0s autopkgtest [14:56:18]: starting date and time: 2025-03-15 14:56:18+0000 0s autopkgtest [14:56:18]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [14:56:18]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.25c7jd26/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:glibc --apt-upgrade ont-fast5-api --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.202 lxd-armhf-10.145.243.202:autopkgtest/ubuntu/plucky/armhf 24s autopkgtest [14:56:42]: testbed dpkg architecture: armhf 26s autopkgtest [14:56:44]: testbed apt version: 2.9.33 30s autopkgtest [14:56:48]: @@@@@@@@@@@@@@@@@@@@ test bed setup 32s autopkgtest [14:56:50]: testbed release detected to be: None 40s autopkgtest [14:56:57]: updating testbed package index (apt update) 41s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 42s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 42s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 42s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 43s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [404 kB] 43s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [101 kB] 43s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 43s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [81.0 kB] 44s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1944 B] 44s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 44s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [326 kB] 46s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [12.1 kB] 46s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 46s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [332 B] 46s Get:15 http://ftpmaster.internal/ubuntu plucky/main Sources [1400 kB] 46s Get:16 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 73s Get:17 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 74s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 76s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 76s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 76s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 95s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 97s Fetched 41.0 MB in 56s (738 kB/s) 99s Reading package lists... 105s autopkgtest [14:58:03]: upgrading testbed (apt dist-upgrade and autopurge) 106s Reading package lists... 107s Building dependency tree... 107s Reading state information... 108s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 109s Starting 2 pkgProblemResolver with broken count: 0 109s Done 110s Entering ResolveByKeep 111s 111s Calculating upgrade... 113s The following packages will be upgraded: 113s libc-bin libc6 locales python3-jinja2 sos strace 113s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s Need to get 8642 kB of archives. 113s After this operation, 23.6 kB of additional disk space will be used. 113s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 121s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 123s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 136s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 137s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 138s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 139s Preconfiguring packages ... 139s Fetched 8642 kB in 26s (337 kB/s) 140s (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 ... 64655 files and directories currently installed.) 140s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 140s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 140s Setting up libc6:armhf (2.41-1ubuntu2) ... 141s (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 ... 64655 files and directories currently installed.) 141s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 141s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 141s Setting up libc-bin (2.41-1ubuntu2) ... 141s (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 ... 64655 files and directories currently installed.) 141s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 141s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 142s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 142s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 142s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 142s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 142s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 142s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 143s Setting up sos (4.9.0-5) ... 144s Setting up locales (2.41-1ubuntu2) ... 