0s autopkgtest [09:18:10]: starting date and time: 2024-11-13 09:18:10+0000 0s autopkgtest [09:18:10]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [09:18:10]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5_m6u2ss/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade picopore --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-12.secgroup --name adt-plucky-amd64-picopore-20241113-091810-juju-7f2275-prod-proposed-migration-environment-20-915f77ae-2a67-4541-8291-cdff45bdd867 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-amd64 -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/ 902s autopkgtest [09:33:12]: testbed dpkg architecture: amd64 902s autopkgtest [09:33:12]: testbed apt version: 2.9.8 902s autopkgtest [09:33:12]: @@@@@@@@@@@@@@@@@@@@ test bed setup 904s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 905s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 905s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 905s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 905s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 905s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 905s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 905s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 905s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 905s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [637 kB] 905s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 905s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 905s Fetched 2173 kB in 1s (1516 kB/s) 905s Reading package lists... 910s Reading package lists... 910s Building dependency tree... 910s Reading state information... 911s Calculating upgrade... 911s The following NEW packages will be installed: 911s python3.13-gdbm 911s The following packages will be upgraded: 911s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 911s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 911s Need to get 253 kB of archives. 911s After this operation, 147 kB of additional disk space will be used. 911s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 911s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 911s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 911s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 911s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 911s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 911s Fetched 253 kB in 0s (542 kB/s) 912s (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 ... 75541 files and directories currently installed.) 912s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 912s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 912s Setting up python3-minimal (3.12.7-1) ... 912s (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 ... 75541 files and directories currently installed.) 912s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 912s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 912s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 912s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 912s Selecting previously unselected package python3.13-gdbm. 912s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 912s Unpacking python3.13-gdbm (3.13.0-2) ... 912s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 912s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 912s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 912s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 912s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 912s Setting up python3.13-gdbm (3.13.0-2) ... 912s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 912s Setting up python3 (3.12.7-1) ... 912s Setting up python3-gdbm:amd64 (3.12.7-1) ... 912s Processing triggers for man-db (2.12.1-3) ... 913s Processing triggers for libc-bin (2.40-1ubuntu3) ... 913s Reading package lists... 913s Building dependency tree... 913s Reading state information... 913s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 914s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 914s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 914s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 914s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 915s Reading package lists... 915s Reading package lists... 915s Building dependency tree... 915s Reading state information... 915s Calculating upgrade... 915s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 915s Reading package lists... 915s Building dependency tree... 915s Reading state information... 915s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 919s autopkgtest [09:33:29]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 920s autopkgtest [09:33:30]: @@@@@@@@@@@@@@@@@@@@ apt-source picopore 924s Get:1 http://ftpmaster.internal/ubuntu plucky/universe picopore 1.2.0-3 (dsc) [2191 B] 924s Get:2 http://ftpmaster.internal/ubuntu plucky/universe picopore 1.2.0-3 (tar) [6276 kB] 924s Get:3 http://ftpmaster.internal/ubuntu plucky/universe picopore 1.2.0-3 (diff) [5332 B] 924s gpgv: Signature made Fri Dec 15 20:40:34 2023 UTC 924s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 924s gpgv: issuer "tille@debian.org" 924s gpgv: Can't check signature: No public key 924s dpkg-source: warning: cannot verify inline signature for ./picopore_1.2.0-3.dsc: no acceptable signature found 924s autopkgtest [09:33:34]: testing package picopore version 1.2.0-3 931s autopkgtest [09:33:41]: build not needed 952s autopkgtest [09:34:02]: test run-unit-test: preparing testbed 958s Reading package lists... 