0s autopkgtest [19:56:56]: starting date and time: 2024-03-14 19:56:56+0000 0s autopkgtest [19:56:56]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data 0s autopkgtest [19:56:56]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.r624ufya/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:h5py,src:hdf5,src:openmpi,src:openssl,src:pmix --apt-upgrade ont-fast5-api --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=h5py/3.10.0-1ubuntu2 hdf5/1.10.10+repack-3.1ubuntu2 openmpi/4.1.6-5.1ubuntu3 openssl/3.0.13-0ubuntu1 pmix/5.0.1-4.1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos02-ppc64el-4.secgroup --name adt-noble-ppc64el-ont-fast5-api-20240314-195655-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --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/ 205s autopkgtest [20:00:21]: testbed dpkg architecture: ppc64el 205s autopkgtest [20:00:21]: testbed apt version: 2.7.12 205s autopkgtest [20:00:21]: @@@@@@@@@@@@@@@@@@@@ test bed setup 206s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 206s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [4812 B] 206s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3020 kB] 207s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [454 kB] 207s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [48.4 kB] 207s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [607 kB] 207s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 207s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 207s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 207s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [3317 kB] 208s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 208s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [42.8 kB] 208s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 211s Fetched 7625 kB in 3s (2783 kB/s) 211s Reading package lists... 214s Reading package lists... 214s Building dependency tree... 214s Reading state information... 214s Calculating upgrade... 214s The following packages will be REMOVED: 214s libssl3 214s The following NEW packages will be installed: 214s libssl3t64 214s The following packages will be upgraded: 214s openssl 214s 1 upgraded, 1 newly installed, 1 to remove and 0 not upgraded. 214s Need to get 3195 kB of archives. 214s After this operation, 6144 B of additional disk space will be used. 214s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el openssl ppc64el 3.0.13-0ubuntu1 [1028 kB] 215s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libssl3t64 ppc64el 3.0.13-0ubuntu1 [2168 kB] 216s Fetched 3195 kB in 1s (3200 kB/s) 216s (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 ... 70095 files and directories currently installed.) 216s Preparing to unpack .../openssl_3.0.13-0ubuntu1_ppc64el.deb ... 216s Unpacking openssl (3.0.13-0ubuntu1) over (3.0.10-1ubuntu4) ... 216s dpkg: libssl3:ppc64el: dependency problems, but removing anyway as you requested: 216s wget depends on libssl3 (>= 3.0.0). 216s tnftp depends on libssl3 (>= 3.0.0). 216s tcpdump depends on libssl3 (>= 3.0.0). 216s systemd-resolved depends on libssl3 (>= 3.0.0). 216s systemd depends on libssl3 (>= 3.0.0). 216s sudo depends on libssl3 (>= 3.0.0). 216s rsync depends on libssl3 (>= 3.0.0). 216s python3-cryptography depends on libssl3 (>= 3.0.0). 216s openssh-server depends on libssl3 (>= 3.0.10). 216s openssh-client depends on libssl3 (>= 3.0.10). 216s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 216s libsystemd-shared:ppc64el depends on libssl3 (>= 3.0.0). 216s libssh-4:ppc64el depends on libssl3 (>= 3.0.0). 216s libsasl2-modules:ppc64el depends on libssl3 (>= 3.0.0). 216s libsasl2-2:ppc64el depends on libssl3 (>= 3.0.0). 216s libpython3.12-minimal:ppc64el depends on libssl3 (>= 3.0.0). 216s libpython3.11-minimal:ppc64el depends on libssl3 (>= 3.0.0). 216s libnvme1 depends on libssl3 (>= 3.0.0). 216s libkrb5-3:ppc64el depends on libssl3 (>= 3.0.0). 216s libkmod2:ppc64el depends on libssl3 (>= 3.0.0). 216s libfido2-1:ppc64el depends on libssl3 (>= 3.0.0). 