0s autopkgtest [15:35:56]: starting date and time: 2024-06-30 15:35:56+0000 0s autopkgtest [15:35:56]: git checkout: 85adf9a1 setup-testbed: prevent /tmp from getting a tmpfs mount 0s autopkgtest [15:35:56]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.dhacj5hj/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:qiime --apt-upgrade q2-taxa --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=qiime/2024.5.0-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@lcy02-19.secgroup --name adt-oracular-amd64-q2-taxa-20240630-153556-juju-7f2275-prod-proposed-migration-environment-3-b1561bb5-47b2-405f-867f-1a20362cd7bd --image adt/ubuntu-oracular-amd64-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://ftpmaster.internal/ubuntu/ 63s autopkgtest [15:36:59]: testbed dpkg architecture: amd64 63s autopkgtest [15:36:59]: testbed apt version: 2.9.5 63s autopkgtest [15:36:59]: @@@@@@@@@@@@@@@@@@@@ test bed setup 63s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [110 kB] 63s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [7052 B] 63s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [43.8 kB] 63s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [2576 B] 63s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [378 kB] 63s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 Packages [90.8 kB] 63s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main i386 Packages [75.0 kB] 63s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 Packages [28.0 kB] 63s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/restricted i386 Packages [6244 B] 63s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 Packages [351 kB] 63s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/universe i386 Packages [212 kB] 63s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 Packages [7968 B] 63s Get:13 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse i386 Packages [3368 B] 63s Fetched 1317 kB in 0s (6005 kB/s) 63s Reading package lists... 65s Reading package lists... 65s Building dependency tree... 65s Reading state information... 65s Calculating upgrade... 66s The following packages will be upgraded: 66s lto-disabled-list 66s 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 66s Need to get 12.3 kB of archives. 66s After this operation, 0 B of additional disk space will be used. 66s Get:1 http://ftpmaster.internal/ubuntu oracular/main amd64 lto-disabled-list all 50 [12.3 kB] 66s Fetched 12.3 kB in 0s (678 kB/s) 67s (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 ... 74422 files and directories currently installed.) 67s Preparing to unpack .../lto-disabled-list_50_all.deb ... 67s Unpacking lto-disabled-list (50) over (49) ... 67s Setting up lto-disabled-list (50) ... 67s Reading package lists... 67s Building dependency tree... 67s Reading state information... 68s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 68s Hit:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 68s Hit:2 http://ftpmaster.internal/ubuntu oracular InRelease 68s Hit:3 http://ftpmaster.internal/ubuntu oracular-updates InRelease 68s Hit:4 http://ftpmaster.internal/ubuntu oracular-security InRelease 69s Reading package lists... 69s Reading package lists... 70s Building dependency tree... 70s Reading state information... 70s Calculating upgrade... 70s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 70s Reading package lists... 71s Building dependency tree... 71s Reading state information... 71s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 72s autopkgtest [15:37:08]: testbed running kernel: Linux 6.8.0-31-generic #31-Ubuntu SMP PREEMPT_DYNAMIC Sat Apr 20 00:40:06 UTC 2024 72s autopkgtest [15:37:08]: @@@@@@@@@@@@@@@@@@@@ apt-source q2-taxa 72s Get:1 http://ftpmaster.internal/ubuntu oracular/universe q2-taxa 2024.2.0+dfsg-1ubuntu1 (dsc) [2504 B] 72s Get:2 http://ftpmaster.internal/ubuntu oracular/universe q2-taxa 2024.2.0+dfsg-1ubuntu1 (tar) [234 kB] 72s Get:3 http://ftpmaster.internal/ubuntu oracular/universe q2-taxa 2024.2.0+dfsg-1ubuntu1 (diff) [7856 B] 72s gpgv: Signature made Mon Jun 3 18:53:13 2024 UTC 72s gpgv: using RSA key 439884E6862A429C290DF63B033C4CA276024834 72s gpgv: issuer "athos.ribeiro@canonical.com" 72s gpgv: Can't check signature: No public key 72s dpkg-source: warning: cannot verify inline signature for ./q2-taxa_2024.2.0+dfsg-1ubuntu1.dsc: no acceptable signature found 73s autopkgtest [15:37:09]: testing package q2-taxa version 2024.2.0+dfsg-1ubuntu1 73s autopkgtest [15:37:09]: build not needed 73s autopkgtest [15:37:09]: test run-unit-test: preparing testbed 73s Reading package lists... 