0s autopkgtest [17:33:00]: starting date and time: 2024-05-03 17:33:00+0000 0s autopkgtest [17:33:00]: git checkout: 699e7f9f ssh-setup/nova: explicitely set 'fqdn' in cloud-init 0s autopkgtest [17:33:00]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.e7p6le1u/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:cwlformat,src:monty,src:ruamel.yaml.clib,src:ruamel.yaml --apt-upgrade cwl-utils --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=cwlformat/2022.02.18-3 monty/2024.4.17-1 ruamel.yaml.clib/0.2.8+ds-1 ruamel.yaml/0.18.6+ds-3' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos01-s390x-22.secgroup --name adt-oracular-s390x-cwl-utils-20240503-173300-juju-7f2275-prod-proposed-migration-environment-3-cc0456e8-4495-4a72-8da0-ee0d657d0208 --image adt/ubuntu-oracular-s390x-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,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://us.ports.ubuntu.com/ubuntu-ports/ 226s autopkgtest [17:36:46]: testbed dpkg architecture: s390x 227s autopkgtest [17:36:47]: testbed apt version: 2.7.14build2 227s autopkgtest [17:36:47]: @@@@@@@@@@@@@@@@@@@@ test bed setup 227s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [64.7 kB] 228s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [147 kB] 228s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [35.7 kB] 228s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [2800 B] 228s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [2003 kB] 228s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main s390x Packages [200 kB] 228s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/restricted s390x Packages [1260 B] 228s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x Packages [1301 kB] 228s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse s390x Packages [27.2 kB] 229s Fetched 3783 kB in 2s (1858 kB/s) 229s Reading package lists... 234s Reading package lists... 234s Building dependency tree... 234s Reading state information... 235s Calculating upgrade... 235s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 235s Reading package lists... 235s Building dependency tree... 235s Reading state information... 236s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 237s Hit:1 http://ftpmaster.internal/ubuntu oracular InRelease 237s Hit:2 http://ftpmaster.internal/ubuntu oracular-updates InRelease 237s Hit:3 http://ftpmaster.internal/ubuntu oracular-security InRelease 237s Hit:4 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 239s Reading package lists... 240s Reading package lists... 240s Building dependency tree... 240s Reading state information... 241s Calculating upgrade... 241s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 241s Reading package lists... 242s Building dependency tree... 242s Reading state information... 242s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 246s autopkgtest [17:37:06]: testbed running kernel: Linux 6.8.0-31-generic #31-Ubuntu SMP Sat Apr 20 00:14:26 UTC 2024 247s autopkgtest [17:37:07]: @@@@@@@@@@@@@@@@@@@@ apt-source cwl-utils 250s Get:1 http://ftpmaster.internal/ubuntu oracular/universe cwl-utils 0.32-1 (dsc) [2459 B] 250s Get:2 http://ftpmaster.internal/ubuntu oracular/universe cwl-utils 0.32-1 (tar) [304 kB] 250s Get:3 http://ftpmaster.internal/ubuntu oracular/universe cwl-utils 0.32-1 (diff) [3584 B] 250s gpgv: Signature made Tue Jan 23 11:29:08 2024 UTC 250s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 250s gpgv: Can't check signature: No public key 250s dpkg-source: warning: cannot verify inline signature for ./cwl-utils_0.32-1.dsc: no acceptable signature found 250s autopkgtest [17:37:10]: testing package cwl-utils version 0.32-1 250s autopkgtest [17:37:10]: build not needed 251s autopkgtest [17:37:11]: test run-tests: preparing testbed 253s Reading package lists... 253s Building dependency tree... 253s Reading state information... 253s Starting pkgProblemResolver with broken count: 0 253s Starting 2 pkgProblemResolver with broken count: 0 253s Done 254s The following additional packages will be installed: 254s cwl-upgrader cwl-utils cwlformat fonts-glyphicons-halflings libcares2 254s libjs-bootstrap libnode109 node-acorn node-cjs-module-lexer node-undici 254s node-xtend nodejs python3-cachecontrol python3-cwl-utils python3-execnet 254s python3-filelock python3-iniconfig python3-isodate python3-mistune 254s python3-mock python3-msgpack python3-mypy-extensions python3-packaging 254s python3-pluggy python3-pytest python3-pytest-mock python3-pytest-xdist 254s python3-rdflib python3-ruamel.yaml python3-ruamel.yaml.clib 254s python3-schema-salad 254s Suggested packages: 254s cwltool npm execnet-doc python-mock-doc python-pytest-mock-doc 254s python-rdflib-doc 254s Recommended