0s autopkgtest [21:37:01]: starting date and time: 2024-03-20 21:37:01+0000 0s autopkgtest [21:37:01]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [21:37:01]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.lheapg8v/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:pytest --apt-upgrade python-gffutils --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=pytest/8.0.2-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos01-ppc64el-7.secgroup --name adt-noble-ppc64el-python-gffutils-20240320-213700-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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://us.ports.ubuntu.com/ubuntu-ports/ 257s autopkgtest [21:41:18]: testbed dpkg architecture: ppc64el 257s autopkgtest [21:41:18]: testbed apt version: 2.7.12 257s autopkgtest [21:41:18]: @@@@@@@@@@@@@@@@@@@@ test bed setup 258s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 259s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 259s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3811 kB] 266s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [53.9 kB] 266s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [500 kB] 266s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [684 kB] 266s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 266s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 266s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 266s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4161 kB] 266s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 266s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [58.6 kB] 266s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 266s Fetched 9406 kB in 4s (2324 kB/s) 266s Reading package lists... 268s Reading package lists... 269s Building dependency tree... 269s Reading state information... 269s Calculating upgrade... 269s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 269s Reading package lists... 277s Building dependency tree... 277s sh: Attempting to set up Debian/Ubuntu apt sources automatically 277s Reading state information... 277s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 277s Reading package lists... 277s Building dependency tree... 277s Reading state information... 277s eatmydata is already the newest version (131-1). 277s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 277s Reading package lists... 277s Building dependency tree... 277s Reading state information... 277s dbus is already the newest version (1.14.10-4ubuntu1). 277s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 277s Reading package lists... 277s Building dependency tree... 277s Reading state information... 277s rng-tools-debian is already the newest version (2.4). 277s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 277s Reading package lists... 277s Building dependency tree... 277s Reading state information... 277s The following packages will be REMOVED: 277s cloud-init* python3-configobj* python3-debconf* 277s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 277s After this operation, 3252 kB disk space will be freed. 277s (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.) 277s Removing cloud-init (24.1.1-0ubuntu1) ... 277s Removing python3-configobj (5.0.8-3) ... 277s Removing python3-debconf (1.5.86) ... 277s Processing triggers for man-db (2.12.0-3) ... 277s (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 ... 69706 files and directories currently installed.) 277s Purging configuration files for cloud-init (24.1.1-0ubuntu1) ... 277s sh: Distribution appears to be Ubuntu 277s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 277s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 277s invoke-rc.d: policy-rc.d denied execution of try-restart. 277s Reading package lists... 278s Building dependency tree... 278s Reading state information... 278s linux-generic is already the newest version (6.8.0-11.11+1). 