216s libcurl4:ppc64el depends on libssl3 (>= 3.0.0). 216s libcryptsetup12:ppc64el depends on libssl3 (>= 3.0.0). 216s kmod depends on libssl3 (>= 3.0.0). 216s dhcpcd-base depends on libssl3 (>= 3.0.0). 216s bind9-libs:ppc64el depends on libssl3 (>= 3.0.0). 216s 216s (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 ... 70095 files and directories currently installed.) 216s Removing libssl3:ppc64el (3.0.10-1ubuntu4) ... 216s Selecting previously unselected package libssl3t64:ppc64el. 216s (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 ... 70084 files and directories currently installed.) 216s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu1_ppc64el.deb ... 216s Unpacking libssl3t64:ppc64el (3.0.13-0ubuntu1) ... 216s Setting up libssl3t64:ppc64el (3.0.13-0ubuntu1) ... 216s Setting up openssl (3.0.13-0ubuntu1) ... 216s Processing triggers for man-db (2.12.0-3) ... 217s Processing triggers for libc-bin (2.39-0ubuntu2) ... 217s Reading package lists... 217s Building dependency tree... 217s Reading state information... 217s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 218s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 218s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 218s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 218s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 220s Reading package lists... 220s Reading package lists... 220s Building dependency tree... 220s Reading state information... 220s Calculating upgrade... 220s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 220s Reading package lists... 220s Building dependency tree... 220s Reading state information... 221s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 223s autopkgtest [20:00:39]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 223s autopkgtest [20:00:39]: @@@@@@@@@@@@@@@@@@@@ apt-source ont-fast5-api 225s Get:1 http://ftpmaster.internal/ubuntu noble/universe ont-fast5-api 4.1.1+dfsg-3build1 (dsc) [2273 B] 225s Get:2 http://ftpmaster.internal/ubuntu noble/universe ont-fast5-api 4.1.1+dfsg-3build1 (tar) [1384 kB] 225s Get:3 http://ftpmaster.internal/ubuntu noble/universe ont-fast5-api 4.1.1+dfsg-3build1 (diff) [4612 B] 225s gpgv: Signature made Thu Nov 2 19:23:51 2023 UTC 225s gpgv: using RSA key D56571B88A8BBAF140BF63D6BD7EAA60778FA6F5 225s gpgv: issuer "doko@ubuntu.com" 225s gpgv: Can't check signature: No public key 225s dpkg-source: warning: cannot verify inline signature for ./ont-fast5-api_4.1.1+dfsg-3build1.dsc: no acceptable signature found 226s autopkgtest [20:00:42]: testing package ont-fast5-api version 4.1.1+dfsg-3build1 226s autopkgtest [20:00:42]: build not needed 228s autopkgtest [20:00:44]: test run-unit-test: preparing testbed 229s Reading package lists... 229s Building dependency tree... 229s Reading state information... 230s Starting pkgProblemResolver with broken count: 0 230s Starting 2 pkgProblemResolver with broken count: 0 230s Done 230s The following additional packages will be installed: 230s libaec0 libblas3 libgfortran5 libhdf5-103-1t64 libhdf5-hl-100t64 liblapack3 230s liblzf1 libsz2 libvbz-hdf-plugin-dev libvbz-hdf-plugin0t64 ont-fast5-api 230s python3-all python3-h5py python3-h5py-serial python3-numpy python3-packaging 230s python3-progressbar 230s Suggested packages: 230s python-h5py-doc gcc gfortran python3-dev python3-pytest 230s The following NEW packages will be installed: 230s autopkgtest-satdep libaec0 libblas3 libgfortran5 libhdf5-103-1t64 230s libhdf5-hl-100t64 liblapack3 liblzf1 libsz2 libvbz-hdf-plugin-dev 230s libvbz-hdf-plugin0t64 ont-fast5-api python3-all python3-h5py 230s python3-h5py-serial python3-numpy python3-packaging python3-progressbar 230s 0 upgraded, 18 newly installed, 0 to remove and 0 not upgraded. 230s Need to get 11.8 MB/11.8 MB of archives. 