73s Building dependency tree... 73s Reading state information... 74s Starting pkgProblemResolver with broken count: 0 74s Starting 2 pkgProblemResolver with broken count: 0 74s Done 74s The following additional packages will be installed: 74s fonts-glyphicons-halflings javascript-common libaec0 libblas3 libgfortran5 74s libgomp1 libhdf5-103-1t64 libhdf5-hl-100t64 libjs-bootstrap libjs-jquery 74s libjs-jquery-hotkeys libjs-jquery-isonscreen libjs-jquery-metadata 74s libjs-jquery-tablesorter libjs-jquery-throttle-debounce libjs-popper.js 74s liblapack3 liblbfgsb0 liblzf1 libnorm1t64 libopenblas0 libopenblas0-pthread 74s libpgm-5.3-0t64 libsodium23 libssw0 libsz2 libxslt1.1 libyajl2 libzmq5 74s node-d3-color node-d3-interpolate node-d3-scale-chromatic 74s node-fortawesome-fontawesome-free node-natural-sort node-normalize.css 74s node-thenby python3-all python3-bcrypt python3-bibtexparser 74s python3-biom-format python3-click python3-colorama python3-coverage 74s python3-dateutil python3-decorator python3-dill python3-filelock 74s python3-flask python3-flask-sqlalchemy python3-flufl.lock python3-globus-sdk 74s python3-greenlet python3-h5py python3-h5py-serial python3-hdmedians 74s python3-ijson python3-iniconfig python3-itsdangerous python3-lxml 74s python3-nacl python3-natsort python3-networkx python3-numpy 74s python3-packaging python3-pandas python3-pandas-lib python3-paramiko 74s python3-parsl python3-platformdirs python3-pluggy python3-psutil 74s python3-public python3-py python3-pytest python3-pytest-cov python3-scipy 74s python3-setproctitle python3-skbio python3-sqlalchemy python3-tblib 74s python3-tomlkit python3-typeguard python3-tzlocal python3-werkzeug 74s python3-zmq q2-taxa q2-types q2templates qiime 74s Suggested packages: 74s apache2 | lighttpd | httpd libjs-html5shiv python-biom-format-doc 74s python-coverage-doc python3-objgraph python3-dotenv python-flask-doc 74s python-flufl.lock-doc python-greenlet-dev python-greenlet-doc 74s python-h5py-doc python-lxml-doc python-nacl-doc python-natsort-doc 74s python3-gdal python3-matplotlib python3-pydot python3-pygraphviz gcc 74s gfortran python-numpy-doc python3-dev python-pandas-doc python3-statsmodels 74s python3-gssapi python3-invoke python-public-doc subversion python-scipy-doc 74s python-skbio-doc python-sqlalchemy-doc python3-fdb python3-pymssql 74s python3-mysqldb python3-psycopg2 python3-asyncpg python3-aiosqlite ipython3 74s python-werkzeug-doc python3-watchdog 74s Recommended packages: 74s node-jquery python3-asgiref python3-simplejson python3-bs4 python3-cssselect 74s python3-html5lib python3-matplotlib python3-bottleneck python3-numexpr 74s python3-odf python3-openpyxl python3-tables python3-numba r-cran-plotly g++ 74s | c++-compiler python3-pil python3-sqlalchemy-ext python3-pyinotify q2cli 74s q2-cutadapt q2-metadata q2-demux q2-quality-filter q2-feature-classifier 74s q2-feature-table 74s The following NEW packages will be installed: 74s autopkgtest-satdep fonts-glyphicons-halflings javascript-common libaec0 74s libblas3 libgfortran5 libgomp1 libhdf5-103-1t64 libhdf5-hl-100t64 74s libjs-bootstrap libjs-jquery libjs-jquery-hotkeys libjs-jquery-isonscreen 74s libjs-jquery-metadata libjs-jquery-tablesorter 74s libjs-jquery-throttle-debounce libjs-popper.js liblapack3 liblbfgsb0 liblzf1 74s libnorm1t64 libopenblas0 libopenblas0-pthread libpgm-5.3-0t64 libsodium23 74s libssw0 libsz2 libxslt1.1 libyajl2 libzmq5 node-d3-color node-d3-interpolate 74s node-d3-scale-chromatic node-fortawesome-fontawesome-free node-natural-sort 74s node-normalize.css node-thenby python3-all python3-bcrypt 