 501s Unpacking python3-numpy (1:1.24.2-2) ... 502s Selecting previously unselected package python3-h5py-serial. 502s Preparing to unpack .../47-python3-h5py-serial_3.10.0-1ubuntu1_amd64.deb ... 502s Unpacking python3-h5py-serial (3.10.0-1ubuntu1) ... 502s Selecting previously unselected package python3-h5py. 502s Preparing to unpack .../48-python3-h5py_3.10.0-1ubuntu1_all.deb ... 502s Unpacking python3-h5py (3.10.0-1ubuntu1) ... 502s Selecting previously unselected package python3-pandas-lib:amd64. 502s Preparing to unpack .../49-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_amd64.deb ... 502s Unpacking python3-pandas-lib:amd64 (2.1.4+dfsg-4ubuntu2) ... 502s Selecting previously unselected package python3-pandas. 502s Preparing to unpack .../50-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ... 502s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ... 502s Selecting previously unselected package python3-scipy. 502s Preparing to unpack .../51-python3-scipy_1.11.4-6_amd64.deb ... 502s Unpacking python3-scipy (1.11.4-6) ... 503s Selecting previously unselected package python3-mofapy. 503s Preparing to unpack .../52-python3-mofapy_1.6.1+dfsg-12_all.deb ... 503s Unpacking python3-mofapy (1.6.1+dfsg-12) ... 503s Setting up linux-libc-dev:amd64 (6.8.0-11.11) ... 503s Setting up python3-all (3.12.1-0ubuntu2) ... 503s Setting up libgomp1:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libaec0:amd64 (1.1.2-1) ... 503s Setting up python3-decorator (5.1.1-5) ... 503s Setting up libblas3:amd64 (3.12.0-3) ... 503s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 503s Setting up libtirpc-dev:amd64 (1.3.4+ds-1build1) ... 503s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... 503s Setting up liblzf1:amd64 (3.6-4) ... 503s Setting up libquadmath0:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libmpc3:amd64 (1.3.1-1) ... 503s Setting up libatomic1:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libgfortran5:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libubsan1:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libnsl-dev:amd64 (1.3.0-3) ... 503s Setting up libhwasan0:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libcrypt-dev:amd64 (1:4.4.36-4) ... 503s Setting up libasan8:amd64 (14-20240303-1ubuntu1) ... 503s Setting up python3-dateutil (2.8.2-3) ... 503s Setting up libtsan2:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libisl23:amd64 (0.26-3) ... 503s Setting up libc-dev-bin (2.39-0ubuntu2) ... 503s Setting up libcc1-0:amd64 (14-20240303-1ubuntu1) ... 503s Setting up liblsan0:amd64 (14-20240303-1ubuntu1) ... 503s Setting up libsz2:amd64 (1.1.2-1) ... 503s Setting up libitm1:amd64 (14-20240303-1ubuntu1) ... 503s Setting up liblapack3:amd64 (3.12.0-3) ... 503s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 503s Setting up cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ... 503s Setting up python3-numpy (1:1.24.2-2) ... 505s Setting up libhdf5-103-1:amd64 (1.10.10+repack-3ubuntu1) ... 505s Setting up libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ... 505s Setting up libc6-dev:amd64 (2.39-0ubuntu2) ... 505s Setting up libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ... 505s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1) ... 505s Setting up libhdf5-hl-100:amd64 (1.10.10+repack-3ubuntu1) ... 505s Setting up cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 505s Setting up python3-scipy (1.11.4-6) ... 507s Setting up cpp-13 (13.2.0-17ubuntu2) ... 507s Setting up gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ... 507s Setting up python3-pandas-lib:amd64 (2.1.4+dfsg-4ubuntu2) ... 507s Setting up python3-h5py-serial (3.10.0-1ubuntu1) ... 507s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ... 511s Setting up python3-h5py (3.10.0-1ubuntu1) ... 511s Setting up gcc-13 (13.2.0-17ubuntu2) ... 511s Setting up cpp (4:13.2.0-7ubuntu1) ... 511s Setting up g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ... 511s Setting up gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 511s Setting up python3-mofapy (1.6.1+dfsg-12) ... 511s /usr/lib/python3/dist-packages/mofapy/core/entry_point.py:41: SyntaxWarning: invalid escape sequence '\/' 511s banner = """ 511s /usr/lib/python3/dist-packages/mofapy/core/nongaussian_nodes.py:144: SyntaxWarning: invalid escape sequence '\p' 511s """ 511s /usr/lib/python3/dist-packages/mofapy/core/utils.py:178: SyntaxWarning: invalid escape sequence '\m' 511s """Diagonal of :math:`\mathrm A\mathrm B^\intercal`. 511s Setting up gcc (4:13.2.0-7ubuntu1) ... 511s Setting up g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 511s Setting up g++-13 (13.2.0-17ubuntu2) ... 511s Setting up g++ (4:13.2.0-7ubuntu1) ... 511s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 511s Setting up build-essential (12.10ubuntu1) ... 511s Processing triggers for man-db (2.12.0-3) ... 512s Processing triggers for libc-bin (2.39-0ubuntu2) ... 520s Reading package lists... 520s Building dependency tree... 520s Reading state information... 520s Starting pkgProblemResolver with broken count: 0 520s Starting 2 pkgProblemResolver with broken count: 0 520s Done 521s The following NEW packages will be installed: 521s autopkgtest-satdep 521s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 521s Need to get 0 B/696 B of archives. 521s After this operation, 0 B of additional disk space will be used. 521s Get:1 /tmp/autopkgtest.jVijKD/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [696 B] 521s Selecting previously unselected package autopkgtest-satdep. 521s (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 ... 78901 files and directories currently installed.) 521s Preparing to unpack .../2-autopkgtest-satdep.deb ... 521s Unpacking autopkgtest-satdep (0) ... 521s Setting up autopkgtest-satdep (0) ... 522s autopkgtest: WARNING: package python3-mofapy:i386 is not installed though it should be 523s (Reading database ... 78901 files and directories currently installed.) 523s Removing autopkgtest-satdep (0) ... 523s autopkgtest [03:19:34]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import mofapy; print(mofapy)" ; done 523s autopkgtest [03:19:34]: test autodep8-python3: [----------------------- 523s Testing with python3.12: 523s 524s autopkgtest [03:19:35]: test autodep8-python3: -----------------------] 524s autodep8-python3 PASS (superficial) 524s autopkgtest [03:19:35]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 524s autopkgtest [03:19:35]: @@@@@@@@@@@@@@@@@@@@ summary 524s autodep8-python3 PASS (superficial) 534s Creating nova instance adt-noble-i386-r-bioc-mofa-20240322-031051-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-amd64-server-20240321.img (UUID 6f9effbc-61d8-4d0a-a7e9-883547f42ac1)...