packages: 254s nodejs-doc python3-sparqlwrapper python3-html5lib cwltool black 254s The following NEW packages will be installed: 254s autopkgtest-satdep cwl-upgrader cwl-utils cwlformat 254s fonts-glyphicons-halflings libcares2 libjs-bootstrap libnode109 node-acorn 254s node-cjs-module-lexer node-undici node-xtend nodejs python3-cachecontrol 254s python3-cwl-utils python3-execnet python3-filelock python3-iniconfig 254s python3-isodate python3-mistune python3-mock python3-msgpack 254s python3-mypy-extensions python3-packaging python3-pluggy python3-pytest 254s python3-pytest-mock python3-pytest-xdist python3-rdflib python3-ruamel.yaml 254s python3-ruamel.yaml.clib python3-schema-salad 254s 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. 254s Need to get 16.0 MB/16.0 MB of archives. 254s After this operation, 76.1 MB of additional disk space will be used. 254s Get:1 /tmp/autopkgtest.UaYLZ2/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [744 B] 254s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x python3-ruamel.yaml.clib s390x 0.2.8+ds-1 [140 kB] 255s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x python3-ruamel.yaml all 0.18.6+ds-3 [126 kB] 255s Get:4 http://ftpmaster.internal/ubuntu oracular/main s390x python3-msgpack s390x 1.0.3-3build2 [85.0 kB] 255s Get:5 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-cachecontrol all 0.14.0-1 [19.0 kB] 255s Get:6 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-mistune all 3.0.2-1 [32.8 kB] 255s Get:7 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-mypy-extensions all 1.0.0-1 [6148 B] 255s Get:8 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-isodate all 0.6.1-2 [24.3 kB] 255s Get:9 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-rdflib all 6.1.1-3 [362 kB] 255s Get:10 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-filelock all 3.13.1-1 [10.8 kB] 255s Get:11 http://ftpmaster.internal/ubuntu oracular/universe s390x fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 255s Get:12 http://ftpmaster.internal/ubuntu oracular/universe s390x libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 255s Get:13 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-schema-salad s390x 8.5.20240102191335-1build1 [1053 kB] 255s Get:14 http://ftpmaster.internal/ubuntu oracular/universe s390x cwl-upgrader all 1.2.11-1 [16.0 kB] 255s Get:15 http://ftpmaster.internal/ubuntu oracular/main s390x python3-packaging all 24.0-1 [41.1 kB] 255s Get:16 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-cwl-utils all 0.32-1 [118 kB] 255s Get:17 http://ftpmaster.internal/ubuntu oracular/universe s390x cwl-utils all 0.32-1 [2824 B] 255s Get:18 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x cwlformat all 2022.02.18-3 [7622 B] 255s Get:19 http://ftpmaster.internal/ubuntu oracular/main s390x libcares2 s390x 1.27.0-1.0ubuntu1 [79.2 kB] 255s Get:20 http://ftpmaster.internal/ubuntu oracular/universe s390x node-xtend all 4.0.2-3 [3902 B] 255s Get:21 http://ftpmaster.internal/ubuntu oracular/universe s390x nodejs s390x 18.19.1+dfsg-6ubuntu5 [307 kB] 255s Get:22 http://ftpmaster.internal/ubuntu oracular/universe s390x node-acorn all 8.8.1+ds+~cs25.17.7-2 [115 kB] 255s Get:23 http://ftpmaster.internal/ubuntu oracular/universe s390x node-cjs-module-lexer all 1.2.3+dfsg-1 [32.1 kB] 255s Get:24 http://ftpmaster.internal/ubuntu oracular/universe s390x node-undici all 5.28.2+dfsg1+~cs23.11.12.3-6ubuntu2 [335 kB] 255s Get:25 http://ftpmaster.internal/ubuntu oracular/universe s390x libnode109 s390x 18.19.1+dfsg-6ubuntu5 [12.4 MB] 256s Get:26 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-execnet all 2.0.0-2 [33.6 kB] 256s Get:27 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-iniconfig all 1.1.1-2 [6024 B] 256s Get:28 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-pluggy all 1.4.0-1 [20.4 kB] 256s Get:29 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-pytest all 7.4.4-1 [305 kB] 256s Get:30 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-pytest-mock all 3.12.0-1.1 [11.3 kB] 256s Get:31 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-pytest-xdist all 3.4.0-1 [32.0 kB] 256s Get:32 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-mock all 5.1.0-1 [64.1 kB] 257s Fetched 16.0 MB in 2s (6793 kB/s) 257s Selecting previously unselected package python3-ruamel.yaml.clib:s390x. 257s (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 ... 54485 files and directories currently installed.) 257s Preparing to unpack .../00-python3-ruamel.yaml.clib_0.2.8+ds-1_s390x.deb ... 257s Unpacking python3-ruamel.yaml.clib:s390x (0.2.8+ds-1) ... 257s Selecting previously unselected package python3-ruamel.yaml. 257s Preparing to unpack .../01-python3-ruamel.yaml_0.18.6+ds-3_all.deb ... 