278s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 278s Get:1 http://ftpmaster.internal/ubuntu noble InRelease [255 kB] 279s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 279s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 279s Get:4 http://ftpmaster.internal/ubuntu noble/universe Sources [19.8 MB] 281s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el Packages [14.9 MB] 288s Fetched 35.0 MB in 8s (4420 kB/s) 291s Reading package lists... 291s Reading package lists...autopkgtest [21:41:52]: rebooting testbed after setup commands that affected boot 291s 291s Building dependency tree... 291s Reading state information... 291s Calculating upgrade... 291s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 291s Reading package lists... 291s Building dependency tree... 291s Reading state information... 291s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 457s autopkgtest [21:44:37]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 460s autopkgtest [21:44:41]: @@@@@@@@@@@@@@@@@@@@ apt-source python-gffutils 466s Get:1 http://ftpmaster.internal/ubuntu noble/universe python-gffutils 0.12-2 (dsc) [1748 B] 466s Get:2 http://ftpmaster.internal/ubuntu noble/universe python-gffutils 0.12-2 (tar) [1556 kB] 466s Get:3 http://ftpmaster.internal/ubuntu noble/universe python-gffutils 0.12-2 (diff) [5360 B] 466s gpgv: Signature made Sun Nov 5 01:04:40 2023 UTC 466s gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA 466s gpgv: issuer "nilesh@debian.org" 466s gpgv: Can't check signature: No public key 466s dpkg-source: warning: cannot verify inline signature for ./python-gffutils_0.12-2.dsc: no acceptable signature found 466s autopkgtest [21:44:45]: testing package python-gffutils version 0.12-2 466s autopkgtest [21:44:47]: build not needed 467s autopkgtest [21:44:48]: test run-unit-test: preparing testbed 474s Reading package lists... 474s Building dependency tree... 474s Reading state information... 474s Starting pkgProblemResolver with broken count: 0 475s Starting 2 pkgProblemResolver with broken count: 0 475s Done 475s The following additional packages will be installed: 475s fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono 475s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 475s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 475s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 475s libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 475s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python3-argcomplete 475s python3-argh python3-biopython python3-cairo python3-freetype 475s python3-gffutils python3-importlib-metadata python3-iniconfig 475s python3-more-itertools python3-numpy python3-packaging python3-pil 475s python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 475s python3-rlpycairo python3-simplejson python3-zipp sgml-base w3c-sgml-lib 475s x11-common xfonts-encodings xfonts-utils xml-core 475s Suggested packages: 475s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 475s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 475s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 475s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 475s gcc gfortran python3-dev python-pil-doc pdf-viewer 475s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 475s sgml-base-doc debhelper 475s Recommended packages: 475s python-biopython-doc ncbi-blast+ python3-pybedtools python3-olefile 475s The following NEW packages will be installed: 475s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-extra 475s fonts-dejavu-mono fonts-urw-base35 libblas3 libcairo2 libdeflate0 475s libfontconfig1 libfontenc1 libgfortran5 libgomp1 libgraphite2-3 475s libharfbuzz0b libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 475s liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 475s libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 475s libxrender1 python3-argcomplete python3-argh python3-biopython python3-cairo 475s python3-freetype python3-gffutils python3-importlib-metadata 475s python3-iniconfig python3-more-itertools python3-numpy python3-packaging 475s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 475s python3-rlpycairo python3-simplejson python3-zipp sgml-base w3c-sgml-lib 475s x11-common xfonts-encodings xfonts-utils xml-core 475s 0 upgraded, 58 newly installed, 0 to remove and 0 not upgraded. 