958s Building dependency tree... 958s Reading state information... 958s Starting pkgProblemResolver with broken count: 0 958s Starting 2 pkgProblemResolver with broken count: 0 958s Done 958s The following additional packages will be installed: 958s hdf5-tools libaec0 libblas3 libgfortran5 libhdf5-103-1t64 libhdf5-hl-100t64 958s libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3 liblzf1 958s libpython3.13-minimal libpython3.13-stdlib libsz2 picopore python3-all 958s python3-h5py python3-h5py-serial python3-numpy python3-picopore 958s python3-watchdog python3.13 python3.13-minimal 958s Suggested packages: 958s python-h5py-doc gcc gfortran python-numpy-doc python3-dev python3-pytest 958s python3.13-venv python3.13-doc binfmt-support 958s Recommended packages: 958s javascript-common 958s The following NEW packages will be installed: 958s autopkgtest-satdep hdf5-tools libaec0 libblas3 libgfortran5 libhdf5-103-1t64 958s libhdf5-hl-100t64 libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3 958s liblzf1 libpython3.13-minimal libpython3.13-stdlib libsz2 picopore 958s python3-all python3-h5py python3-h5py-serial python3-numpy python3-picopore 958s python3-watchdog python3.13 python3.13-minimal 958s 0 upgraded, 24 newly installed, 0 to remove and 0 not upgraded. 958s Need to get 17.8 MB/17.8 MB of archives. 958s After this operation, 71.0 MB of additional disk space will be used. 958s Get:1 /tmp/autopkgtest.hETG5G/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [720 B] 958s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 959s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 960s Get:4 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 960s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 960s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4ubuntu3 [1280 kB] 960s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 hdf5-tools amd64 1.10.10+repack-4ubuntu3 [336 kB] 960s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 960s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 960s Get:10 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4ubuntu3 [56.6 kB] 960s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 961s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 961s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 961s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 961s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 961s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 961s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 961s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py-serial amd64 3.11.0-5ubuntu1 [1107 kB] 962s Get:19 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py all 3.11.0-5ubuntu1 [7974 B] 962s Get:20 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-watchdog all 5.0.0-1 [125 kB] 962s Get:21 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-picopore all 1.2.0-3 [15.6 kB] 962s Get:22 http://ftpmaster.internal/ubuntu plucky/universe amd64 picopore all 1.2.0-3 [9878 B] 962s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 962s Get:24 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 962s Fetched 17.8 MB in 3s (5283 kB/s) 962s Selecting previously unselected package libpython3.13-minimal:amd64. 962s (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 ... 75548 files and directories currently installed.) 962s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 962s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 962s Selecting previously unselected package python3.13-minimal. 962s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 962s Unpacking python3.13-minimal (3.13.0-2) ... 962s Selecting previously unselected package libaec0:amd64. 962s Preparing to unpack .../02-libaec0_1.1.3-1_amd64.deb ... 962s Unpacking libaec0:amd64 (1.1.3-1) ... 962s Selecting previously unselected package libsz2:amd64. 962s Preparing to unpack .../03-libsz2_1.1.3-1_amd64.deb ... 962s Unpacking libsz2:amd64 (1.1.3-1) ... 962s Selecting previously unselected package libhdf5-103-1t64:amd64. 962s Preparing to unpack .../04-libhdf5-103-1t64_1.10.10+repack-4ubuntu3_amd64.deb ... 962s Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ... 962s Selecting previously unselected package hdf5-tools. 962s Preparing to unpack .../05-hdf5-tools_1.10.10+repack-4ubuntu3_amd64.deb ... 962s Unpacking hdf5-tools (1.10.10+repack-4ubuntu3) ... 962s Selecting previously unselected package libblas3:amd64. 962s Preparing to unpack .../06-libblas3_3.12.0-3build2_amd64.deb ... 962s Unpacking libblas3:amd64 (3.12.0-3build2) ... 962s Selecting previously unselected package libgfortran5:amd64. 962s Preparing to unpack .../07-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 962s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 962s Selecting previously unselected package libhdf5-hl-100t64:amd64. 962s Preparing to unpack .../08-libhdf5-hl-100t64_1.10.10+repack-4ubuntu3_amd64.deb ... 962s Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ... 962s Selecting previously unselected package libjs-jquery. 962s Preparing to unpack .../09-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 962s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 962s Selecting previously unselected package libjs-underscore. 