257s Unpacking python3-ruamel.yaml (0.18.6+ds-3) ... 257s Selecting previously unselected package python3-msgpack. 257s Preparing to unpack .../02-python3-msgpack_1.0.3-3build2_s390x.deb ... 257s Unpacking python3-msgpack (1.0.3-3build2) ... 257s Selecting previously unselected package python3-cachecontrol. 257s Preparing to unpack .../03-python3-cachecontrol_0.14.0-1_all.deb ... 257s Unpacking python3-cachecontrol (0.14.0-1) ... 257s Selecting previously unselected package python3-mistune. 257s Preparing to unpack .../04-python3-mistune_3.0.2-1_all.deb ... 257s Unpacking python3-mistune (3.0.2-1) ... 258s Selecting previously unselected package python3-mypy-extensions. 258s Preparing to unpack .../05-python3-mypy-extensions_1.0.0-1_all.deb ... 258s Unpacking python3-mypy-extensions (1.0.0-1) ... 258s Selecting previously unselected package python3-isodate. 258s Preparing to unpack .../06-python3-isodate_0.6.1-2_all.deb ... 258s Unpacking python3-isodate (0.6.1-2) ... 258s Selecting previously unselected package python3-rdflib. 258s Preparing to unpack .../07-python3-rdflib_6.1.1-3_all.deb ... 258s Unpacking python3-rdflib (6.1.1-3) ... 258s Selecting previously unselected package python3-filelock. 258s Preparing to unpack .../08-python3-filelock_3.13.1-1_all.deb ... 258s Unpacking python3-filelock (3.13.1-1) ... 258s Selecting previously unselected package fonts-glyphicons-halflings. 258s Preparing to unpack .../09-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 258s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 258s Selecting previously unselected package libjs-bootstrap. 258s Preparing to unpack .../10-libjs-bootstrap_3.4.1+dfsg-3_all.deb ... 258s Unpacking libjs-bootstrap (3.4.1+dfsg-3) ... 258s Selecting previously unselected package python3-schema-salad. 258s Preparing to unpack .../11-python3-schema-salad_8.5.20240102191335-1build1_s390x.deb ... 258s Unpacking python3-schema-salad (8.5.20240102191335-1build1) ... 258s Selecting previously unselected package cwl-upgrader. 258s Preparing to unpack .../12-cwl-upgrader_1.2.11-1_all.deb ... 258s Unpacking cwl-upgrader (1.2.11-1) ... 258s Selecting previously unselected package python3-packaging. 258s Preparing to unpack .../13-python3-packaging_24.0-1_all.deb ... 258s Unpacking python3-packaging (24.0-1) ... 258s Selecting previously unselected package python3-cwl-utils. 258s Preparing to unpack .../14-python3-cwl-utils_0.32-1_all.deb ... 258s Unpacking python3-cwl-utils (0.32-1) ... 258s Selecting previously unselected package cwl-utils. 258s Preparing to unpack .../15-cwl-utils_0.32-1_all.deb ... 258s Unpacking cwl-utils (0.32-1) ... 258s Selecting previously unselected package cwlformat. 258s Preparing to unpack .../16-cwlformat_2022.02.18-3_all.deb ... 258s Unpacking cwlformat (2022.02.18-3) ... 258s Selecting previously unselected package libcares2:s390x. 258s Preparing to unpack .../17-libcares2_1.27.0-1.0ubuntu1_s390x.deb ... 258s Unpacking libcares2:s390x (1.27.0-1.0ubuntu1) ... 258s Selecting previously unselected package node-xtend. 258s Preparing to unpack .../18-node-xtend_4.0.2-3_all.deb ... 258s Unpacking node-xtend (4.0.2-3) ... 258s Selecting previously unselected package nodejs. 258s Preparing to unpack .../19-nodejs_18.19.1+dfsg-6ubuntu5_s390x.deb ... 258s Unpacking nodejs (18.19.1+dfsg-6ubuntu5) ... 258s Selecting previously unselected package node-acorn. 258s Preparing to unpack .../20-node-acorn_8.8.1+ds+~cs25.17.7-2_all.deb ... 258s Unpacking node-acorn (8.8.1+ds+~cs25.17.7-2) ... 258s Selecting previously unselected package node-cjs-module-lexer. 258s Preparing to unpack .../21-node-cjs-module-lexer_1.2.3+dfsg-1_all.deb ... 258s Unpacking node-cjs-module-lexer (1.2.3+dfsg-1) ... 258s Selecting previously unselected package node-undici. 258s Preparing to unpack .../22-node-undici_5.28.2+dfsg1+~cs23.11.12.3-6ubuntu2_all.deb ... 258s Unpacking node-undici (5.28.2+dfsg1+~cs23.11.12.3-6ubuntu2) ... 258s Selecting previously unselected package libnode109:s390x. 259s Preparing to unpack .../23-libnode109_18.19.1+dfsg-6ubuntu5_s390x.deb ... 259s Unpacking libnode109:s390x (18.19.1+dfsg-6ubuntu5) ... 259s Selecting previously unselected package python3-execnet. 259s Preparing to unpack .../24-python3-execnet_2.0.0-2_all.deb ... 259s Unpacking python3-execnet (2.0.0-2) ... 259s Selecting previously unselected package python3-iniconfig. 259s Preparing to unpack .../25-python3-iniconfig_1.1.1-2_all.deb ... 259s Unpacking python3-iniconfig (1.1.1-2) ... 259s Selecting previously unselected package python3-pluggy. 259s Preparing to unpack .../26-python3-pluggy_1.4.0-1_all.deb ... 259s Unpacking python3-pluggy (1.4.0-1) ... 259s Selecting previously unselected package python3-pytest. 