145s Generating locales (this might take a while)... 150s en_US.UTF-8... done 150s Generation complete. 150s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 150s Setting up strace (6.13+ds-1ubuntu1) ... 150s Processing triggers for man-db (2.13.0-1) ... 152s Processing triggers for systemd (257.3-1ubuntu3) ... 155s Reading package lists... 155s Building dependency tree... 155s Reading state information... 156s Starting pkgProblemResolver with broken count: 0 156s Starting 2 pkgProblemResolver with broken count: 0 156s Done 157s Solving dependencies... 159s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 160s autopkgtest [14:58:58]: rebooting testbed after setup commands that affected boot 201s autopkgtest [14:59:39]: testbed running kernel: Linux 6.8.0-52-generic #53~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jan 15 18:10:51 UTC 2 225s autopkgtest [15:00:03]: @@@@@@@@@@@@@@@@@@@@ apt-source ont-fast5-api 238s Get:1 http://ftpmaster.internal/ubuntu plucky/universe ont-fast5-api 4.1.3+dfsg-1build1 (dsc) [2245 B] 238s Get:2 http://ftpmaster.internal/ubuntu plucky/universe ont-fast5-api 4.1.3+dfsg-1build1 (tar) [1387 kB] 238s Get:3 http://ftpmaster.internal/ubuntu plucky/universe ont-fast5-api 4.1.3+dfsg-1build1 (diff) [4724 B] 238s gpgv: Signature made Tue Mar 4 15:09:26 2025 UTC 238s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 238s gpgv: Can't check signature: No public key 238s dpkg-source: warning: cannot verify inline signature for ./ont-fast5-api_4.1.3+dfsg-1build1.dsc: no acceptable signature found 238s autopkgtest [15:00:16]: testing package ont-fast5-api version 4.1.3+dfsg-1build1 240s autopkgtest [15:00:18]: build not needed 243s autopkgtest [15:00:21]: test run-unit-test: preparing testbed 245s Reading package lists... 245s Building dependency tree... 245s Reading state information... 246s Starting pkgProblemResolver with broken count: 0 246s Starting 2 pkgProblemResolver with broken count: 0 246s Done 247s The following NEW packages will be installed: 247s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 liblapack3 liblzf1 247s libsz2 libvbz-hdf-plugin-dev libvbz-hdf-plugin0t64 ont-fast5-api python3-all 247s python3-h5py python3-h5py-serial python3-numpy python3-numpy-dev 247s python3-progressbar 247s 0 upgraded, 17 newly installed, 0 to remove and 0 not upgraded. 247s Need to get 9133 kB of archives. 247s After this operation, 32.5 MB of additional disk space will be used. 247s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy-dev armhf 1:2.2.3+ds-5 [141 kB] 248s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 248s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 248s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 251s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:2.2.3+ds-5 [3725 kB] 256s Get:6 http://ftpmaster.internal/ubuntu plucky/universe armhf libaec0 armhf 1.1.3-1 [20.8 kB] 256s Get:7 http://ftpmaster.internal/ubuntu plucky/universe armhf libsz2 armhf 1.1.3-1 [5302 B] 256s Get:8 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-310 armhf 1.14.5+repack-3 [1410 kB] 258s Get:9 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-hl-310 armhf 1.14.5+repack-3 [58.8 kB] 258s Get:10 http://ftpmaster.internal/ubuntu plucky/universe armhf liblzf1 armhf 3.6-4 [6554 B] 258s Get:11 http://ftpmaster.internal/ubuntu plucky/universe armhf libvbz-hdf-plugin0t64 armhf 1.0.2-3.1build1 [17.4 kB] 258s Get:12 http://ftpmaster.internal/ubuntu plucky/universe armhf libvbz-hdf-plugin-dev armhf 1.0.2-3.1build1 [14.4 kB] 258s Get:13 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py-serial armhf 3.13.0-1 [1113 kB] 259s Get:14 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py all 3.13.0-1 [7978 B] 259s Get:15 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-progressbar all 2.5-4 [11.0 kB] 260s Get:16 http://ftpmaster.internal/ubuntu plucky/universe armhf ont-fast5-api armhf 4.1.3+dfsg-1build1 [46.8 kB] 260s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all armhf 3.13.2-2 [886 B] 260s Fetched 9133 kB in 12s (733 kB/s) 260s Selecting previously unselected package python3-numpy-dev:armhf. 260s (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 ... 64655 files and directories currently installed.) 260s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.3+ds-5_armhf.deb ... 260s Unpacking python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 260s Selecting previously unselected package libblas3:armhf. 