475s Need to get 33.3 MB/33.3 MB of archives. 475s After this operation, 124 MB of additional disk space will be used. 475s Get:1 /tmp/autopkgtest.zWWXnK/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [716 B] 475s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el sgml-base all 1.31 [11.4 kB] 475s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] 476s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] 476s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontenc1 ppc64el 1:1.1.8-1 [15.7 kB] 476s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el x11-common all 1:7.7+23ubuntu2 [23.4 kB] 476s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 476s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el xfonts-utils ppc64el 1:7.7+6build2 [112 kB] 476s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-urw-base35 all 20200910-8 [11.0 MB] 480s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig-config ppc64el 2.15.0-1ubuntu1 [37.0 kB] 480s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-extra all 2.37-8 [1947 kB] 480s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 480s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontconfig1 ppc64el 2.15.0-1ubuntu1 [190 kB] 480s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el libpixman-1-0 ppc64el 0.42.2-1 [300 kB] 480s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-render0 ppc64el 1.15-1 [17.2 kB] 480s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-shm0 ppc64el 1.15-1 [5896 B] 480s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1 [23.3 kB] 480s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el libcairo2 ppc64el 1.18.0-1 [735 kB] 480s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] 480s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB] 480s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240303-1ubuntu1 [161 kB] 480s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el libgraphite2-3 ppc64el 1.3.14-2 [105 kB] 480s Get:23 http://ftpmaster.internal/ubuntu noble/main ppc64el libharfbuzz0b ppc64el 8.3.0-2 [576 kB] 480s Get:24 http://ftpmaster.internal/ubuntu noble/main ppc64el libimagequant0 ppc64el 2.18.0-1 [42.5 kB] 480s Get:25 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-2ubuntu1 [212 kB] 480s Get:26 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 480s Get:27 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 480s Get:28 http://ftpmaster.internal/ubuntu noble/main ppc64el liblcms2-2 ppc64el 2.14-2 [243 kB] 480s Get:29 http://ftpmaster.internal/ubuntu noble/main ppc64el liblerc4 ppc64el 4.0.0+ds-4ubuntu1 [266 kB] 480s Get:30 http://ftpmaster.internal/ubuntu noble/main ppc64el libraqm0 ppc64el 0.10.1-1 [18.9 kB] 480s Get:31 http://ftpmaster.internal/ubuntu noble/main ppc64el libsharpyuv0 ppc64el 1.3.2-0.4 [28.7 kB] 480s Get:32 http://ftpmaster.internal/ubuntu noble/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu1 [34.7 kB] 480s Get:33 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebp7 ppc64el 1.3.2-0.4 [312 kB] 480s Get:34 http://ftpmaster.internal/ubuntu noble/main ppc64el libtiff6 ppc64el 4.5.1+git230720-3ubuntu1 [323 kB] 480s Get:35 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebpdemux2 ppc64el 1.3.2-0.4 [14.4 kB] 480s Get:36 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebpmux3 ppc64el 1.3.2-0.4 [31.2 kB] 480s Get:37 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-argcomplete all 3.1.4-1 [33.5 kB] 480s Get:38 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB] 480s Get:39 http://ftpmaster.internal/ubuntu noble/main ppc64el libopenjp2-7 ppc64el 2.5.0-2 [233 kB] 480s Get:40 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-pil ppc64el 10.2.0-1 [526 kB] 480s Get:41 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-cairo ppc64el 1.25.1-2 [162 kB] 480s Get:42 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-freetype all 2.4.0-1 [83.1 kB] 