259s Preparing to unpack .../27-python3-pytest_7.4.4-1_all.deb ... 259s Unpacking python3-pytest (7.4.4-1) ... 259s Selecting previously unselected package python3-pytest-mock. 259s Preparing to unpack .../28-python3-pytest-mock_3.12.0-1.1_all.deb ... 259s Unpacking python3-pytest-mock (3.12.0-1.1) ... 259s Selecting previously unselected package python3-pytest-xdist. 259s Preparing to unpack .../29-python3-pytest-xdist_3.4.0-1_all.deb ... 259s Unpacking python3-pytest-xdist (3.4.0-1) ... 259s Selecting previously unselected package python3-mock. 259s Preparing to unpack .../30-python3-mock_5.1.0-1_all.deb ... 259s Unpacking python3-mock (5.1.0-1) ... 259s Selecting previously unselected package autopkgtest-satdep. 259s Preparing to unpack .../31-1-autopkgtest-satdep.deb ... 259s Unpacking autopkgtest-satdep (0) ... 259s Setting up python3-iniconfig (1.1.1-2) ... 260s Setting up python3-filelock (3.13.1-1) ... 260s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 260s Setting up python3-mypy-extensions (1.0.0-1) ... 260s Setting up python3-ruamel.yaml.clib:s390x (0.2.8+ds-1) ... 260s Setting up node-cjs-module-lexer (1.2.3+dfsg-1) ... 260s Setting up python3-mock (5.1.0-1) ... 261s Setting up python3-isodate (0.6.1-2) ... 261s Setting up python3-packaging (24.0-1) ... 261s Setting up libcares2:s390x (1.27.0-1.0ubuntu1) ... 261s Setting up python3-pluggy (1.4.0-1) ... 262s Setting up python3-ruamel.yaml (0.18.6+ds-3) ... 262s Setting up node-undici (5.28.2+dfsg1+~cs23.11.12.3-6ubuntu2) ... 262s Setting up python3-rdflib (6.1.1-3) ... 262s /usr/lib/python3/dist-packages/rdflib/extras/external_graph_libs.py:75: SyntaxWarning: invalid escape sequence '\*' 262s """Converts the given graph into a networkx.MultiDiGraph. 262s /usr/lib/python3/dist-packages/rdflib/extras/external_graph_libs.py:132: SyntaxWarning: invalid escape sequence '\*' 262s """Converts the given graph into a networkx.DiGraph. 262s /usr/lib/python3/dist-packages/rdflib/extras/external_graph_libs.py:195: SyntaxWarning: invalid escape sequence '\*' 263s """Converts the given graph into a networkx.Graph. 263s Setting up python3-msgpack (1.0.3-3build2) ... 263s Setting up python3-cachecontrol (0.14.0-1) ... 264s Setting up node-xtend (4.0.2-3) ... 264s Setting up python3-execnet (2.0.0-2) ... 264s Setting up python3-mistune (3.0.2-1) ... 265s Setting up libjs-bootstrap (3.4.1+dfsg-3) ... 265s Setting up python3-pytest (7.4.4-1) ... 266s Setting up python3-schema-salad (8.5.20240102191335-1build1) ... 267s Setting up cwlformat (2022.02.18-3) ... 267s Setting up cwl-upgrader (1.2.11-1) ... 267s Setting up python3-pytest-mock (3.12.0-1.1) ... 267s Setting up python3-pytest-xdist (3.4.0-1) ... 268s Setting up python3-cwl-utils (0.32-1) ... 270s Setting up cwl-utils (0.32-1) ... 270s Setting up node-acorn (8.8.1+ds+~cs25.17.7-2) ... 270s Setting up libnode109:s390x (18.19.1+dfsg-6ubuntu5) ... 270s Setting up nodejs (18.19.1+dfsg-6ubuntu5) ... 270s update-alternatives: using /usr/bin/nodejs to provide /usr/bin/js (js) in auto mode 270s Setting up autopkgtest-satdep (0) ... 270s Processing triggers for libc-bin (2.39-0ubuntu8) ... 270s Processing triggers for man-db (2.12.0-4build2) ... 276s (Reading database ... 56370 files and directories currently installed.) 276s Removing autopkgtest-satdep (0) ... 277s autopkgtest [17:37:37]: test run-tests: [----------------------- 277s + pkg=cwl-utils 277s + [ /tmp/autopkgtest.UaYLZ2/autopkgtest_tmp = ] 277s + cd /tmp/autopkgtest.UaYLZ2/autopkgtest_tmp 277s + py.test-3 -rs --numprocesses=auto --pyargs cwl_utils 280s ============================= test session starts ============================== 280s platform linux -- Python 3.12.3, pytest-7.4.4, pluggy-1.4.0 280s rootdir: /tmp/autopkgtest.UaYLZ2/autopkgtest_tmp 280s plugins: xdist-3.4.0, mock-3.12.0 280s created: 1/1 worker 280s 1 worker [184 items] 280s 285s ..sssssssssssssss............................................ssss....... [ 39%] 296s ........................................................................ [ 78%] 297s ........................................ [100%] 297s =============================== warnings summary =============================== 297s ../../../usr/lib/python3/dist-packages/cwl_utils/tests/util.py:6 297s /usr/lib/python3/dist-packages/cwl_utils/tests/util.py:6: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html 297s from pkg_resources import Requirement, ResolutionError, resource_filename 297s 297s ../../../usr/lib/python3/dist-packages/cwlformat/formatter.py:23 297s /usr/lib/python3/dist-packages/cwlformat/formatter.py:23: DeprecationWarning: read_text is deprecated. Use files() instead. Refer to https://importlib-resources.readthedocs.io/en/latest/using.html#migrating-from-legacy for migration advice. 