261s Preparing to unpack .../01-libblas3_3.12.1-2_armhf.deb ... 261s Unpacking libblas3:armhf (3.12.1-2) ... 261s Selecting previously unselected package libgfortran5:armhf. 261s Preparing to unpack .../02-libgfortran5_15-20250222-0ubuntu1_armhf.deb ... 261s Unpacking libgfortran5:armhf (15-20250222-0ubuntu1) ... 261s Selecting previously unselected package liblapack3:armhf. 261s Preparing to unpack .../03-liblapack3_3.12.1-2_armhf.deb ... 261s Unpacking liblapack3:armhf (3.12.1-2) ... 261s Selecting previously unselected package python3-numpy. 261s Preparing to unpack .../04-python3-numpy_1%3a2.2.3+ds-5_armhf.deb ... 261s Unpacking python3-numpy (1:2.2.3+ds-5) ... 261s Selecting previously unselected package libaec0:armhf. 261s Preparing to unpack .../05-libaec0_1.1.3-1_armhf.deb ... 261s Unpacking libaec0:armhf (1.1.3-1) ... 261s Selecting previously unselected package libsz2:armhf. 261s Preparing to unpack .../06-libsz2_1.1.3-1_armhf.deb ... 261s Unpacking libsz2:armhf (1.1.3-1) ... 261s Selecting previously unselected package libhdf5-310:armhf. 261s Preparing to unpack .../07-libhdf5-310_1.14.5+repack-3_armhf.deb ... 261s Unpacking libhdf5-310:armhf (1.14.5+repack-3) ... 261s Selecting previously unselected package libhdf5-hl-310:armhf. 261s Preparing to unpack .../08-libhdf5-hl-310_1.14.5+repack-3_armhf.deb ... 261s Unpacking libhdf5-hl-310:armhf (1.14.5+repack-3) ... 261s Selecting previously unselected package liblzf1:armhf. 261s Preparing to unpack .../09-liblzf1_3.6-4_armhf.deb ... 261s Unpacking liblzf1:armhf (3.6-4) ... 262s Selecting previously unselected package libvbz-hdf-plugin0t64:armhf. 262s Preparing to unpack .../10-libvbz-hdf-plugin0t64_1.0.2-3.1build1_armhf.deb ... 262s Unpacking libvbz-hdf-plugin0t64:armhf (1.0.2-3.1build1) ... 262s Selecting previously unselected package libvbz-hdf-plugin-dev:armhf. 262s Preparing to unpack .../11-libvbz-hdf-plugin-dev_1.0.2-3.1build1_armhf.deb ... 262s Unpacking libvbz-hdf-plugin-dev:armhf (1.0.2-3.1build1) ... 262s Selecting previously unselected package python3-h5py-serial. 262s Preparing to unpack .../12-python3-h5py-serial_3.13.0-1_armhf.deb ... 262s Unpacking python3-h5py-serial (3.13.0-1) ... 262s Selecting previously unselected package python3-h5py. 262s Preparing to unpack .../13-python3-h5py_3.13.0-1_all.deb ... 262s Unpacking python3-h5py (3.13.0-1) ... 262s Selecting previously unselected package python3-progressbar. 262s Preparing to unpack .../14-python3-progressbar_2.5-4_all.deb ... 262s Unpacking python3-progressbar (2.5-4) ... 262s Selecting previously unselected package ont-fast5-api. 262s Preparing to unpack .../15-ont-fast5-api_4.1.3+dfsg-1build1_armhf.deb ... 262s Unpacking ont-fast5-api (4.1.3+dfsg-1build1) ... 262s Selecting previously unselected package python3-all. 262s Preparing to unpack .../16-python3-all_3.13.2-2_armhf.deb ... 262s Unpacking python3-all (3.13.2-2) ... 262s Setting up python3-all (3.13.2-2) ... 262s Setting up libaec0:armhf (1.1.3-1) ... 262s Setting up libvbz-hdf-plugin0t64:armhf (1.0.2-3.1build1) ... 262s Setting up python3-progressbar (2.5-4) ... 262s Setting up libblas3:armhf (3.12.1-2) ... 262s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 262s Setting up liblzf1:armhf (3.6-4) ... 262s Setting up python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 262s Setting up libgfortran5:armhf (15-20250222-0ubuntu1) ... 262s Setting up libsz2:armhf (1.1.3-1) ... 262s Setting up liblapack3:armhf (3.12.1-2) ... 262s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 262s Setting up libvbz-hdf-plugin-dev:armhf (1.0.2-3.1build1) ... 262s Setting up python3-numpy (1:2.2.3+ds-5) ... 266s Setting up libhdf5-310:armhf (1.14.5+repack-3) ... 266s Setting up libhdf5-hl-310:armhf (1.14.5+repack-3) ... 266s Setting up python3-h5py-serial (3.13.0-1) ... 266s Setting up python3-h5py (3.13.0-1) ... 266s Setting up ont-fast5-api (4.1.3+dfsg-1build1) ... 267s Processing triggers for man-db (2.13.0-1) ... 267s Processing triggers for libc-bin (2.41-1ubuntu2) ... 