230s After this operation, 58.9 MB of additional disk space will be used. 230s Get:1 /tmp/autopkgtest.Gm1FmM/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [724 B] 230s Get:2 http://ftpmaster.internal/ubuntu noble/universe ppc64el libaec0 ppc64el 1.1.2-1 [29.9 kB] 230s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 230s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB] 230s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el libsz2 ppc64el 1.1.2-1 [5472 B] 230s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el libhdf5-103-1t64 ppc64el 1.10.10+repack-3.1ubuntu2 [1395 kB] 231s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el libhdf5-hl-100t64 ppc64el 1.10.10+repack-3.1ubuntu2 [70.9 kB] 231s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 231s Get:9 http://ftpmaster.internal/ubuntu noble/universe ppc64el liblzf1 ppc64el 3.6-4 [7920 B] 231s Get:10 http://ftpmaster.internal/ubuntu noble/universe ppc64el libvbz-hdf-plugin0t64 ppc64el 1.0.2-3.1 [20.1 kB] 231s Get:11 http://ftpmaster.internal/ubuntu noble/universe ppc64el libvbz-hdf-plugin-dev ppc64el 1.0.2-3.1 [14.4 kB] 231s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB] 231s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el python3-h5py-serial ppc64el 3.10.0-1ubuntu2 [955 kB] 231s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el python3-h5py all 3.10.0-1ubuntu2 [7980 B] 231s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-packaging all 23.2-1 [40.6 kB] 231s Get:16 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-progressbar all 2.5-4 [11.0 kB] 231s Get:17 http://ftpmaster.internal/ubuntu noble/universe ppc64el ont-fast5-api ppc64el 4.1.1+dfsg-3build1 [49.6 kB] 231s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-all ppc64el 3.12.1-0ubuntu2 [904 B] 232s Fetched 11.8 MB in 1s (7866 kB/s) 232s Selecting previously unselected package libaec0:ppc64el. 232s (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 ... 70097 files and directories currently installed.) 232s Preparing to unpack .../00-libaec0_1.1.2-1_ppc64el.deb ... 232s Unpacking libaec0:ppc64el (1.1.2-1) ... 232s Selecting previously unselected package libblas3:ppc64el. 232s Preparing to unpack .../01-libblas3_3.12.0-3_ppc64el.deb ... 232s Unpacking libblas3:ppc64el (3.12.0-3) ... 232s Selecting previously unselected package libgfortran5:ppc64el. 232s Preparing to unpack .../02-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ... 232s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 232s Selecting previously unselected package libsz2:ppc64el. 232s Preparing to unpack .../03-libsz2_1.1.2-1_ppc64el.deb ... 232s Unpacking libsz2:ppc64el (1.1.2-1) ... 232s Selecting previously unselected package libhdf5-103-1t64:ppc64el. 232s Preparing to unpack .../04-libhdf5-103-1t64_1.10.10+repack-3.1ubuntu2_ppc64el.deb ... 232s Unpacking libhdf5-103-1t64:ppc64el (1.10.10+repack-3.1ubuntu2) ... 232s Selecting previously unselected package libhdf5-hl-100t64:ppc64el. 232s Preparing to unpack .../05-libhdf5-hl-100t64_1.10.10+repack-3.1ubuntu2_ppc64el.deb ... 232s Unpacking libhdf5-hl-100t64:ppc64el (1.10.10+repack-3.1ubuntu2) ... 232s Selecting previously unselected package liblapack3:ppc64el. 232s Preparing to unpack .../06-liblapack3_3.12.0-3_ppc64el.deb ... 232s Unpacking liblapack3:ppc64el (3.12.0-3) ... 232s Selecting previously unselected package liblzf1:ppc64el. 232s Preparing to unpack .../07-liblzf1_3.6-4_ppc64el.deb ... 232s Unpacking liblzf1:ppc64el (3.6-4) ... 232s Selecting previously unselected package libvbz-hdf-plugin0t64:ppc64el. 232s Preparing to unpack .../08-libvbz-hdf-plugin0t64_1.0.2-3.1_ppc64el.deb ... 232s Unpacking libvbz-hdf-plugin0t64:ppc64el (1.0.2-3.1) ... 232s Selecting previously unselected package libvbz-hdf-plugin-dev:ppc64el. 232s Preparing to unpack .../09-libvbz-hdf-plugin-dev_1.0.2-3.1_ppc64el.deb ... 232s Unpacking libvbz-hdf-plugin-dev:ppc64el (1.0.2-3.1) ... 232s Selecting previously unselected package python3-numpy. 232s Preparing to unpack .../10-python3-numpy_1%3a1.24.2-2_ppc64el.deb ... 232s Unpacking python3-numpy (1:1.24.2-2) ... 232s Selecting previously unselected package python3-h5py-serial. 