297s key_order_dict = yaml.load(read_text("cwlformat", "keyorder.yml")) 297s 297s ../../../usr/lib/python3.12/importlib/resources/_legacy.py:79 297s /usr/lib/python3.12/importlib/resources/_legacy.py:79: DeprecationWarning: open_text is deprecated. Use files() instead. Refer to https://importlib-resources.readthedocs.io/en/latest/using.html#migrating-from-legacy for migration advice. 297s with open_text(package, resource, encoding, errors) as fp: 297s 297s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 297s =========================== short test summary info ============================ 297s SKIPPED [2] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:12: Requires the docker executable on the system path. 297s SKIPPED [2] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:12: Requires the podman executable on the system path. 297s SKIPPED [2] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:12: Requires the singularity executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:34: Requires the docker executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:34: Requires the podman executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:34: Requires the singularity executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:72: Requires the docker executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:72: Requires the podman executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:72: Requires the singularity executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:107: Requires the docker executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:107: Requires the podman executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_docker_extract.py:107: Requires the singularity executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_js_sandbox.py:78: Requires the podman executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_js_sandbox.py:104: Requires the udocker executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_js_sandbox.py:130: Requires the singularity executable on the system path. 297s SKIPPED [1] ../../../usr/lib/python3/dist-packages/cwl_utils/tests/test_js_sandbox.py:156: Requires the singularity executable on the system path. 297s ================= 165 passed, 19 skipped, 3 warnings in 19.06s ================= 298s autopkgtest [17:37:58]: test run-tests: -----------------------] 298s run-tests PASS 298s autopkgtest [17:37:58]: test run-tests: - - - - - - - - - - results - - - - - - - - - - 299s autopkgtest [17:37:59]: test command1: preparing testbed 451s autopkgtest [17:40:31]: testbed dpkg architecture: s390x 452s autopkgtest [17:40:32]: testbed apt version: 2.7.14build2 452s autopkgtest [17:40:32]: @@@@@@@@@@@@@@@@@@@@ test bed setup 452s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [64.7 kB] 452s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [35.7 kB] 452s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [147 kB] 453s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [2003 kB] 453s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [2800 B] 453s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main s390x Packages [200 kB] 453s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/restricted s390x Packages [1260 B] 453s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x Packages [1301 kB] 453s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse s390x Packages [27.2 kB] 454s Fetched 3783 kB in 2s (2432 kB/s) 454s Reading package lists... 457s Reading package lists... 457s Building dependency tree... 457s Reading state information... 457s Calculating upgrade... 457s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 458s Reading package lists... 458s Building dependency tree... 458s Reading state information... 458s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 459s Hit:1 http://ftpmaster.internal/ubuntu oracular InRelease 459s Hit:2 http://ftpmaster.internal/ubuntu oracular-updates InRelease 459s Hit:3 http://ftpmaster.internal/ubuntu oracular-security InRelease 459s Hit:4 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 460s Reading package lists... 461s Reading package lists... 461s Building dependency tree... 461s Reading state information... 461s Calculating upgrade... 461s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 461s Reading package lists... 461s Building dependency tree... 461s Reading state information... 462s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 466s Reading package lists... 467s Building dependency tree... 467s Reading state information... 