0s autopkgtest [22:55:09]: starting date: 2024-03-17 0s autopkgtest [22:55:09]: git checkout: d9c0295b adt_testbed.py: supress warnings from apt using a shell pipeline 0s autopkgtest [22:55:09]: host juju-7f2275-prod-proposed-migration-environment-4; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work._c7im_9j/out --timeout-copy=6000 --setup-commands 'ls /etc/apt/sources.list.d/*.list 2>/dev/null || true; ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:htslib,src:curl,src:gnutls28,src:libpsl,src:nettle,src:openssl --apt-upgrade python-pyfaidx --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=htslib/1.19+ds-1.1build2 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu1' -- lxd -r lxd-armhf-10.44.124.151 lxd-armhf-10.44.124.151:autopkgtest/ubuntu/noble/armhf 55s autopkgtest [22:56:04]: @@@@@@@@@@@@@@@@@@@@ test bed setup 57s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 58s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 58s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3726 kB] 59s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB] 59s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [485 kB] 60s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main armhf Packages [574 kB] 60s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf c-n-f Metadata [2492 B] 60s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted armhf Packages [1372 B] 60s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted armhf c-n-f Metadata [116 B] 60s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf Packages [3500 kB] 60s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf c-n-f Metadata [7776 B] 60s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse armhf Packages [33.8 kB] 60s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse armhf c-n-f Metadata [116 B] 70s Fetched 8505 kB in 4s (1956 kB/s) 70s Reading package lists... 85s /etc/apt/sources.list.d/proposed.list 87s tee: /proc/self/fd/2: Permission denied 118s Hit:1 http://ports.ubuntu.com/ubuntu-ports noble InRelease 118s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 118s Hit:3 http://ports.ubuntu.com/ubuntu-ports noble-updates InRelease 118s Hit:4 http://ftpmaster.internal/ubuntu noble-updates InRelease 118s Hit:5 http://ports.ubuntu.com/ubuntu-ports noble-backports InRelease 118s Hit:6 http://ftpmaster.internal/ubuntu noble-security InRelease 118s Hit:7 http://ports.ubuntu.com/ubuntu-ports noble-security InRelease 118s Hit:8 http://ftpmaster.internal/ubuntu noble-proposed InRelease 125s Reading package lists... 126s Reading package lists... 127s Building dependency tree... 127s Reading state information... 128s Calculating upgrade... 130s The following packages have been kept back: 130s curl openssl 130s 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. 130s Reading package lists... 131s Building dependency tree... 131s Reading state information... 132s 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. 135s autopkgtest [22:57:24]: rebooting testbed after setup commands that affected boot 172s autopkgtest [22:58:01]: testbed running kernel: Linux 5.4.0-173-generic #191-Ubuntu SMP Fri Feb 2 13:54:37 UTC 2024 177s autopkgtest [22:58:06]: testbed dpkg architecture: armhf 191s autopkgtest [22:58:20]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 200s Get:1 http://ftpmaster.internal/ubuntu noble/universe python-pyfaidx 0.8.1.1-1 (dsc) [2554 B] 200s Get:2 http://ftpmaster.internal/ubuntu noble/universe python-pyfaidx 0.8.1.1-1 (tar) [96.5 kB] 200s Get:3 http://ftpmaster.internal/ubuntu noble/universe python-pyfaidx 0.8.1.1-1 (diff) [6964 B] 201s gpgv: Signature made Sat Jan 20 17:44:36 2024 UTC 201s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 201s gpgv: issuer "emollier@debian.org" 201s gpgv: Can't check signature: No public key 201s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.1-1.dsc: no acceptable signature found 202s autopkgtest [22:58:31]: testing package python-pyfaidx version 0.8.1.1-1 202s autopkgtest [22:58:31]: build not needed 206s autopkgtest [22:58:35]: test run-unit-test: preparing testbed 220s Reading package lists... 221s Building dependency tree... 221s Reading state information... 