232s Preparing to unpack .../11-python3-h5py-serial_3.10.0-1ubuntu2_ppc64el.deb ... 232s Unpacking python3-h5py-serial (3.10.0-1ubuntu2) ... 232s Selecting previously unselected package python3-h5py. 232s Preparing to unpack .../12-python3-h5py_3.10.0-1ubuntu2_all.deb ... 232s Unpacking python3-h5py (3.10.0-1ubuntu2) ... 232s Selecting previously unselected package python3-packaging. 232s Preparing to unpack .../13-python3-packaging_23.2-1_all.deb ... 232s Unpacking python3-packaging (23.2-1) ... 232s Selecting previously unselected package python3-progressbar. 232s Preparing to unpack .../14-python3-progressbar_2.5-4_all.deb ... 232s Unpacking python3-progressbar (2.5-4) ... 232s Selecting previously unselected package ont-fast5-api. 232s Preparing to unpack .../15-ont-fast5-api_4.1.1+dfsg-3build1_ppc64el.deb ... 232s Unpacking ont-fast5-api (4.1.1+dfsg-3build1) ... 232s Selecting previously unselected package python3-all. 232s Preparing to unpack .../16-python3-all_3.12.1-0ubuntu2_ppc64el.deb ... 232s Unpacking python3-all (3.12.1-0ubuntu2) ... 232s Selecting previously unselected package autopkgtest-satdep. 232s Preparing to unpack .../17-1-autopkgtest-satdep.deb ... 232s Unpacking autopkgtest-satdep (0) ... 232s Setting up python3-all (3.12.1-0ubuntu2) ... 232s Setting up libaec0:ppc64el (1.1.2-1) ... 232s Setting up libvbz-hdf-plugin0t64:ppc64el (1.0.2-3.1) ... 232s Setting up python3-progressbar (2.5-4) ... 233s Setting up libblas3:ppc64el (3.12.0-3) ... 233s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 233s Setting up python3-packaging (23.2-1) ... 233s Setting up liblzf1:ppc64el (3.6-4) ... 233s Setting up libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 233s Setting up libsz2:ppc64el (1.1.2-1) ... 233s Setting up liblapack3:ppc64el (3.12.0-3) ... 233s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 233s Setting up libvbz-hdf-plugin-dev:ppc64el (1.0.2-3.1) ... 233s Setting up python3-numpy (1:1.24.2-2) ... 235s Setting up libhdf5-103-1t64:ppc64el (1.10.10+repack-3.1ubuntu2) ... 235s Setting up libhdf5-hl-100t64:ppc64el (1.10.10+repack-3.1ubuntu2) ... 235s Setting up python3-h5py-serial (3.10.0-1ubuntu2) ... 235s Setting up python3-h5py (3.10.0-1ubuntu2) ... 235s Setting up ont-fast5-api (4.1.1+dfsg-3build1) ... 236s Setting up autopkgtest-satdep (0) ... 236s Processing triggers for man-db (2.12.0-3) ... 236s Processing triggers for libc-bin (2.39-0ubuntu2) ... 238s (Reading database ... 71368 files and directories currently installed.) 238s Removing autopkgtest-satdep (0) ... 239s autopkgtest [20:00:55]: test run-unit-test: [----------------------- 239s test_001_put_and_retrieve (test.test_alignment_tools.TestAlignmentTools.test_001_put_and_retrieve) ... ok 239s test_001_put_and_retrieve (test.test_basecall_1d_tools.TestBasecall1DTools.test_001_put_and_retrieve) ... ok 239s test_001_put_and_retrieve (test.test_basecall_2d_tools.TestBasecall2DTools.test_001_put_and_retrieve) ... ok 239s test_check_multi_read (test.test_check_compression.TestCheckCompression.test_check_multi_read) ... ok 240s test_check_read_compression_multi_read (test.test_check_compression.TestCheckCompression.test_check_read_compression_multi_read) ... ok 240s test_check_read_compression_single_read (test.test_check_compression.TestCheckCompression.test_check_read_compression_single_read) ... ok 240s test_check_read_compression_vbz (test.test_check_compression.TestCheckCompression.test_check_read_compression_vbz) ... ok 240s test_check_single_read_folder (test.test_check_compression.TestCheckCompression.test_check_single_read_folder) ... ok 240s test_multi_to_multi (test.test_compress_fast5.TestSanitise.test_multi_to_multi) ... ok 240s test_single_to_multi (test.test_compress_fast5.TestSanitise.test_single_to_multi) ... ok 240s test_add_read_from_multi (test.test_compress_fast5.TestVbzConvert.test_add_read_from_multi) ... ok 240s test_compress_in_place (test.test_compress_fast5.TestVbzConvert.test_compress_in_place) ... skipped 