467s Starting pkgProblemResolver with broken count: 0 467s Starting 2 pkgProblemResolver with broken count: 0 467s Done 467s The following additional packages will be installed: 467s cwl-upgrader cwl-utils fonts-glyphicons-halflings libjs-bootstrap 467s python3-cachecontrol python3-cwl-utils python3-filelock python3-isodate 467s python3-mistune python3-msgpack python3-mypy-extensions python3-packaging 467s python3-rdflib python3-ruamel.yaml python3-ruamel.yaml.clib 467s python3-schema-salad 467s Suggested packages: 467s cwltool cwlformat python-rdflib-doc 467s Recommended packages: 467s python3-sparqlwrapper python3-html5lib cwltool black 467s The following NEW packages will be installed: 467s autopkgtest-satdep cwl-upgrader cwl-utils fonts-glyphicons-halflings 467s libjs-bootstrap python3-cachecontrol python3-cwl-utils python3-filelock 467s python3-isodate python3-mistune python3-msgpack python3-mypy-extensions 467s python3-packaging python3-rdflib python3-ruamel.yaml 467s python3-ruamel.yaml.clib python3-schema-salad 468s 0 upgraded, 17 newly installed, 0 to remove and 0 not upgraded. 468s Need to get 2284 kB/2285 kB of archives. 468s After this operation, 15.6 MB of additional disk space will be used. 468s Get:1 /tmp/autopkgtest.UaYLZ2/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [704 B] 468s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x python3-ruamel.yaml.clib s390x 0.2.8+ds-1 [140 kB] 468s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x python3-ruamel.yaml all 0.18.6+ds-3 [126 kB] 468s Get:4 http://ftpmaster.internal/ubuntu oracular/main s390x python3-msgpack s390x 1.0.3-3build2 [85.0 kB] 468s Get:5 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-cachecontrol all 0.14.0-1 [19.0 kB] 468s Get:6 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-mistune all 3.0.2-1 [32.8 kB] 468s Get:7 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-mypy-extensions all 1.0.0-1 [6148 B] 468s Get:8 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-isodate all 0.6.1-2 [24.3 kB] 468s Get:9 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-rdflib all 6.1.1-3 [362 kB] 468s Get:10 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-filelock all 3.13.1-1 [10.8 kB] 468s Get:11 http://ftpmaster.internal/ubuntu oracular/universe s390x fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 468s Get:12 http://ftpmaster.internal/ubuntu oracular/universe s390x libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 468s Get:13 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-schema-salad s390x 8.5.20240102191335-1build1 [1053 kB] 468s Get:14 http://ftpmaster.internal/ubuntu oracular/universe s390x cwl-upgrader all 1.2.11-1 [16.0 kB] 468s Get:15 http://ftpmaster.internal/ubuntu oracular/main s390x python3-packaging all 24.0-1 [41.1 kB] 468s Get:16 http://ftpmaster.internal/ubuntu oracular/universe s390x python3-cwl-utils all 0.32-1 [118 kB] 468s Get:17 http://ftpmaster.internal/ubuntu oracular/universe s390x cwl-utils all 0.32-1 [2824 B] 469s Fetched 2284 kB in 1s (2753 kB/s) 469s Selecting previously unselected package python3-ruamel.yaml.clib:s390x. 469s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 54485 files and directories currently installed.) 469s Preparing to unpack .../00-python3-ruamel.yaml.clib_0.2.8+ds-1_s390x.deb ... 469s Unpacking python3-ruamel.yaml.clib:s390x (0.2.8+ds-1) ... 469s Selecting previously unselected package python3-ruamel.yaml. 469s Preparing to unpack .../01-python3-ruamel.yaml_0.18.6+ds-3_all.deb ... 469s Unpacking python3-ruamel.yaml (0.18.6+ds-3) ... 469s Selecting previously unselected package python3-msgpack. 469s Preparing to unpack .../02-python3-msgpack_1.0.3-3build2_s390x.deb ... 469s Unpacking python3-msgpack (1.0.3-3build2) ... 469s Selecting previously unselected package python3-cachecontrol. 469s Preparing to unpack .../03-python3-cachecontrol_0.14.0-1_all.deb ... 469s Unpacking python3-cachecontrol (0.14.0-1) ... 469s Selecting previously unselected package python3-mistune. 469s Preparing to unpack .../04-python3-mistune_3.0.2-1_all.deb ... 469s Unpacking python3-mistune (3.0.2-1) ... 469s Selecting previously unselected package python3-mypy-extensions. 469s Preparing to unpack .../05-python3-mypy-extensions_1.0.0-1_all.deb ... 469s Unpacking python3-mypy-extensions (1.0.0-1) ... 469s Selecting previously unselected package python3-isodate. 469s Preparing to unpack .../06-python3-isodate_0.6.1-2_all.deb ... 469s Unpacking python3-isodate (0.6.1-2) ... 469s Selecting previously unselected package python3-rdflib. 469s Preparing to unpack .../07-python3-rdflib_6.1.1-3_all.deb ... 469s Unpacking python3-rdflib (6.1.1-3) ... 469s Selecting previously unselected package python3-filelock. 469s Preparing to unpack .../08-python3-filelock_3.13.1-1_all.deb ... 469s Unpacking python3-filelock (3.13.1-1) ... 