74s python3-bibtexparser python3-biom-format python3-click python3-colorama 74s python3-coverage python3-dateutil python3-decorator python3-dill 74s python3-filelock python3-flask python3-flask-sqlalchemy python3-flufl.lock 74s python3-globus-sdk python3-greenlet python3-h5py python3-h5py-serial 74s python3-hdmedians python3-ijson python3-iniconfig python3-itsdangerous 74s python3-lxml python3-nacl python3-natsort python3-networkx python3-numpy 74s python3-packaging python3-pandas python3-pandas-lib python3-paramiko 74s python3-parsl python3-platformdirs python3-pluggy python3-psutil 74s python3-public python3-py python3-pytest python3-pytest-cov python3-scipy 74s python3-setproctitle python3-skbio python3-sqlalchemy python3-tblib 74s python3-tomlkit python3-typeguard python3-tzlocal python3-werkzeug 74s python3-zmq q2-taxa q2-types q2templates qiime 74s 0 upgraded, 90 newly installed, 0 to remove and 0 not upgraded. 74s Need to get 69.5 MB/69.5 MB of archives. 74s After this operation, 386 MB of additional disk space will be used. 74s Get:1 /tmp/autopkgtest.Ktc79G/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [728 B] 74s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 74s Get:3 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-hotkeys all 0~20130707+git2d51e3a9+dfsg-2.1 [11.5 kB] 74s Get:4 http://ftpmaster.internal/ubuntu oracular/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 74s Get:5 http://ftpmaster.internal/ubuntu oracular/main amd64 javascript-common all 11+nmu1 [5936 B] 74s Get:6 http://ftpmaster.internal/ubuntu oracular/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 74s Get:7 http://ftpmaster.internal/ubuntu oracular/main amd64 libblas3 amd64 3.12.0-3build1 [238 kB] 74s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 libgfortran5 amd64 14.1.0-1ubuntu1 [928 kB] 74s Get:9 http://ftpmaster.internal/ubuntu oracular/main amd64 libgomp1 amd64 14.1.0-1ubuntu1 [148 kB] 74s Get:10 http://ftpmaster.internal/ubuntu oracular/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 74s Get:11 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-3.1ubuntu4 [1270 kB] 74s Get:12 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-3.1ubuntu4 [56.0 kB] 74s Get:13 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 74s Get:14 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-metadata all 12-4 [6582 B] 74s Get:15 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-3 [193 kB] 74s Get:16 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-throttle-debounce all 1.1+dfsg.1-2 [12.5 kB] 74s Get:17 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 74s Get:18 http://ftpmaster.internal/ubuntu oracular/universe amd64 libopenblas0-pthread amd64 0.3.27+ds-2 [7185 kB] 75s Get:19 http://ftpmaster.internal/ubuntu oracular/main amd64 liblapack3 amd64 3.12.0-3build1 [2650 kB] 75s Get:20 http://ftpmaster.internal/ubuntu oracular/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 75s Get:21 http://ftpmaster.internal/ubuntu oracular/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 75s Get:22 http://ftpmaster.internal/ubuntu oracular/universe amd64 libnorm1t64 amd64 1.5.9+dfsg-3.1build1 [154 kB] 75s Get:23 http://ftpmaster.internal/ubuntu oracular/universe amd64 libopenblas0 amd64 0.3.27+ds-2 [6218 B] 75s Get:24 http://ftpmaster.internal/ubuntu oracular/universe amd64 libpgm-5.3-0t64 amd64 5.3.128~dfsg-2.1build1 [167 kB] 75s Get:25 http://ftpmaster.internal/ubuntu oracular/main amd64 libsodium23 amd64 1.0.18-1build3 [161 kB] 75s Get:26 http://ftpmaster.internal/ubuntu oracular/universe amd64 libssw0 amd64 1.1-14build1 [22.1 kB] 75s Get:27 http://ftpmaster.internal/ubuntu oracular/main amd64 libxslt1.1 amd64 1.1.39-0exp1build1 [167 kB] 75s Get:28 http://ftpmaster.internal/ubuntu oracular/universe amd64 libzmq5 amd64 4.3.5-1build2 [260 kB] 75s Get:29 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-d3-color all 1.4.1+~1.4.2-1 [19.9 kB] 75s Get:30 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-d3-interpolate all 1.4.0+~1.4.2-1 [24.0 kB] 75s Get:31 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-d3-scale-chromatic