'Permission Denied - to open folder' 240s test_compress_read_from_single (test.test_compress_fast5.TestVbzConvert.test_compress_read_from_single) ... ok 240s test_conversion_script_multi (test.test_compress_fast5.TestVbzConvert.test_conversion_script_multi) ... skipped 'Permission Denied - to open folder' 240s test_conversion_script_multi_retains_end_reason_enumeration (test.test_compress_fast5.TestVbzConvert.test_conversion_script_multi_retains_end_reason_enumeration) 240s Test that given a collection of multi read fast5 files that undergo compression ... ok 240s test_conversion_script_single (test.test_compress_fast5.TestVbzConvert.test_conversion_script_single) ... skipped 'Permission Denied - to open folder' 240s test_conversion_script_single_retains_end_reason_enumeration (test.test_compress_fast5.TestVbzConvert.test_conversion_script_single_retains_end_reason_enumeration) 240s Test that given a collection of single read fast5 files that undergo compression ... ok 240s test_read_vbz_using_api (test.test_compress_fast5.TestVbzReadWrite.test_read_vbz_using_api) ... ok 240s test_write_vbz_directly (test.test_compress_fast5.TestVbzReadWrite.test_write_vbz_directly) ... skipped 'Tries to create dataset - permission denied' 240s test_write_vbz_using_api (test.test_compress_fast5.TestVbzReadWrite.test_write_vbz_using_api) ... ok 240s test_write_vbz_using_api_single_read (test.test_compress_fast5.TestVbzReadWrite.test_write_vbz_using_api_single_read) ... ok 240s test_register_plugin_no_prepend (test.test_compression_settings.TestCheckCompression.test_register_plugin_no_prepend) ... ok 240s test__clean (test.test_data_sanitisation.TestDataSanitisation.test__clean) ... ok 240s test__sanitize_data (test.test_data_sanitisation.TestDataSanitisation.test__sanitize_data) ... ok 240s test__sanitize_data_emptystrings (test.test_data_sanitisation.TestDataSanitisation.test__sanitize_data_emptystrings) ... ok 240s test_real_example_file (test.test_data_sanitisation.TestDataSanitisation.test_real_example_file) ... ok 240s test_sanitise_array_empty_string (test.test_data_sanitisation.TestDataSanitisation.test_sanitise_array_empty_string) ... ok 240s test_demux_1t (test.test_demux_fast5.TestDemuxFast5.test_demux_1t) ... ok 241s test_demux_8t (test.test_demux_fast5.TestDemuxFast5.test_demux_8t) ... ok 241s test_parse_summary (test.test_demux_fast5.TestDemuxFast5.test_parse_summary) ... ok 241s test_001_read_events (test.test_event_detection_tools.TestEventDetectionTools.test_001_read_events) ... ok 241s test_002_write_events (test.test_event_detection_tools.TestEventDetectionTools.test_002_write_events) ... ok 241s test_yield_fast5_files_from_dir (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_files_from_dir) ... ok 241s test_yield_fast5_files_from_fast5_file (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_files_from_fast5_file) ... ok 241s test_yield_fast5_reads_from_dir (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_from_dir) ... ok 241s test_yield_fast5_reads_from_fast5_file (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_from_fast5_file) ... ok 241s test_yield_fast5_reads_set_versus_list_equality (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_set_versus_list_equality) ... ok 241s test_yield_fast5_reads_type_error (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_type_error) ... ok 241s test_yield_fast5_reads_with_empty_set (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_empty_set) ... ok 241s test_yield_fast5_reads_with_garbage_set (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_garbage_set) ... ok 241s test_yield_fast5_reads_with_list (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_list) ... ok 241s test_yield_fast5_reads_with_set (test.test_fast5_conversion_utils.TestFast5ConversionUtilities.test_yield_fast5_reads_with_set) ... ok 241s test_add_read_to_multi (test.test_fast5_converter.TestFast5Converter.test_add_read_to_multi) ... ok 241s test_multi_to_single (test.test_fast5_converter.TestFast5Converter.test_multi_to_single) ... ok 241s test_multi_to_single_incorrect_types (test.test_fast5_converter.TestFast5Converter.test_multi_to_single_incorrect_types) ... ok 241s test_single_to_multi (test.test_fast5_converter.TestFast5Converter.test_single_to_multi) ... skipped 'Permission Denied - to open folder' 241s test_single_to_multi_incorrect_types (test.test_fast5_converter.TestFast5Converter.test_single_to_multi_incorrect_types) ... ok 241s test_001_get_latest_analysis (test.test_fast5_file.TestFast5File.test_001_get_latest_analysis) ... ok 241s test_002_add_analysis_group (test.test_fast5_file.TestFast5File.test_002_add_analysis_group) ... ok 241s test_002_read_summary_data (test.test_fast5_file.TestFast5File.test_002_read_summary_data) ... ok 241s test_003_add_analysis_subgroup (test.test_fast5_file.TestFast5File.test_003_add_analysis_subgroup) ... ok 241s test_010_v0_6_single (test.test_fast5_file.TestFast5File.test_010_v0_6_single) ... ok 241s test_011_v0_6_raw (test.test_fast5_file.TestFast5File.test_011_v0_6_raw) ... ok 241s test_012_v1_0_single (test.test_fast5_file.TestFast5File.test_012_v1_0_single) ... ok 241s test_fast5_add_analysis_dataset (test.test_fast5_file.TestFast5File.test_fast5_add_analysis_dataset) ... ok 241s test_fast5_add_and_get_chain (test.test_fast5_file.TestFast5File.test_fast5_add_and_get_chain) ... ok 241s test_fast5_add_group (test.test_fast5_file.TestFast5File.test_fast5_add_group) ... ok 241s test_fast5_set_analysis_config (test.test_fast5_file.TestFast5File.test_fast5_set_analysis_config) ... ok 241s test_correct_type (test.test_fast5_interface.TestFast5Interface.test_correct_type) ... ok 241s test_extract_selected_reads (test.test_fast5_subset.TestFast5Subset.test_extract_selected_reads) ... ok 241s test_read_generator (test.test_fast5_subset.TestFast5Subset.test_read_generator) ... ok 241s test_selector_args_generator (test.test_fast5_subset.TestFast5Subset.test_selector_args_generator) ... ok 241s test_subset_from_multi (test.test_fast5_subset.TestFast5Subset.test_subset_from_multi) ... ok 241s test_subset_from_single (test.test_fast5_subset.TestFast5Subset.test_subset_from_single) ... ok 241s test_create_read (test.test_hardlink_metadata.TestHardlinkMetaData.test_create_read) ... ok 241s test_hardlink_multi_compression (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_multi_compression) ... ok 241s test_hardlink_single_to_multi (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_single_to_multi) ... ok 241s test_hardlink_subset (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_subset) ... ok 241s test_hardlink_subset_single_reads (test.test_hardlink_metadata.TestHardlinkMetaData.test_hardlink_subset_single_reads) ... ok 241s test_add_analysis (test.test_multi_fast5.TestMultiFast5.test_add_analysis) ... ok 241s test_channel_info (test.test_multi_fast5.TestMultiFast5.test_channel_info) ... ok 241s test_raw_data (test.test_multi_fast5.TestMultiFast5.test_raw_data) ... ok 241s test_read_interface (test.test_multi_fast5.TestMultiFast5.test_read_interface) ... ok 241s test_tracking_id (test.test_multi_fast5.TestMultiFast5.test_tracking_id) ... ok 241s test_001_raw_only (test.test_segmentation_tools.TestSegmentationTools.test_001_raw_only) ... ok 241s test_002_events_only (test.test_segmentation_tools.TestSegmentationTools.test_002_events_only) ... ok 241s 241s ---------------------------------------------------------------------- 241s Ran 76 tests in 1.815s 241s 241s OK (skipped=5) 242s autopkgtest [20:00:58]: test run-unit-test: -----------------------] 242s autopkgtest [20:00:58]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 242s run-unit-test PASS 242s autopkgtest [20:00:58]: @@@@@@@@@@@@@@@@@@@@ summary 242s run-unit-test PASS 254s Creating nova instance adt-noble-ppc64el-ont-fast5-api-20240314-195655-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-ppc64el-server-20240314.img (UUID a031584c-aec8-4412-bff6-4238354f4d17)...