469s Selecting previously unselected package fonts-glyphicons-halflings. 469s Preparing to unpack .../09-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 469s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 469s Selecting previously unselected package libjs-bootstrap. 469s Preparing to unpack .../10-libjs-bootstrap_3.4.1+dfsg-3_all.deb ... 469s Unpacking libjs-bootstrap (3.4.1+dfsg-3) ... 469s Selecting previously unselected package python3-schema-salad. 469s Preparing to unpack .../11-python3-schema-salad_8.5.20240102191335-1build1_s390x.deb ... 469s Unpacking python3-schema-salad (8.5.20240102191335-1build1) ... 469s Selecting previously unselected package cwl-upgrader. 469s Preparing to unpack .../12-cwl-upgrader_1.2.11-1_all.deb ... 469s Unpacking cwl-upgrader (1.2.11-1) ... 469s Selecting previously unselected package python3-packaging. 469s Preparing to unpack .../13-python3-packaging_24.0-1_all.deb ... 469s Unpacking python3-packaging (24.0-1) ... 469s Selecting previously unselected package python3-cwl-utils. 469s Preparing to unpack .../14-python3-cwl-utils_0.32-1_all.deb ... 469s Unpacking python3-cwl-utils (0.32-1) ... 469s Selecting previously unselected package cwl-utils. 469s Preparing to unpack .../15-cwl-utils_0.32-1_all.deb ... 469s Unpacking cwl-utils (0.32-1) ... 470s Selecting previously unselected package autopkgtest-satdep. 470s Preparing to unpack .../16-2-autopkgtest-satdep.deb ... 470s Unpacking autopkgtest-satdep (0) ... 470s Setting up python3-filelock (3.13.1-1) ... 470s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 470s Setting up python3-mypy-extensions (1.0.0-1) ... 470s Setting up python3-ruamel.yaml.clib:s390x (0.2.8+ds-1) ... 470s Setting up python3-isodate (0.6.1-2) ... 470s Setting up python3-packaging (24.0-1) ... 470s Setting up python3-ruamel.yaml (0.18.6+ds-3) ... 471s Setting up python3-rdflib (6.1.1-3) ... 471s /usr/lib/python3/dist-packages/rdflib/extras/external_graph_libs.py:75: SyntaxWarning: invalid escape sequence '\*' 471s """Converts the given graph into a networkx.MultiDiGraph. 471s /usr/lib/python3/dist-packages/rdflib/extras/external_graph_libs.py:132: SyntaxWarning: invalid escape sequence '\*' 471s """Converts the given graph into a networkx.DiGraph. 471s /usr/lib/python3/dist-packages/rdflib/extras/external_graph_libs.py:195: SyntaxWarning: invalid escape sequence '\*' 471s """Converts the given graph into a networkx.Graph. 471s Setting up python3-msgpack (1.0.3-3build2) ... 471s Setting up python3-cachecontrol (0.14.0-1) ... 472s Setting up python3-mistune (3.0.2-1) ... 472s Setting up libjs-bootstrap (3.4.1+dfsg-3) ... 472s Setting up python3-schema-salad (8.5.20240102191335-1build1) ... 472s Setting up cwl-upgrader (1.2.11-1) ... 472s Setting up python3-cwl-utils (0.32-1) ... 474s Setting up cwl-utils (0.32-1) ... 474s Setting up autopkgtest-satdep (0) ... 474s Processing triggers for man-db (2.12.0-4build2) ... 477s (Reading database ... 55564 files and directories currently installed.) 477s Removing autopkgtest-satdep (0) ... 479s autopkgtest [17:40:59]: test command1: cwl-cite-extract --help && cwl-docker-extract --help && cwl-expression-refactor --help && cwl-normalizer --help 479s autopkgtest [17:40:59]: test command1: [----------------------- 480s usage: cwl-cite-extract [-h] input 480s 480s Print information about software used in a CWL document (Workflow or 480s CommandLineTool). For CWL Workflows, all steps will also be searched 480s (recursively). 480s 480s positional arguments: 480s input Input CWL document (CWL Workflow or CWL CommandLineTool) 480s 480s options: 480s -h, --help show this help message and exit 480s usage: cwl-docker-extract [-h] [--dir DIR] [-s] 480s [--container-engine CONTAINER_ENGINE] 480s [--force-download] 480s input 480s 480s Save container images specified in a CWL document (Workflow or 480s CommandLineTool). For CWL Workflows, all steps will also be searched 480s (recursively). 480s 480s positional arguments: 480s input Input CWL document (CWL Workflow or CWL 480s CommandLineTool) 480s 480s options: 480s -h, --help show this help message and exit 480s --dir DIR Directory in which to save images 480s -s, --singularity Use singularity to pull the image 480s --container-engine CONTAINER_ENGINE 480s Specify which command to use to run OCI containers. 480s Defaults to 'docker' (or 'singularity' if 480s --singularity/-s is passed). 480s --force-download Force pulling a newer container. 481s usage: cwl-expression-refactor [-h] [--etools] [--skip-some1] [--skip-some2] 481s dir inputs [inputs ...] 481s 481s Tool to refactor CWL documents so that any CWL expression are separate steps 481s as either ExpressionTools or CommandLineTools. Exit code 7 means a single CWL 481s document was provided but it did not need modification. 