480s Get:43 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-rlpycairo all 0.3.0-3 [9130 B] 480s Get:44 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-reportlab all 4.1.0-1 [683 kB] 480s Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el xml-core all 0.19 [20.3 kB] 480s Get:46 http://ftpmaster.internal/ubuntu noble/universe ppc64el w3c-sgml-lib all 1.3-3 [280 kB] 480s Get:47 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-biopython ppc64el 1.81+dfsg-3 [1738 kB] 480s Get:48 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-argh all 0.31.2-1 [26.9 kB] 480s Get:49 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-more-itertools all 10.2.0-1 [52.9 kB] 480s Get:50 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-zipp all 1.0.0-6 [6090 B] 480s Get:51 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-importlib-metadata all 4.12.0-1 [17.8 kB] 480s Get:52 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pyfaidx all 0.8.1.1-1 [29.6 kB] 480s Get:53 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-simplejson ppc64el 3.19.2-1build1 [70.4 kB] 480s Get:54 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-gffutils all 0.12-2 [1078 kB] 480s Get:55 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-iniconfig all 1.1.1-2 [6024 B] 480s Get:56 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-packaging all 23.2-1 [40.6 kB] 480s Get:57 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pluggy all 1.4.0-1 [20.4 kB] 480s Get:58 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pytest all 7.4.4-1 [305 kB] 481s Fetched 33.3 MB in 5s (6484 kB/s) 481s Selecting previously unselected package sgml-base. 481s (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 ... 69651 files and directories currently installed.) 481s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 481s Unpacking sgml-base (1.31) ... 481s Selecting previously unselected package fonts-dejavu-mono. 481s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 481s Unpacking fonts-dejavu-mono (2.37-8) ... 481s Selecting previously unselected package fonts-dejavu-core. 481s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 481s Unpacking fonts-dejavu-core (2.37-8) ... 481s Selecting previously unselected package libfontenc1:ppc64el. 481s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1_ppc64el.deb ... 481s Unpacking libfontenc1:ppc64el (1:1.1.8-1) ... 481s Selecting previously unselected package x11-common. 481s Preparing to unpack .../04-x11-common_1%3a7.7+23ubuntu2_all.deb ... 481s Unpacking x11-common (1:7.7+23ubuntu2) ... 481s Selecting previously unselected package xfonts-encodings. 481s Preparing to unpack .../05-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 481s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 481s Selecting previously unselected package xfonts-utils. 481s Preparing to unpack .../06-xfonts-utils_1%3a7.7+6build2_ppc64el.deb ... 481s Unpacking xfonts-utils (1:7.7+6build2) ... 481s Selecting previously unselected package fonts-urw-base35. 481s Preparing to unpack .../07-fonts-urw-base35_20200910-8_all.deb ... 481s Unpacking fonts-urw-base35 (20200910-8) ... 481s Selecting previously unselected package fontconfig-config. 481s Preparing to unpack .../08-fontconfig-config_2.15.0-1ubuntu1_ppc64el.deb ... 481s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 481s Selecting previously unselected package fonts-dejavu-extra. 481s Preparing to unpack .../09-fonts-dejavu-extra_2.37-8_all.deb ... 481s Unpacking fonts-dejavu-extra (2.37-8) ... 481s Selecting previously unselected package libblas3:ppc64el. 481s Preparing to unpack .../10-libblas3_3.12.0-3_ppc64el.deb ... 481s Unpacking libblas3:ppc64el (3.12.0-3) ... 481s Selecting previously unselected package libfontconfig1:ppc64el. 481s Preparing to unpack .../11-libfontconfig1_2.15.0-1ubuntu1_ppc64el.deb ... 481s Unpacking libfontconfig1:ppc64el (2.15.0-1ubuntu1) ... 481s Selecting previously unselected package libpixman-1-0:ppc64el. 481s Preparing to unpack .../12-libpixman-1-0_0.42.2-1_ppc64el.deb ... 