275s autopkgtest [15:00:53]: test run-unit-test: [----------------------- 278s test_001_put_and_retrieve (test.test_alignment_tools.TestAlignmentTools.test_001_put_and_retrieve) ... ok 278s test_001_put_and_retrieve (test.test_basecall_1d_tools.TestBasecall1DTools.test_001_put_and_retrieve) ... ok 278s test_001_put_and_retrieve (test.test_basecall_2d_tools.TestBasecall2DTools.test_001_put_and_retrieve) ... ok 278s test_check_multi_read (test.test_check_compression.TestCheckCompression.test_check_multi_read) ... ok 278s test_check_read_compression_multi_read (test.test_check_compression.TestCheckCompression.test_check_read_compression_multi_read) ... ok 278s test_check_read_compression_single_read (test.test_check_compression.TestCheckCompression.test_check_read_compression_single_read) ... ok 278s test_check_read_compression_vbz (test.test_check_compression.TestCheckCompression.test_check_read_compression_vbz) ... ok 278s test_check_single_read_folder (test.test_check_compression.TestCheckCompression.test_check_single_read_folder) ... ok 278s test_multi_to_multi (test.test_compress_fast5.TestSanitise.test_multi_to_multi) ... ok 278s test_single_to_multi (test.test_compress_fast5.TestSanitise.test_single_to_multi) ... ok 278s test_add_read_from_multi (test.test_compress_fast5.TestVbzConvert.test_add_read_from_multi) ... ok 278s test_compress_in_place (test.test_compress_fast5.TestVbzConvert.test_compress_in_place) ... skipped 'Permission Denied - to open folder' 278s test_compress_read_from_single (test.test_compress_fast5.TestVbzConvert.test_compress_read_from_single) ... ok 278s test_conversion_script_multi (test.test_compress_fast5.TestVbzConvert.test_conversion_script_multi) ... skipped 'Permission Denied - to open folder' 278s test_conversion_script_multi_retains_end_reason_enumeration (test.test_compress_fast5.TestVbzConvert.test_conversion_script_multi_retains_end_reason_enumeration) 278s Test that given a collection of multi read fast5 files that undergo compression ... ok 278s test_conversion_script_single (test.test_compress_fast5.TestVbzConvert.test_conversion_script_single) ... skipped 'Permission Denied - to open folder' 278s test_conversion_script_single_retains_end_reason_enumeration (test.test_compress_fast5.TestVbzConvert.test_conversion_script_single_retains_end_reason_enumeration) 278s Test that given a collection of single read fast5 files that undergo compression ... ok 278s test_read_vbz_using_api (test.test_compress_fast5.TestVbzReadWrite.test_read_vbz_using_api) ... ok 278s test_write_vbz_directly (test.test_compress_fast5.TestVbzReadWrite.test_write_vbz_directly) ... skipped 'Tries to create dataset - permission denied' 278s test_write_vbz_using_api (test.test_compress_fast5.TestVbzReadWrite.test_write_vbz_using_api) ... ok 278s test_write_vbz_using_api_single_read (test.test_compress_fast5.TestVbzReadWrite.test_write_vbz_using_api_single_read) ... ok 278s test_register_plugin_no_prepend (test.test_compression_settings.TestCheckCompression.test_register_plugin_no_prepend) ... ok 278s test__clean (test.test_data_sanitisation.TestDataSanitisation.test__clean) ... ok 278s test__sanitize_data (test.test_data_sanitisation.TestDataSanitisation.test__sanitize_data) ... ok 278s test__sanitize_data_emptystrings (test.test_data_sanitisation.TestDataSanitisation.test__sanitize_data_emptystrings) ... ok 278s test_real_example_file (test.test_data_sanitisation.TestDataSanitisation.test_real_example_file) ... ok 278s test_sanitise_array_empty_string (test.test_data_sanitisation.TestDataSanitisation.test_sanitise_array_empty_string) ... ok 278s test_demux_1t (test.test_demux_fast5.TestDemuxFast5.test_demux_1t) ... ok 279s test_demux_8t (test.test_demux_fast5.TestDemuxFast5.test_demux_8t) ... ok 279s test_parse_summary (test.test_demux_fast5.TestDemuxFast5.test_parse_summary) ... ok 279s test_001_read_events (test.test_event_detection_tools.TestEventDetectionTools.test_001_read_events) ... ok 280s test_002_write_events (test.test_event_detection_tools.TestEventDetectionTools.test_002_write_events) ... ok 280s test_yield_fast5_files_from_dir (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_files_from_dir) ... ok 280s test_yield_fast5_files_from_fast5_file (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_files_from_fast5_file) ... ok 280s test_yield_fast5_reads_from_dir (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_from_dir) ... ok 280s test_yield_fast5_reads_from_fast5_file (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_from_fast5_file) ... ok 280s test_yield_fast5_reads_set_versus_list_equality (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_set_versus_list_equality) ... ok 280s test_yield_fast5_reads_type_error (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_type_error) ... ok 280s test_yield_fast5_reads_with_empty_set (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_empty_set) ... ok 280s test_yield_fast5_reads_with_garbage_set (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_garbage_set) ... ok 280s test_yield_fast5_reads_with_list (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_list) ... ok 280s test_yield_fast5_reads_with_set (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_set) ... ok 280s test_add_read_to_multi (test.test_fast5_converter.TestFast5Converter.test_add_read_to_multi) ... ok 280s test_multi_to_single (test.test_fast5_converter.TestFast5Converter.test_multi_to_single) ... ok 280s test_multi_to_single_incorrect_types (test.test_fast5_converter.TestFast5Converter.test_multi_to_single_incorrect_types) ... ok 280s test_single_to_multi (test.test_fast5_converter.TestFast5Converter.test_single_to_multi) ... skipped 'Permission Denied - to open folder' 280s test_single_to_multi_incorrect_types (test.test_fast5_converter.TestFast5Converter.test_single_to_multi_incorrect_types) ... ok 280s test_001_get_latest_analysis (test.test_fast5_file.TestFast5File.test_001_get_latest_analysis) ... ok 280s test_002_add_analysis_group (test.test_fast5_file.TestFast5File.test_002_add_analysis_group) ... ok 280s test_002_read_summary_data (test.test_fast5_file.TestFast5File.test_002_read_summary_data) ... ok 280s test_003_add_analysis_subgroup (test.test_fast5_file.TestFast5File.test_003_add_analysis_subgroup) ... ok 280s test_010_v0_6_single (test.test_fast5_file.TestFast5File.test_010_v0_6_single) ... ok 280s test_011_v0_6_raw (test.test_fast5_file.TestFast5File.test_011_v0_6_raw) ... ok 280s test_012_v1_0_single (test.test_fast5_file.TestFast5File.test_012_v1_0_single) ... ok 280s test_fast5_add_analysis_dataset (test.test_fast5_file.TestFast5File.test_fast5_add_analysis_dataset) ... ok 280s test_fast5_add_and_get_chain (test.test_fast5_file.TestFast5File.test_fast5_add_and_get_chain) ... ok 280s test_fast5_add_group (test.test_fast5_file.TestFast5File.test_fast5_add_group) ... ok 280s test_fast5_set_analysis_config (test.test_fast5_file.TestFast5File.test_fast5_set_analysis_config) ... ok 280s test_correct_type (test.test_fast5_interface.TestFast5Interface.test_correct_type) ... ok 280s test_extract_selected_reads (test.test_fast5_subset.TestFast5Subset.test_extract_selected_reads) ... ok 280s test_read_generator (test.test_fast5_subset.TestFast5Subset.test_read_generator) ... ok 280s test_selector_args_generator (test.test_fast5_subset.TestFast5Subset.test_selector_args_generator) ... ok 280s test_subset_from_multi (test.test_fast5_subset.TestFast5Subset.test_subset_from_multi) ... ok 280s test_subset_from_single (test.test_fast5_subset.TestFast5Subset.test_subset_from_single) ... ok 280s test_create_read (test.test_hardlink_metadata.TestHardlinkMetaData.test_create_read) ... ok 280s test_hardlink_multi_compression (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_multi_compression) ... ok 280s test_hardlink_single_to_multi (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_single_to_multi) ... ok 280s test_hardlink_subset (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_subset) ... ok 280s test_hardlink_subset_single_reads (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_subset_single_reads) ... ok 281s test_add_analysis (test.test_multi_fast5.TestMultiFast5.test_add_analysis) ... ok 281s test_channel_info (test.test_multi_fast5.TestMultiFast5.test_channel_info) ... ok 281s test_raw_data (test.test_multi_fast5.TestMultiFast5.test_raw_data) ... ok 281s test_read_interface (test.test_multi_fast5.TestMultiFast5.test_read_interface) ... ok 281s test_tracking_id (test.test_multi_fast5.TestMultiFast5.test_tracking_id) ... ok 281s test_001_raw_only (test.test_segmentation_tools.TestSegmentationTools.test_001_raw_only) ... ok 281s test_002_events_only (test.test_segmentation_tools.TestSegmentationTools.test_002_events_only) ... ok 281s 281s ---------------------------------------------------------------------- 281s Ran 76 tests in 2.770s 281s 281s OK (skipped=5) 281s autopkgtest [15:00:59]: test run-unit-test: -----------------------] 287s run-unit-test PASS 287s autopkgtest [15:01:05]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 293s autopkgtest [15:01:11]: @@@@@@@@@@@@@@@@@@@@ summary 293s run-unit-test PASS