962s Preparing to unpack .../10-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 962s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 962s Selecting previously unselected package libjs-sphinxdoc. 962s Preparing to unpack .../11-libjs-sphinxdoc_7.4.7-4_all.deb ... 962s Unpacking libjs-sphinxdoc (7.4.7-4) ... 962s Selecting previously unselected package liblapack3:amd64. 962s Preparing to unpack .../12-liblapack3_3.12.0-3build2_amd64.deb ... 962s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 962s Selecting previously unselected package liblzf1:amd64. 962s Preparing to unpack .../13-liblzf1_3.6-4_amd64.deb ... 962s Unpacking liblzf1:amd64 (3.6-4) ... 962s Selecting previously unselected package libpython3.13-stdlib:amd64. 962s Preparing to unpack .../14-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 962s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 962s Selecting previously unselected package python3-numpy. 962s Preparing to unpack .../15-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 962s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 963s Selecting previously unselected package python3-h5py-serial. 963s Preparing to unpack .../16-python3-h5py-serial_3.11.0-5ubuntu1_amd64.deb ... 963s Unpacking python3-h5py-serial (3.11.0-5ubuntu1) ... 963s Selecting previously unselected package python3-h5py. 963s Preparing to unpack .../17-python3-h5py_3.11.0-5ubuntu1_all.deb ... 963s Unpacking python3-h5py (3.11.0-5ubuntu1) ... 963s Selecting previously unselected package python3-watchdog. 963s Preparing to unpack .../18-python3-watchdog_5.0.0-1_all.deb ... 963s Unpacking python3-watchdog (5.0.0-1) ... 963s Selecting previously unselected package python3-picopore. 963s Preparing to unpack .../19-python3-picopore_1.2.0-3_all.deb ... 963s Unpacking python3-picopore (1.2.0-3) ... 963s Selecting previously unselected package picopore. 963s Preparing to unpack .../20-picopore_1.2.0-3_all.deb ... 963s Unpacking picopore (1.2.0-3) ... 963s Selecting previously unselected package python3.13. 963s Preparing to unpack .../21-python3.13_3.13.0-2_amd64.deb ... 963s Unpacking python3.13 (3.13.0-2) ... 963s Selecting previously unselected package python3-all. 963s Preparing to unpack .../22-python3-all_3.12.7-1_amd64.deb ... 963s Unpacking python3-all (3.12.7-1) ... 963s Selecting previously unselected package autopkgtest-satdep. 963s Preparing to unpack .../23-1-autopkgtest-satdep.deb ... 963s Unpacking autopkgtest-satdep (0) ... 963s Setting up libaec0:amd64 (1.1.3-1) ... 963s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 963s Setting up libblas3:amd64 (3.12.0-3build2) ... 963s 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 963s Setting up liblzf1:amd64 (3.6-4) ... 963s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 963s Setting up python3.13-minimal (3.13.0-2) ... 964s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 964s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 964s Setting up libsz2:amd64 (1.1.3-1) ... 964s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 964s Setting up liblapack3:amd64 (3.12.0-3build2) ... 964s 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 964s Setting up python3.13 (3.13.0-2) ... 965s Setting up python3-all (3.12.7-1) ... 965s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 967s Setting up libjs-sphinxdoc (7.4.7-4) ... 967s Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ... 967s Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ... 967s Setting up python3-watchdog (5.0.0-1) ... 968s Setting up python3-h5py-serial (3.11.0-5ubuntu1) ... 968s Setting up hdf5-tools (1.10.10+repack-4ubuntu3) ... 968s Setting up python3-h5py (3.11.0-5ubuntu1) ... 968s Setting up python3-picopore (1.2.0-3) ... 968s Setting up picopore (1.2.0-3) ... 968s Setting up autopkgtest-satdep (0) ... 968s Processing triggers for systemd (256.5-2ubuntu4) ... 968s Processing triggers for man-db (2.12.1-3) ... 969s Processing triggers for libc-bin (2.40-1ubuntu3) ... 972s (Reading database ... 77543 files and directories currently installed.) 972s Removing autopkgtest-satdep (0) ... 972s autopkgtest [09:34:22]: test run-unit-test: [----------------------- 973s Performing lossless compression on 1 files... 973s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.albacore_1d_original.fast5 973s .Complete. 973s Original size: 673522 973s Compressed size: 673522 973s Performing lossless decompression on 1 files... 973s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.albacore_1d_original.fast5 973s .Complete. 973s Compressed size: 673522 973s Reverted size: 1347044 973s Checking equivalence of /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/albacore_1d_original.fast5 (file 1) and /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.albacore_1d_original.fast5 (file 2)... 973s Complete with 0 errors. 973s Performing lossless compression on 1 files... 973s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.albacore_1d_original.fast5 973s .Complete. 973s Original size: 673522 973s Compressed size: 673522 973s Performing deep lossless compression on 1 files... 973s .Complete. 973s Original size: 673522 973s Compressed size: 629000 973s Performing deep lossless decompression on 1 files... 