481s Unpacking libpixman-1-0:ppc64el (0.42.2-1) ... 482s Selecting previously unselected package libxcb-render0:ppc64el. 482s Preparing to unpack .../13-libxcb-render0_1.15-1_ppc64el.deb ... 482s Unpacking libxcb-render0:ppc64el (1.15-1) ... 482s Selecting previously unselected package libxcb-shm0:ppc64el. 482s Preparing to unpack .../14-libxcb-shm0_1.15-1_ppc64el.deb ... 482s Unpacking libxcb-shm0:ppc64el (1.15-1) ... 482s Selecting previously unselected package libxrender1:ppc64el. 482s Preparing to unpack .../15-libxrender1_1%3a0.9.10-1.1_ppc64el.deb ... 482s Unpacking libxrender1:ppc64el (1:0.9.10-1.1) ... 482s Selecting previously unselected package libcairo2:ppc64el. 482s Preparing to unpack .../16-libcairo2_1.18.0-1_ppc64el.deb ... 482s Unpacking libcairo2:ppc64el (1.18.0-1) ... 482s Selecting previously unselected package libdeflate0:ppc64el. 482s Preparing to unpack .../17-libdeflate0_1.19-1_ppc64el.deb ... 482s Unpacking libdeflate0:ppc64el (1.19-1) ... 482s Selecting previously unselected package libgfortran5:ppc64el. 482s Preparing to unpack .../18-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ... 482s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 482s Selecting previously unselected package libgomp1:ppc64el. 482s Preparing to unpack .../19-libgomp1_14-20240303-1ubuntu1_ppc64el.deb ... 482s Unpacking libgomp1:ppc64el (14-20240303-1ubuntu1) ... 482s Selecting previously unselected package libgraphite2-3:ppc64el. 482s Preparing to unpack .../20-libgraphite2-3_1.3.14-2_ppc64el.deb ... 482s Unpacking libgraphite2-3:ppc64el (1.3.14-2) ... 482s Selecting previously unselected package libharfbuzz0b:ppc64el. 482s Preparing to unpack .../21-libharfbuzz0b_8.3.0-2_ppc64el.deb ... 482s Unpacking libharfbuzz0b:ppc64el (8.3.0-2) ... 482s Selecting previously unselected package libimagequant0:ppc64el. 482s Preparing to unpack .../22-libimagequant0_2.18.0-1_ppc64el.deb ... 482s Unpacking libimagequant0:ppc64el (2.18.0-1) ... 482s Selecting previously unselected package libjpeg-turbo8:ppc64el. 482s Preparing to unpack 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libraqm0:ppc64el (0.10.1-1) ... 482s Selecting previously unselected package libsharpyuv0:ppc64el. 482s Preparing to unpack .../29-libsharpyuv0_1.3.2-0.4_ppc64el.deb ... 482s Unpacking libsharpyuv0:ppc64el (1.3.2-0.4) ... 482s Selecting previously unselected package libjbig0:ppc64el. 482s Preparing to unpack .../30-libjbig0_2.1-6.1ubuntu1_ppc64el.deb ... 482s Unpacking libjbig0:ppc64el (2.1-6.1ubuntu1) ... 482s Selecting previously unselected package libwebp7:ppc64el. 482s Preparing to unpack .../31-libwebp7_1.3.2-0.4_ppc64el.deb ... 482s Unpacking libwebp7:ppc64el (1.3.2-0.4) ... 482s Selecting previously unselected package libtiff6:ppc64el. 482s Preparing to unpack .../32-libtiff6_4.5.1+git230720-3ubuntu1_ppc64el.deb ... 482s Unpacking libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 482s Selecting previously unselected package libwebpdemux2:ppc64el. 482s Preparing to unpack .../33-libwebpdemux2_1.3.2-0.4_ppc64el.deb ... 482s Unpacking libwebpdemux2:ppc64el (1.3.2-0.4) ... 482s 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unpack .../39-python3-cairo_1.25.1-2_ppc64el.deb ... 483s Unpacking python3-cairo (1.25.1-2) ... 483s Selecting previously unselected package python3-freetype. 483s Preparing to unpack .../40-python3-freetype_2.4.0-1_all.deb ... 483s Unpacking python3-freetype (2.4.0-1) ... 483s Selecting previously unselected package python3-rlpycairo. 483s Preparing to unpack .../41-python3-rlpycairo_0.3.0-3_all.deb ... 483s Unpacking python3-rlpycairo (0.3.0-3) ... 483s Selecting previously unselected package python3-reportlab. 483s Preparing to unpack .../42-python3-reportlab_4.1.0-1_all.deb ... 483s Unpacking python3-reportlab (4.1.0-1) ... 483s Selecting previously unselected package xml-core. 483s Preparing to unpack .../43-xml-core_0.19_all.deb ... 483s Unpacking xml-core (0.19) ... 483s Selecting previously unselected package w3c-sgml-lib. 483s Preparing to unpack .../44-w3c-sgml-lib_1.3-3_all.deb ... 