all 1.5.0+~1.5.1-1 [23.5 kB] 75s Get:32 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-fortawesome-fontawesome-free all 6.4.2+ds1-1 [1573 kB] 75s Get:33 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-natural-sort all 1.0.0-5 [4306 B] 75s Get:34 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB] 75s Get:35 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-thenby all 1.3.4+git20200720.0fd165a+ds-5 [5098 B] 75s Get:36 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-all amd64 3.12.3-0ubuntu1 [888 B] 75s Get:37 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-bibtexparser all 2.0.0b5+really1.4.1-1 [34.5 kB] 75s Get:38 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-numpy amd64 1:1.26.4+ds-10 [4437 kB] 75s Get:39 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-h5py-serial amd64 3.10.0-1ubuntu3 [906 kB] 75s Get:40 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-h5py all 3.10.0-1ubuntu3 [7978 B] 75s Get:41 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-colorama all 0.4.6-4 [32.1 kB] 75s Get:42 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-click all 8.1.7-1 [79.1 kB] 75s Get:43 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-dateutil all 2.9.0-2 [80.3 kB] 75s Get:44 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pandas-lib amd64 2.1.4+dfsg-8 [4450 kB] 75s Get:45 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pandas all 2.1.4+dfsg-8 [3042 kB] 75s Get:46 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 75s Get:47 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-scipy amd64 1.12.0-2 [16.5 MB] 75s Get:48 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-biom-format amd64 2.1.16-1 [141 kB] 75s Get:49 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-coverage amd64 7.4.4+dfsg1-0ubuntu2 [147 kB] 75s Get:50 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-dill all 0.3.8-1 [83.0 kB] 75s Get:51 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-filelock all 3.15.4-1 [12.8 kB] 75s Get:52 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-itsdangerous all 2.2.0-1 [15.2 kB] 75s Get:53 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-werkzeug all 3.0.3-1 [170 kB] 75s Get:54 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-flask all 3.0.3-1ubuntu1 [83.2 kB] 75s Get:55 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-greenlet amd64 3.0.3-0ubuntu5 [154 kB] 75s Get:56 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-sqlalchemy all 1.4.50+ds1-1build1 [1020 kB] 75s Get:57 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-flask-sqlalchemy all 3.0.3-1 [30.9 kB] 75s Get:58 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-psutil amd64 5.9.8-2build2 [195 kB] 75s Get:59 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-public all 4.1.0-1 [7052 B] 75s Get:60 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-flufl.lock all 8.1.0-1 [12.4 kB] 75s Get:61 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-globus-sdk all 3.41.0-1 [225 kB] 75s Get:62 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-hdmedians amd64 0.14.2-5.1build1 [124 kB] 75s Get:63 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 75s Get:64 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-lxml amd64 5.2.1-1 [1243 kB] 75s Get:65 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-nacl amd64 1.5.0-4build1 [57.9 kB] 75s Get:66 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-natsort all 8.0.2-2 [33.8 kB] 75s Get:67 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 75s Get:68 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-packaging all 24.0-1 [41.1 kB] 75s Get:69 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-bcrypt amd64 4.1.2-1 [229 kB] 75s Get:70 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-paramiko all 3.4.0-1ubuntu1 [145 kB] 75s Get:71 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-setproctitle amd64 1.3.3-1build2 [19.0 kB] 75s Get:72 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-tblib all 3.0.0-5 [12.9 kB] 75s Get:73 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-typeguard