973s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.albacore_1d_original.fast5 973s .Complete. 973s Compressed size: 629000 973s Reverted size: 1276128 973s Checking equivalence of /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/albacore_1d_original.fast5 (file 1) and /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.albacore_1d_original.fast5 (file 2)... 973s Complete with 0 errors. 974s Performing deep lossless compression on 1 files... 974s .Complete. 974s Original size: 673522 974s Compressed size: 629000 974s Performing raw compression with FASTQ and summary on 1 files... 974s .Complete. 974s Original size: 673522 974s Compressed size: 119182 974s Performing raw compression with summary and no FASTQ on 1 files... 974s .Complete. 974s Original size: 673522 974s Compressed size: 103635 974s Performing raw compression with FASTQ and no summary on 1 files... 974s .Complete. 974s Original size: 673522 974s Compressed size: 116766 975s Performing raw compression with no summary and no FASTQ on 1 files... 975s .Complete. 975s Original size: 673522 975s Compressed size: 98915 975s Performing raw compression with manual keyword Analyses on 1 files... 975s .Complete. 975s Original size: 673522 975s Compressed size: 98915 975s Performing lossless compression on 1 files... 975s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 975s .Complete. 975s Original size: 2003942 975s Compressed size: 2003942 975s Performing lossless decompression on 1 files... 975s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 975s .Complete. 975s Compressed size: 2003942 975s Reverted size: 4007884 975s Checking equivalence of /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/metrichor_2d_original.fast5 (file 1) and /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 (file 2)... 975s Complete with 0 errors. 975s Performing lossless compression on 1 files... 975s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 975s .Complete. 975s Original size: 2003942 975s Compressed size: 2003942 976s Performing deep lossless compression on 1 files... 976s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 976s .Complete. 976s Original size: 2003942 976s Compressed size: 2003942 976s Performing deep lossless decompression on 1 files... 976s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 976s .Complete. 976s Compressed size: 2003942 976s Reverted size: 4007884 976s Checking equivalence of /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/metrichor_2d_original.fast5 (file 1) and /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 (file 2)... 976s Complete with 0 errors. 976s Performing deep lossless compression on 1 files... 976s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/sample_data/picopore.test.metrichor_2d_original.fast5 976s .Complete. 976s Original size: 2003942 976s Compressed size: 2003942 976s Performing raw compression with FASTQ and summary on 1 files... 976s .Complete. 976s Original size: 2003942 976s Compressed size: 270517 976s Performing raw compression with summary and no FASTQ on 1 files... 976s .Complete. 976s Original size: 2003942 976s Compressed size: 232978 977s Performing raw compression with FASTQ and no summary on 1 files... 977s .Complete. 977s Original size: 2003942 977s Compressed size: 261197 977s Performing raw compression with no summary and no FASTQ on 1 files... 977s .Complete. 977s Original size: 2003942 977s Compressed size: 219602 977s Performing raw compression with manual keyword Analyses on 1 files... 977s .Complete. 977s Original size: 2003942 977s Compressed size: 219602 977s Performing real time lossless compression... 977s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 977s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 987s ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/albacore_1d_original.fast5 997s .ERROR: Unable to open file (truncated file: eof = 1236992, sblock->base_addr = 0, stored_eof = 2003942) on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1007s . 1007s Exiting Picopore. 1007s Processing in-progress files. Press Ctrl-C again to abort. 1007s Complete. 1007s Original size: 1394418 1007s Compressed size: 2677464 1008s Performing real time deep lossless compression... 1008s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 1008s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 1028s .ERROR: 'Dataset' object has no attribute 'value' on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1038s . 1038s Exiting Picopore. 1038s Processing in-progress files. Press Ctrl-C again to abort. 1038s Complete. 1038s Original size: 2209522 1038s Compressed size: 2632942 1038s Performing real time raw compression with FASTQ and summary... 1038s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 1038s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 1058s .ERROR: Unable to open file (truncated file: eof = 700416, sblock->base_addr = 0, stored_eof = 2003942) on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1068s . 1068s Exiting Picopore. 1068s Processing in-progress files. Press Ctrl-C again to abort. 1068s Complete. 1068s Original size: 956146 1068s Compressed size: 1548686 1068s Performing real time raw compression with summary and no FASTQ... 