481s 481s positional arguments: 481s dir Directory in which to save converted files 481s inputs One or more CWL documents. 481s 481s options: 481s -h, --help show this help message and exit 481s --etools Output ExpressionTools, don't go all the way to 481s CommandLineTools. 481s --skip-some1 Don't process CommandLineTool.inputs.inputBinding and 481s CommandLineTool.arguments sections. 481s --skip-some2 Don't process CommandLineTool.outputEval or 481s CommandLineTool.requirements.InitialWorkDirRequirement. 481s usage: cwl-normalizer [-h] [--etools] [--skip-some1] [--skip-some2] 481s [--no-expression-refactoring] 481s dir inputs [inputs ...] 481s 481s Normalizes CWL documents. Will upgrade to CWL v1.2, and pack the result. Can 481s optionally refactor out CWL expressions. 481s 481s positional arguments: 481s dir Directory in which to save converted files 481s inputs One or more CWL documents. 481s 481s options: 481s -h, --help show this help message and exit 481s --etools Output ExpressionTools, don't go all the way to 481s CommandLineTools. 481s --skip-some1 Don't process CommandLineTool.inputs.inputBinding and 481s CommandLineTool.arguments sections. 481s --skip-some2 Don't process CommandLineTool.outputEval or CommandLin 481s eTool.requirements.InitialWorkDirRequirement. 481s --no-expression-refactoring 481s Don't do any CWL expression refactoring. 482s autopkgtest [17:41:02]: test command1: -----------------------] 482s autopkgtest [17:41:02]: test command1: - - - - - - - - - - results - - - - - - - - - - 482s command1 PASS (superficial) 483s autopkgtest [17:41:03]: test command2: preparing testbed 484s Reading package lists... 485s Building dependency tree... 485s Reading state information... 485s Starting pkgProblemResolver with broken count: 0 485s Starting 2 pkgProblemResolver with broken count: 0 485s Done 485s The following additional packages will be installed: 485s cwlformat 485s The following NEW packages will be installed: 485s autopkgtest-satdep cwlformat 485s 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 485s Need to get 7622 B/8334 B of archives. 485s After this operation, 39.9 kB of additional disk space will be used. 485s Get:1 /tmp/autopkgtest.UaYLZ2/3-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [712 B] 485s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/universe s390x cwlformat all 2022.02.18-3 [7622 B] 486s Fetched 7622 B in 0s (49.6 kB/s) 486s Selecting previously unselected package cwlformat. 486s (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 ... 55564 files and directories currently installed.) 486s Preparing to unpack .../cwlformat_2022.02.18-3_all.deb ... 486s Unpacking cwlformat (2022.02.18-3) ... 486s Selecting previously unselected package autopkgtest-satdep. 486s Preparing to unpack .../3-autopkgtest-satdep.deb ... 486s Unpacking autopkgtest-satdep (0) ... 486s Setting up cwlformat (2022.02.18-3) ... 486s Setting up autopkgtest-satdep (0) ... 489s (Reading database ... 55582 files and directories currently installed.) 489s Removing autopkgtest-satdep (0) ... 490s autopkgtest [17:41:10]: test command2: cwl-graph-split --help 490s autopkgtest [17:41:10]: test command2: [----------------------- 490s usage: cwl-graph-split [-h] [-m MAINFILE] [-f {json,yaml}] [-p] [-C OUTDIR] 490s cwlfile 490s 490s Split a packed CWL document. 490s 490s positional arguments: 490s cwlfile 490s 490s options: 490s -h, --help show this help message and exit 490s -m MAINFILE, --mainfile MAINFILE 490s Specify the name of the main document. 490s -f {json,yaml}, --output-format {json,yaml} 490s Specify the format of the output CWL files. 490s -p, --pretty Beautify the output CWL document, only works with yaml 490s format. 490s -C OUTDIR, --outdir OUTDIR 490s Output folder for the unpacked CWL files. 491s autopkgtest [17:41:11]: test command2: -----------------------] 491s command2 PASS (superficial) 491s autopkgtest [17:41:11]: test command2: - - - - - - - - - - results - - - - - - - - - - 492s autopkgtest [17:41:12]: @@@@@@@@@@@@@@@@@@@@ summary 492s run-tests PASS 492s command1 PASS (superficial) 492s command2 PASS (superficial) 517s Creating nova instance adt-oracular-s390x-cwl-utils-20240503-173300-juju-7f2275-prod-proposed-migration-environment-3-cc0456e8-4495-4a72-8da0-ee0d657d0208 from image adt/ubuntu-oracular-s390x-server-20240502.img (UUID bdf7e947-073b-41e7-bc23-b79954b63306)... 517s Creating nova instance adt-oracular-s390x-cwl-utils-20240503-173300-juju-7f2275-prod-proposed-migration-environment-3-cc0456e8-4495-4a72-8da0-ee0d657d0208 from image adt/ubuntu-oracular-s390x-server-20240502.img (UUID bdf7e947-073b-41e7-bc23-b79954b63306)...