all 4.1.5-1 [32.7 kB] 75s Get:74 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-py all 1.11.0-2 [72.7 kB] 75s Get:75 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-zmq amd64 24.0.1-5build1 [286 kB] 75s Get:76 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-parsl all 2024.05.27+ds-1 [274 kB] 75s Get:77 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-platformdirs all 4.2.1-1 [16.3 kB] 75s Get:78 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 75s Get:79 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pytest all 7.4.4-1 [305 kB] 75s Get:80 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-isonscreen all 1.2.0-1.1 [3244 B] 75s Get:81 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pytest-cov all 5.0.0-1 [21.3 kB] 75s Get:82 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-skbio amd64 0.6.1-2 [1333 kB] 75s Get:83 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-tomlkit all 0.12.5-1 [37.7 kB] 75s Get:84 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-tzlocal all 5.2-1.1 [20.5 kB] 75s Get:85 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 qiime all 2024.5.0-1 [9078 B] 75s Get:86 http://ftpmaster.internal/ubuntu oracular/universe amd64 q2templates all 2024.5.0+ds-1 [12.0 kB] 75s Get:87 http://ftpmaster.internal/ubuntu oracular/main amd64 libyajl2 amd64 2.1.0-5build1 [20.2 kB] 75s Get:88 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-ijson amd64 3.3.0-1 [36.7 kB] 75s Get:89 http://ftpmaster.internal/ubuntu oracular/universe amd64 q2-types all 2024.2.0-1ubuntu1 [5752 kB] 75s Get:90 http://ftpmaster.internal/ubuntu oracular/universe amd64 q2-taxa all 2024.2.0+dfsg-1ubuntu1 [40.1 kB] 75s Fetched 69.5 MB in 1s (117 MB/s) 75s Selecting previously unselected package libjs-jquery. 75s (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 ... 74422 files and directories currently installed.) 75s Preparing to unpack .../00-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 75s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 76s Selecting previously unselected package libjs-jquery-hotkeys. 76s Preparing to unpack .../01-libjs-jquery-hotkeys_0~20130707+git2d51e3a9+dfsg-2.1_all.deb ... 76s Unpacking libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ... 76s Selecting previously unselected package fonts-glyphicons-halflings. 76s Preparing to unpack .../02-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 76s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 76s Selecting previously unselected package javascript-common. 76s Preparing to unpack .../03-javascript-common_11+nmu1_all.deb ... 76s Unpacking javascript-common (11+nmu1) ... 76s Selecting previously unselected package libaec0:amd64. 76s Preparing to unpack .../04-libaec0_1.1.3-1_amd64.deb ... 76s Unpacking libaec0:amd64 (1.1.3-1) ... 76s Selecting previously unselected package libblas3:amd64. 76s Preparing to unpack .../05-libblas3_3.12.0-3build1_amd64.deb ... 76s Unpacking libblas3:amd64 (3.12.0-3build1) ... 76s Selecting previously unselected package libgfortran5:amd64. 76s Preparing to unpack .../06-libgfortran5_14.1.0-1ubuntu1_amd64.deb ... 76s Unpacking libgfortran5:amd64 (14.1.0-1ubuntu1) ... 76s Selecting previously unselected package libgomp1:amd64. 76s Preparing to unpack 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python3-colorama (0.4.6-4) ... 82s Setting up python3-public (4.1.0-1) ... 82s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 82s Setting up node-d3-scale-chromatic (1.5.0+~1.5.1-1) ... 82s Setting up python3-bcrypt (4.1.2-1) ... 82s Setting up python3-typeguard (4.1.5-1) ... 82s Setting up libyajl2:amd64 (2.1.0-5build1) ... 82s Setting up python3-itsdangerous (2.2.0-1) ... 82s Setting up python3-all (3.12.3-0ubuntu1) ... 82s Setting up python3-coverage (7.4.4+dfsg1-0ubuntu2) ... 83s Setting up node-fortawesome-fontawesome-free (6.4.2+ds1-1) ... 83s Setting up libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... 83s Setting up libgomp1:amd64 (14.1.0-1ubuntu1) ... 83s Setting up python3-click (8.1.7-1) ... 83s Setting up python3-networkx (3.2.1-4ubuntu1) ... 