1068s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 1068s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 1088s .ERROR: Unable to open file (truncated file: eof = 1331200, sblock->base_addr = 0, stored_eof = 2003942) on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1098s . 1098s Exiting Picopore. 1098s Processing in-progress files. Press Ctrl-C again to abort. 1098s Complete. 1098s Original size: 1214194 1098s Compressed size: 2107577 1099s Performing real time raw compression with FASTQ and no summary... 1099s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 1099s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 1118s .ERROR: Unable to open file (truncated file: eof = 1146880, sblock->base_addr = 0, stored_eof = 2003942) on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1129s . 1129s Exiting Picopore. 1129s Processing in-progress files. Press Ctrl-C again to abort. 1129s Complete. 1129s Original size: 1173234 1129s Compressed size: 2017310 1129s Performing real time raw compression with no summary and no FASTQ... 1129s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 1129s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 1149s .ERROR: Unable to open file (truncated file: eof = 991232, sblock->base_addr = 0, stored_eof = 2003942) on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1159s . 1159s Exiting Picopore. 1159s Processing in-progress files. Press Ctrl-C again to abort. 1159s Complete. 1159s Original size: 1124082 1159s Compressed size: 1913443 1159s Performing real time raw compression with manual keyword Analyses... 1159s Monitoring /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime in real time. Press Ctrl+C to exit. 1159s No files found under /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime 1179s .ERROR: Unable to open file (truncated file: eof = 684032, sblock->base_addr = 0, stored_eof = 2003942) on file /tmp/autopkgtest.hETG5G/autopkgtest_tmp/realtime/metrichor_2d_original.fast5 1189s . 1189s Exiting Picopore. 1189s Processing in-progress files. Press Ctrl-C again to abort. 1189s Complete. 1189s Original size: 939762 1189s Compressed size: 1409635 1189s python3 -m picopore -y --print-every 1 --test --mode lossless sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode lossless sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --test --mode deep-lossless sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode deep-lossless sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --fastq --summary sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --summary --no-fastq sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --fastq --no-summary sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --no-fastq --no-summary sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --manual Analyses sample_data/albacore_1d_original.fast5 1189s python3 -m picopore -y --print-every 1 --test --mode lossless sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode lossless sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --test --mode deep-lossless sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode deep-lossless sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --fastq --summary sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --summary --no-fastq sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --fastq --no-summary sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --no-fastq --no-summary sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --print-every 1 --prefix picopore.test --mode raw --manual Analyses sample_data/metrichor_2d_original.fast5 1189s python3 -m picopore -y --realtime --print-every 1 --mode lossless realtime 1189s python3 -m picopore -y --realtime --print-every 1 --mode deep-lossless realtime 1189s python3 -m picopore -y --realtime --print-every 1 --fastq --summary --mode raw realtime 1189s python3 -m picopore -y --realtime --print-every 1 --summary --no-fastq --mode raw realtime 1189s python3 -m picopore -y --realtime --print-every 1 --fastq --no-summary --mode raw realtime 1189s python3 -m picopore -y --realtime --print-every 1 --no-fastq --no-summary --mode raw realtime 1189s python3 -m picopore -y --realtime --print-every 1 --manual Analyses --mode raw realtime 1189s PASS 1190s autopkgtest [09:38:00]: test run-unit-test: -----------------------] 1190s autopkgtest [09:38:00]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 1190s run-unit-test PASS 1191s autopkgtest [09:38:01]: test autodep8-python3: preparing testbed 2633s autopkgtest [10:02:03]: testbed dpkg architecture: amd64 2633s autopkgtest [10:02:03]: testbed apt version: 2.9.8 2633s autopkgtest [10:02:03]: @@@@@@@@@@@@@@@@@@@@ test bed setup 2634s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 2634s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 2635s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 2635s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 2635s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 2635s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 2635s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 2635s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 2635s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 2635s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [639 kB] 2635s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 2635s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 2635s Fetched 2175 kB in 1s (2691 kB/s) 2635s Reading package lists... 