483s Unpacking w3c-sgml-lib (1.3-3) ... 483s Selecting previously unselected package 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libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 488s Setting up xml-core (0.19) ... 488s Setting up libfontconfig1:ppc64el (2.15.0-1ubuntu1) ... 488s Setting up python3-pyfaidx (0.8.1.1-1) ... 489s Setting up fonts-urw-base35 (20200910-8) ... 489s Setting up libcairo2:ppc64el (1.18.0-1) ... 489s Setting up python3-pil:ppc64el (10.2.0-1) ... 489s Setting up python3-cairo (1.25.1-2) ... 489s Setting up python3-rlpycairo (0.3.0-3) ... 490s Setting up python3-reportlab (4.1.0-1) ... 491s Processing triggers for libc-bin (2.39-0ubuntu2) ... 491s Processing triggers for man-db (2.12.0-3) ... 492s Processing triggers for sgml-base (1.31) ... 492s Setting up w3c-sgml-lib (1.3-3) ... 523s Setting up python3-biopython (1.81+dfsg-3) ... 524s Setting up python3-gffutils (0.12-2) ... 524s Setting up autopkgtest-satdep (0) ... 528s (Reading database ... 73323 files and directories currently installed.) 528s Removing autopkgtest-satdep (0) ... 529s autopkgtest [21:45:50]: test run-unit-test: [----------------------- 529s + pkg=python-gffutils 529s + [ /tmp/autopkgtest.zWWXnK/autopkgtest_tmp = ] 529s + cd /tmp/autopkgtest.zWWXnK/autopkgtest_tmp 529s + export HOME=/tmp/autopkgtest.zWWXnK/autopkgtest_tmp 529s + cp -r /usr/lib/python3/dist-packages/gffutils/test ./ 529s + pytest --doctest-modules -m not slow test 530s ============================= test session starts ============================== 530s platform linux -- Python 3.12.2, pytest-7.4.4, pluggy-1.4.0 530s rootdir: /tmp/autopkgtest.zWWXnK/autopkgtest_tmp 530s collected 110 items 530s 530s test/feature_test.py ........... [ 10%] 530s test/helpers_test.py .. [ 11%] 530s test/parser_test.py .................. [ 28%] 531s test/test_1.py ...........x..........s............ [ 60%] 531s test/test_biopython_integration.py . [ 60%] 531s test/test_issues.py ........................ [ 82%] 531s test/test_iterators.py .... [ 86%] 531s test/test_merge.py ......... [ 94%] 531s test/test_merge_all.py ...... [100%] 531s 531s =============================== warnings summary =============================== 531s test/performance_evaluation.py:190 531s /tmp/autopkgtest.zWWXnK/autopkgtest_tmp/test/performance_evaluation.py:190: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html 531s @pytest.mark.slow 531s 531s test/performance_evaluation.py:208 531s /tmp/autopkgtest.zWWXnK/autopkgtest_tmp/test/performance_evaluation.py:208: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html 531s @pytest.mark.slow 531s 531s test/test_1.py:486 531s test/test_1.py:486: PytestCollectionWarning: yield tests were removed in pytest 4.0 - test_region will be ignored 531s def test_region(): 531s 531s test/parser_test.py::test_parser_from_string 531s /usr/lib/python3/dist-packages/_pytest/python.py:198: PytestReturnNotNoneWarning: Expected None, but test/parser_test.py::test_parser_from_string returned True, which will be an error in a future version of pytest. Did you mean to use `assert` instead of `return`? 531s warnings.warn( 531s 531s test/parser_test.py::test_inconsistent_dialect 531s test/test_1.py::test_disable_infer 531s test/test_issues.py::test_pr_172 531s /usr/lib/python3/dist-packages/gffutils/create.py:770: UserWarning: It appears you have a gene feature in your GTF file. You may want to use the `disable_infer_genes=True` option to speed up database creation 531s warnings.warn( 531s 531s test/test_1.py::TestGFFClass::test_parents_level_1 531s /usr/lib/python3/dist-packages/_pytest/fixtures.py:895: PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release. 531s test/test_1.py::TestGFFClass::test_parents_level_1 is using nose-specific method: `setup(self)` 531s To remove this warning, rename it to `setup_method(self)` 531s See docs: https://docs.pytest.org/en/stable/deprecations.html#support-for-tests-written-for-nose 531s fixture_result = next(generator) 531s 531s test/test_1.py::TestGFFClass::test_parents_level_2 531s /usr/lib/python3/dist-packages/_pytest/fixtures.py:895: PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release. 