84s Setting up libaec0:amd64 (1.1.3-1) ... 84s Setting up python3-platformdirs (4.2.1-1) ... 84s Setting up python3-psutil (5.9.8-2build2) ... 84s Setting up python3-natsort (8.0.2-2) ... 85s Setting up python3-flufl.lock (8.1.0-1) ... 85s Setting up libpgm-5.3-0t64:amd64 (5.3.128~dfsg-2.1build1) ... 85s Setting up python3-decorator (5.1.1-5) ... 85s Setting up libblas3:amd64 (3.12.0-3build1) ... 85s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 85s Setting up python3-packaging (24.0-1) ... 85s Setting up python3-dill (0.3.8-1) ... 85s Setting up liblzf1:amd64 (3.6-4) ... 85s Setting up python3-greenlet (3.0.3-0ubuntu5) ... 85s Setting up python3-setproctitle:amd64 (1.3.3-1build2) ... 85s Setting up libgfortran5:amd64 (14.1.0-1ubuntu1) ... 85s Setting up python3-pluggy (1.5.0-1) ... 86s Setting up libxslt1.1:amd64 (1.1.39-0exp1build1) ... 86s Setting up python3-dateutil (2.9.0-2) ... 86s Setting up python3-bibtexparser (2.0.0b5+really1.4.1-1) ... 86s /usr/lib/python3/dist-packages/bibtexparser/latexenc.py:93: SyntaxWarning: invalid escape sequence '\g' 86s string = re.sub('([^{]|^)([A-Z])([^}]|$)', '\g<1>{\g<2>}\g<3>', string) 86s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 86s Setting up python3-tzlocal (5.2-1.1) ... 86s Setting up libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ... 86s Setting up python3-tomlkit (0.12.5-1) ... 86s Setting up node-normalize.css (8.0.1-5) ... 86s Setting up libssw0:amd64 (1.1-14build1) ... 86s Setting up node-thenby (1.3.4+git20200720.0fd165a+ds-5) ... 86s Setting up python3-nacl (1.5.0-4build1) ... 86s Setting up python3-globus-sdk (3.41.0-1) ... 87s Setting up libsz2:amd64 (1.1.3-1) ... 87s Setting up libjs-bootstrap (3.4.1+dfsg-3) ... 87s Setting up liblapack3:amd64 (3.12.0-3build1) ... 87s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 87s Setting up libopenblas0-pthread:amd64 (0.3.27+ds-2) ... 87s update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 87s update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 87s update-alternatives: using /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/x86_64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-x86_64-linux-gnu) in auto mode 87s Setting up libzmq5:amd64 (4.3.5-1build2) ... 87s Setting up python3-ijson (3.3.0-1) ... 87s Setting up python3-pytest (7.4.4-1) ... 87s Setting up python3-sqlalchemy (1.4.50+ds1-1build1) ... 88s Setting up python3-werkzeug (3.0.3-1) ... 88s Setting up python3-zmq (24.0.1-5build1) ... 89s Setting up libjs-jquery-metadata (12-4) ... 89s Setting up libjs-jquery-isonscreen (1.2.0-1.1) ... 89s Setting up python3-numpy (1:1.26.4+ds-10) ... 90s Setting up libjs-jquery-tablesorter (1:2.31.3+dfsg1-3) ... 90s Setting up python3-hdmedians (0.14.2-5.1build1) ... 91s Setting up libopenblas0:amd64 (0.3.27+ds-2) ... 91s Setting up python3-lxml:amd64 (5.2.1-1) ... 91s Setting up python3-paramiko (3.4.0-1ubuntu1) ... 91s Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-3.1ubuntu4) ... 91s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 91s Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-3.1ubuntu4) ... 91s Setting up python3-scipy (1.12.0-2) ... 94s Setting up python3-flask (3.0.3-1ubuntu1) ... 94s Setting up python3-pandas-lib:amd64 (2.1.4+dfsg-8) ... 94s Setting up python3-h5py-serial (3.10.0-1ubuntu3) ... 94s Setting up python3-pytest-cov (5.0.0-1) ... 94s Setting up python3-pandas (2.1.4+dfsg-8) ... 99s Setting up python3-h5py (3.10.0-1ubuntu3) ... 99s Setting up python3-flask-sqlalchemy (3.0.3-1) ... 99s Setting up q2templates (2024.5.0+ds-1) ... 99s Setting up python3-parsl (2024.05.27+ds-1) ... 100s Setting up qiime (2024.5.0-1) ... 100s Setting up python3-biom-format (2.1.16-1) ... 100s Setting up python3-skbio (0.6.1-2) ... 101s Setting up q2-types (2024.2.0-1ubuntu1) ... 101s Setting up q2-taxa (2024.2.0+dfsg-1ubuntu1) ... 101s Setting up autopkgtest-satdep (0) ... 101s Processing triggers for man-db (2.12.1-2) ... 101s Processing triggers for libc-bin (2.39-0ubuntu9) ... 105s (Reading database ... 88588 files and directories currently installed.) 