2637s Reading package lists... 2637s Building dependency tree... 2637s Reading state information... 2638s Calculating upgrade... 2638s The following NEW packages will be installed: 2638s python3.13-gdbm 2638s The following packages will be upgraded: 2638s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 2638s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 2638s Need to get 253 kB of archives. 2638s After this operation, 147 kB of additional disk space will be used. 2638s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 2638s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 2638s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 2638s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 2638s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 2638s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 2638s Fetched 253 kB in 0s (593 kB/s) 2639s (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 ... 75541 files and directories currently installed.) 2639s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 2639s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 2639s Setting up python3-minimal (3.12.7-1) ... 2639s (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 ... 75541 files and directories currently installed.) 2639s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 2639s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 2639s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 2639s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 2639s Selecting previously unselected package python3.13-gdbm. 2639s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 2639s Unpacking python3.13-gdbm (3.13.0-2) ... 2639s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 2639s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 2639s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 2639s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 2639s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 2639s Setting up python3.13-gdbm (3.13.0-2) ... 2639s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 2639s Setting up python3 (3.12.7-1) ... 2639s Setting up python3-gdbm:amd64 (3.12.7-1) ... 2639s Processing triggers for man-db (2.12.1-3) ... 2640s Processing triggers for libc-bin (2.40-1ubuntu3) ... 2640s Reading package lists... 2640s Building dependency tree... 2640s Reading state information... 2640s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2641s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 2641s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 2641s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 2641s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 2642s Reading package lists... 2642s Reading package lists... 2642s Building dependency tree... 2642s Reading state information... 2642s Calculating upgrade... 2642s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2642s Reading package lists... 2642s Building dependency tree... 2642s Reading state information... 2642s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2649s Reading package lists... 2649s Building dependency tree... 2649s Reading state information... 2649s Starting pkgProblemResolver with broken count: 0 2649s Starting 2 pkgProblemResolver with broken count: 0 2649s Done 2649s The following additional packages will be installed: 2649s hdf5-tools libaec0 libblas3 libgfortran5 libhdf5-103-1t64 libhdf5-hl-100t64 2649s libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3 liblzf1 2649s libpython3.13-minimal libpython3.13-stdlib libsz2 python3-all python3-h5py 2649s python3-h5py-serial python3-numpy python3-picopore python3-watchdog 2649s python3.13 python3.13-minimal 2649s Suggested packages: 2649s python-h5py-doc gcc gfortran python-numpy-doc python3-dev python3-pytest 2649s python3.13-venv python3.13-doc binfmt-support 2649s Recommended packages: 2649s javascript-common 2649s The following NEW packages will be installed: 2649s autopkgtest-satdep hdf5-tools libaec0 libblas3 libgfortran5 libhdf5-103-1t64 2649s libhdf5-hl-100t64 libjs-jquery libjs-sphinxdoc libjs-underscore liblapack3 2649s liblzf1 libpython3.13-minimal libpython3.13-stdlib libsz2 python3-all 2649s python3-h5py python3-h5py-serial python3-numpy python3-picopore 2649s python3-watchdog python3.13 python3.13-minimal 2649s 0 upgraded, 23 newly installed, 0 to remove and 0 not upgraded. 2649s Need to get 17.8 MB/17.8 MB of archives. 2649s After this operation, 71.0 MB of additional disk space will be used. 2649s Get:1 /tmp/autopkgtest.hETG5G/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [716 B] 2650s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 2650s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 2651s Get:4 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 2651s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 2651s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4ubuntu3 [1280 kB] 2651s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 hdf5-tools amd64 1.10.10+repack-4ubuntu3 [336 kB] 2651s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 2651s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 2651s Get:10 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4ubuntu3 [56.6 kB] 2651s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 