531s test/test_1.py::TestGFFClass::test_parents_level_2 is using nose-specific method: `setup(self)` 531s To remove this warning, rename it to `setup_method(self)` 531s See docs: https://docs.pytest.org/en/stable/deprecations.html#support-for-tests-written-for-nose 531s fixture_result = next(generator) 531s 531s test/test_1.py::TestGFFClass::test_bed12 531s /usr/lib/python3/dist-packages/_pytest/fixtures.py:895: PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release. 531s test/test_1.py::TestGFFClass::test_bed12 is using nose-specific method: `setup(self)` 531s To remove this warning, rename it to `setup_method(self)` 531s See docs: https://docs.pytest.org/en/stable/deprecations.html#support-for-tests-written-for-nose 531s fixture_result = next(generator) 531s 531s test/test_1.py::TestGTFClass::test_parents_level_1 531s /usr/lib/python3/dist-packages/_pytest/fixtures.py:895: PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release. 531s test/test_1.py::TestGTFClass::test_parents_level_1 is using nose-specific method: `setup(self)` 531s To remove this warning, rename it to `setup_method(self)` 531s See docs: https://docs.pytest.org/en/stable/deprecations.html#support-for-tests-written-for-nose 531s fixture_result = next(generator) 531s 531s test/test_1.py::TestGTFClass::test_parents_level_2 531s /usr/lib/python3/dist-packages/_pytest/fixtures.py:895: PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release. 531s test/test_1.py::TestGTFClass::test_parents_level_2 is using nose-specific method: `setup(self)` 531s To remove this warning, rename it to `setup_method(self)` 531s See docs: https://docs.pytest.org/en/stable/deprecations.html#support-for-tests-written-for-nose 531s fixture_result = next(generator) 531s 531s test/test_1.py::TestGTFClass::test_bed12 531s /usr/lib/python3/dist-packages/_pytest/fixtures.py:895: PytestRemovedIn8Warning: Support for nose tests is deprecated and will be removed in a future release. 531s test/test_1.py::TestGTFClass::test_bed12 is using nose-specific method: `setup(self)` 531s To remove this warning, rename it to `setup_method(self)` 531s See docs: https://docs.pytest.org/en/stable/deprecations.html#support-for-tests-written-for-nose 531s fixture_result = next(generator) 531s 531s test/test_1.py::test_disable_infer 531s /usr/lib/python3/dist-packages/gffutils/create.py:763: UserWarning: It appears you have a transcript feature in your GTF file. You may want to use the `disable_infer_transcripts=True` option to speed up database creation 531s warnings.warn( 531s 531s test/test_biopython_integration.py::test_roundtrip 531s /usr/lib/python3/dist-packages/Bio/SeqFeature.py:257: BiopythonDeprecationWarning: Using the strand argument is deprecated, and will be removed in a future release. Please set it via the location object instead. 531s warnings.warn( 531s 531s test/test_biopython_integration.py::test_roundtrip 531s /usr/lib/python3/dist-packages/Bio/SeqFeature.py:1940: BiopythonDeprecationWarning: Alias location.position is deprecated and will be removed in a future release. Use location directly, or int(location). However, that will fail for UnknownPosition, and for OneOfPosition and WithinPosition will give the default rather than left-most value. 531s warnings.warn( 531s 531s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 531s ============ 108 passed, 1 skipped, 1 xfailed, 16 warnings in 2.08s ============ 532s autopkgtest [21:45:53]: test run-unit-test: -----------------------] 532s autopkgtest [21:45:53]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 532s run-unit-test PASS 533s autopkgtest [21:45:54]: @@@@@@@@@@@@@@@@@@@@ summary 533s run-unit-test PASS 582s Creating nova instance adt-noble-ppc64el-python-gffutils-20240320-213700-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240320.img (UUID 2c394bf3-261b-42bf-b2a7-4487c1d5a6ac)...