105s Removing autopkgtest-satdep (0) ... 106s autopkgtest [15:37:42]: test run-unit-test: [----------------------- 106s ============================= test session starts ============================== 106s platform linux -- Python 3.12.4, pytest-7.4.4, pluggy-1.5.0 -- /usr/bin/python3.12 106s cachedir: .pytest_cache 106s rootdir: /tmp/autopkgtest.Ktc79G/autopkgtest_tmp 106s plugins: cov-5.0.0, typeguard-4.1.5 108s collecting ... collected 0 items / 3 errors 108s 108s ==================================== ERRORS ==================================== 108s ________________ ERROR collecting q2_taxa/tests/test_methods.py ________________ 108s ImportError while importing test module '/tmp/autopkgtest.Ktc79G/autopkgtest_tmp/q2_taxa/tests/test_methods.py'. 108s Hint: make sure your test modules/packages have valid Python names. 108s Traceback: 108s /usr/lib/python3.12/importlib/__init__.py:90: in import_module 108s return _bootstrap._gcd_import(name[level:], package, level) 108s q2_taxa/__init__.py:9: in 108s from ._method import collapse, filter_table, filter_seqs 108s q2_taxa/_method.py:11: in 108s import qiime2 108s E ModuleNotFoundError: No module named 'qiime2' 108s _____________ ERROR collecting q2_taxa/tests/test_plugin_setup.py ______________ 108s ImportError while importing test module '/tmp/autopkgtest.Ktc79G/autopkgtest_tmp/q2_taxa/tests/test_plugin_setup.py'. 108s Hint: make sure your test modules/packages have valid Python names. 108s Traceback: 108s /usr/lib/python3.12/importlib/__init__.py:90: in import_module 108s return _bootstrap._gcd_import(name[level:], package, level) 108s q2_taxa/__init__.py:9: in 108s from ._method import collapse, filter_table, filter_seqs 108s q2_taxa/_method.py:11: in 108s import qiime2 108s E ModuleNotFoundError: No module named 'qiime2' 108s ______________ ERROR collecting q2_taxa/tests/test_visualizer.py _______________ 108s ImportError while importing test module '/tmp/autopkgtest.Ktc79G/autopkgtest_tmp/q2_taxa/tests/test_visualizer.py'. 108s Hint: make sure your test modules/packages have valid Python names. 108s Traceback: 108s /usr/lib/python3.12/importlib/__init__.py:90: in import_module 108s return _bootstrap._gcd_import(name[level:], package, level) 108s q2_taxa/__init__.py:9: in 108s from ._method import collapse, filter_table, filter_seqs 108s q2_taxa/_method.py:11: in 108s import qiime2 108s E ModuleNotFoundError: No module named 'qiime2' 108s 108s ---------- coverage: platform linux, python 3.12.4-final-0 ----------- 108s Name Stmts Miss Cover 108s -------------------------------------------------------- 108s q2_taxa/__init__.py 6 5 17% 108s q2_taxa/_examples.py 14 14 0% 108s q2_taxa/_method.py 54 51 6% 108s q2_taxa/_util.py 27 27 0% 108s q2_taxa/_version.py 4 4 0% 108s q2_taxa/_visualizer.py 51 51 0% 108s q2_taxa/plugin_setup.py 11 11 0% 108s q2_taxa/tests/__init__.py 0 0 100% 108s q2_taxa/tests/test_methods.py 436 436 0% 108s q2_taxa/tests/test_plugin_setup.py 7 7 0% 108s q2_taxa/tests/test_visualizer.py 61 61 0% 108s -------------------------------------------------------- 108s TOTAL 671 667 1% 108s 108s =========================== short test summary info ============================ 108s ERROR q2_taxa/tests/test_methods.py 108s ERROR q2_taxa/tests/test_plugin_setup.py 108s ERROR q2_taxa/tests/test_visualizer.py 108s !!!!!!!!!!!!!!!!!!! Interrupted: 3 errors during collection !!!!!!!!!!!!!!!!!!!! 108s ============================== 3 errors in 1.67s =============================== 108s autopkgtest [15:37:44]: test run-unit-test: -----------------------] 108s autopkgtest [15:37:44]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 108s run-unit-test FAIL non-zero exit status 2 109s autopkgtest [15:37:45]: @@@@@@@@@@@@@@@@@@@@ summary 109s run-unit-test FAIL non-zero exit status 2 118s nova [W] Skipping flock for amd64 118s Creating nova instance adt-oracular-amd64-q2-taxa-20240630-153556-juju-7f2275-prod-proposed-migration-environment-3-b1561bb5-47b2-405f-867f-1a20362cd7bd from image adt/ubuntu-oracular-amd64-server-20240630.img (UUID c5a963fc-3b4c-4041-acc7-a2805897a3dc)...