2651s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 2651s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 2651s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 2651s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 2651s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 2652s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 2652s Get:18 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 2652s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 2652s Get:20 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py-serial amd64 3.11.0-5ubuntu1 [1107 kB] 2652s Get:21 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py all 3.11.0-5ubuntu1 [7974 B] 2652s Get:22 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-watchdog all 5.0.0-1 [125 kB] 2652s Get:23 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-picopore all 1.2.0-3 [15.6 kB] 2652s Fetched 17.8 MB in 3s (6661 kB/s) 2652s Selecting previously unselected package libpython3.13-minimal:amd64. 2652s (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 ... 75548 files and directories currently installed.) 2652s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 2652s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 2652s Selecting previously unselected package python3.13-minimal. 2652s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 2652s Unpacking python3.13-minimal (3.13.0-2) ... 2652s Selecting previously unselected package libaec0:amd64. 2652s Preparing to unpack .../02-libaec0_1.1.3-1_amd64.deb ... 2652s Unpacking libaec0:amd64 (1.1.3-1) ... 2652s Selecting previously unselected package libsz2:amd64. 2652s Preparing to unpack .../03-libsz2_1.1.3-1_amd64.deb ... 2652s Unpacking libsz2:amd64 (1.1.3-1) ... 2653s Selecting previously unselected package libhdf5-103-1t64:amd64. 2653s Preparing to unpack .../04-libhdf5-103-1t64_1.10.10+repack-4ubuntu3_amd64.deb ... 2653s Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ... 2653s Selecting previously unselected package hdf5-tools. 2653s Preparing to unpack .../05-hdf5-tools_1.10.10+repack-4ubuntu3_amd64.deb ... 2653s Unpacking hdf5-tools (1.10.10+repack-4ubuntu3) ... 2653s Selecting previously unselected package libblas3:amd64. 2653s Preparing to unpack .../06-libblas3_3.12.0-3build2_amd64.deb ... 2653s Unpacking libblas3:amd64 (3.12.0-3build2) ... 2653s Selecting previously unselected package libgfortran5:amd64. 2653s Preparing to unpack .../07-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 2653s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 2653s Selecting previously unselected package libhdf5-hl-100t64:amd64. 2653s Preparing to unpack .../08-libhdf5-hl-100t64_1.10.10+repack-4ubuntu3_amd64.deb ... 2653s Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ... 2653s Selecting previously unselected package libjs-jquery. 2653s Preparing to unpack .../09-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 2653s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 2653s Selecting previously unselected package libjs-underscore. 2653s Preparing to unpack .../10-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 2653s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 2653s Selecting previously unselected package libjs-sphinxdoc. 2653s Preparing to unpack .../11-libjs-sphinxdoc_7.4.7-4_all.deb ... 2653s Unpacking libjs-sphinxdoc (7.4.7-4) ... 2653s Selecting previously unselected package liblapack3:amd64. 2653s Preparing to unpack .../12-liblapack3_3.12.0-3build2_amd64.deb ... 2653s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 2653s Selecting previously unselected package liblzf1:amd64. 2653s Preparing to unpack .../13-liblzf1_3.6-4_amd64.deb ... 2653s Unpacking liblzf1:amd64 (3.6-4) ... 2653s Selecting previously unselected package libpython3.13-stdlib:amd64. 2653s Preparing to unpack .../14-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 2653s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 2653s Selecting previously unselected package python3.13. 2653s Preparing to unpack .../15-python3.13_3.13.0-2_amd64.deb ... 2653s Unpacking python3.13 (3.13.0-2) ... 2653s Selecting previously unselected package python3-all. 2653s Preparing to unpack .../16-python3-all_3.12.7-1_amd64.deb ... 2653s Unpacking python3-all (3.12.7-1) ... 2653s Selecting previously unselected package python3-numpy. 2653s Preparing to unpack .../17-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 2653s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 2653s Selecting previously unselected package python3-h5py-serial. 2653s Preparing to unpack .../18-python3-h5py-serial_3.11.0-5ubuntu1_amd64.deb ... 2653s Unpacking python3-h5py-serial (3.11.0-5ubuntu1) ... 2653s Selecting previously unselected package python3-h5py. 2653s Preparing to unpack .../19-python3-h5py_3.11.0-5ubuntu1_all.deb ... 2653s Unpacking python3-h5py (3.11.0-5ubuntu1) ... 2653s Selecting previously unselected package python3-watchdog. 2653s Preparing to unpack .../20-python3-watchdog_5.0.0-1_all.deb ... 2653s Unpacking python3-watchdog (5.0.0-1) ... 2653s Selecting previously unselected package python3-picopore. 2653s Preparing to unpack .../21-python3-picopore_1.2.0-3_all.deb ... 2653s Unpacking python3-picopore (1.2.0-3) ... 2653s Selecting previously unselected package autopkgtest-satdep. 2653s Preparing to unpack .../22-2-autopkgtest-satdep.deb ... 2653s Unpacking autopkgtest-satdep (0) ... 2653s Setting up libaec0:amd64 (1.1.3-1) ... 2653s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 2653s Setting up libblas3:amd64 (3.12.0-3build2) ... 2653s 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 2653s Setting up liblzf1:amd64 (3.6-4) ... 2653s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 2653s Setting up python3.13-minimal (3.13.0-2) ... 2654s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 2654s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 2654s Setting up libsz2:amd64 (1.1.3-1) ... 2654s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 2654s Setting up liblapack3:amd64 (3.12.0-3build2) ... 2654s 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 2654s Setting up python3.13 (3.13.0-2) ... 2655s Setting up python3-all (3.12.7-1) ... 2655s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 2658s Setting up libjs-sphinxdoc (7.4.7-4) ... 2658s Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ... 2658s Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ... 2658s Setting up python3-watchdog (5.0.0-1) ... 2658s Setting up python3-h5py-serial (3.11.0-5ubuntu1) ... 2658s Setting up hdf5-tools (1.10.10+repack-4ubuntu3) ... 2658s Setting up python3-h5py (3.11.0-5ubuntu1) ... 2658s Setting up python3-picopore (1.2.0-3) ... 2658s Setting up autopkgtest-satdep (0) ... 2658s Processing triggers for systemd (256.5-2ubuntu4) ... 2658s Processing triggers for man-db (2.12.1-3) ... 2659s Processing triggers for libc-bin (2.40-1ubuntu3) ... 2661s (Reading database ... 77531 files and directories currently installed.) 2661s Removing autopkgtest-satdep (0) ... 2663s autopkgtest [10:02:33]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import picopore; print(picopore)" ; done 2663s autopkgtest [10:02:33]: test autodep8-python3: [----------------------- 2664s Testing with python3.13: 2664s Traceback (most recent call last): 2664s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 24, in 2664s from . import multiarray 2664s File "/usr/lib/python3/dist-packages/numpy/core/multiarray.py", line 10, in 2664s from . import overrides 2664s File "/usr/lib/python3/dist-packages/numpy/core/overrides.py", line 8, in 2664s from numpy.core._multiarray_umath import ( 2664s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 2664s ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 2664s 2664s During handling of the above exception, another exception occurred: 2664s 2664s Traceback (most recent call last): 2664s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 130, in 2664s from numpy.__config__ import show as show_config 2664s File "/usr/lib/python3/dist-packages/numpy/__config__.py", line 4, in 2664s from numpy.core._multiarray_umath import ( 2664s ...<3 lines>... 2664s ) 2664s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 50, in 2664s raise ImportError(msg) 2664s ImportError: 2664s 2664s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 2664s 2664s Importing the numpy C-extensions failed. This error can happen for 2664s many reasons, often due to issues with your setup or how NumPy was 2664s installed. 2664s 2664s We have compiled some common reasons and troubleshooting tips at: 2664s 2664s https://numpy.org/devdocs/user/troubleshooting-importerror.html 2664s 2664s Please note and check the following: 2664s 2664s * The Python version is: Python3.13 from "/usr/bin/python3.13" 2664s * The NumPy version is: "1.26.4" 2664s 2664s and make sure that they are the versions you expect. 2664s Please carefully study the documentation linked above for further help. 2664s 2664s Original error was: No module named 'numpy.core._multiarray_umath' 2664s 2664s 2664s The above exception was the direct cause of the following exception: 2664s 2664s Traceback (most recent call last): 2664s File "", line 1, in 2664s import picopore; print(picopore) 2664s ^^^^^^^^^^^^^^^ 2664s File "/usr/lib/python3/dist-packages/picopore/__init__.py", line 2, in 2664s from picopore.util import log 2664s File "/usr/lib/python3/dist-packages/picopore/util.py", line 19, in 2664s import numpy as np 2664s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 135, in 2664s raise ImportError(msg) from e 2664s ImportError: Error importing numpy: you should not try to import numpy from 2664s its source directory; please exit the numpy source tree, and relaunch 2664s your python interpreter from there. 2664s autopkgtest [10:02:34]: test autodep8-python3: -----------------------] 2665s autopkgtest [10:02:35]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 2665s autodep8-python3 FAIL non-zero exit status 1 2665s autopkgtest [10:02:35]: @@@@@@@@@@@@@@@@@@@@ summary 2665s run-unit-test PASS 2665s autodep8-python3 FAIL non-zero exit status 1 2876s nova [W] Skipping flock for amd64 2876s Creating nova instance adt-plucky-amd64-picopore-20241113-091810-juju-7f2275-prod-proposed-migration-environment-20-915f77ae-2a67-4541-8291-cdff45bdd867 from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)... 2876s nova [W] nova quota exceeded (attempt #0) 2876s nova [W] Skipping flock for amd64 2876s Creating nova instance adt-plucky-amd64-picopore-20241113-091810-juju-7f2275-prod-proposed-migration-environment-20-915f77ae-2a67-4541-8291-cdff45bdd867 from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)...