222s Correcting dependencies...Starting pkgProblemResolver with broken count: 0 222s Starting 2 pkgProblemResolver with broken count: 0 222s Done 224s Done 224s Starting pkgProblemResolver with broken count: 0 225s Starting 2 pkgProblemResolver with broken count: 0 225s Done 226s The following additional packages will be installed: 226s fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono 226s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 226s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 226s libhtscodecs2 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 226s liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 226s libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 226s libxrender1 python-pyfaidx-examples python3-all python3-biopython 226s python3-cairo python3-freetype python3-importlib-metadata python3-iniconfig 226s python3-more-itertools python3-numpy python3-packaging python3-pil 226s python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 226s python3-rlpycairo python3-zipp sgml-base tabix w3c-sgml-lib x11-common 226s xfonts-encodings xfonts-utils xml-core 226s Suggested packages: 226s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 226s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 226s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 226s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 226s gcc gfortran python3-dev python-pil-doc pdf-viewer 226s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 226s sgml-base-doc debhelper 226s Recommended packages: 226s python-biopython-doc ncbi-blast+ python3-olefile 227s The following NEW packages will be installed: 227s fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono 227s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 227s libfreetype6 libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 227s libhtscodecs2 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 227s liblcms2-2 liblerc4 libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 227s libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 227s libxrender1 python-pyfaidx-examples python3-all python3-biopython 227s python3-cairo python3-freetype python3-importlib-metadata python3-iniconfig 227s python3-more-itertools python3-numpy python3-packaging python3-pil 227s python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 227s python3-rlpycairo python3-zipp sgml-base tabix w3c-sgml-lib x11-common 227s xfonts-encodings xfonts-utils xml-core 227s 0 upgraded, 58 newly installed, 0 to remove and 2 not upgraded. 227s 1 not fully installed or removed. 227s Need to get 29.2 MB of archives. 227s After this operation, 88.0 MB of additional disk space will be used. 227s Get:1 http://ftpmaster.internal/ubuntu noble/main armhf python3-more-itertools all 10.2.0-1 [52.9 kB] 227s Get:2 http://ftpmaster.internal/ubuntu noble/main armhf python3-zipp all 1.0.0-6 [6090 B] 227s Get:3 http://ftpmaster.internal/ubuntu noble/main armhf python3-importlib-metadata all 4.12.0-1 [17.8 kB] 227s Get:4 http://ftpmaster.internal/ubuntu noble/universe armhf python3-pyfaidx all 0.8.1.1-1 [29.6 kB] 227s Get:5 http://ftpmaster.internal/ubuntu noble/universe armhf python-pyfaidx-examples all 0.8.1.1-1 [37.9 kB] 227s Get:6 http://ftpmaster.internal/ubuntu noble/main armhf python3-all armhf 3.12.1-0ubuntu2 [906 B] 227s Get:7 http://ftpmaster.internal/ubuntu noble/universe armhf python3-iniconfig all 1.1.1-2 [6024 B] 227s Get:8 http://ftpmaster.internal/ubuntu noble/main armhf python3-packaging all 23.2-1 [40.6 kB] 227s Get:9 http://ftpmaster.internal/ubuntu noble/universe armhf python3-pluggy all 1.4.0-1 [20.4 kB] 227s Get:10 http://ftpmaster.internal/ubuntu noble/universe armhf python3-pytest all 7.4.4-1 [305 kB] 228s Get:11 http://ftpmaster.internal/ubuntu noble/main armhf libblas3 armhf 3.12.0-3 [123 kB] 228s Get:12 http://ftpmaster.internal/ubuntu noble/main armhf libgfortran5 armhf 14-20240303-1ubuntu1 [316 kB] 228s Get:13 http://ftpmaster.internal/ubuntu noble/main armhf liblapack3 armhf 3.12.0-3 [2085 kB] 229s Get:14 http://ftpmaster.internal/ubuntu noble/main armhf python3-numpy armhf 1:1.24.2-2 [4410 kB] 230s Get:15 http://ftpmaster.internal/ubuntu noble/main armhf libfreetype6 armhf 2.13.2+dfsg-1 [331 kB] 230s Get:16 http://ftpmaster.internal/ubuntu noble/main armhf libgomp1 armhf 14-20240303-1ubuntu1 [125 kB] 230s Get:17 http://ftpmaster.internal/ubuntu noble/main armhf libimagequant0 armhf 2.18.0-1 [31.2 kB] 230s Get:18 http://ftpmaster.internal/ubuntu noble/main armhf libjpeg-turbo8 armhf 2.1.5-2ubuntu1 [123 kB] 230s Get:19 http://ftpmaster.internal/ubuntu noble/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] 230s Get:20 http://ftpmaster.internal/ubuntu noble/main armhf liblcms2-2 armhf 2.14-2 [134 kB] 230s Get:21 http://ftpmaster.internal/ubuntu noble/main armhf libopenjp2-7 armhf 2.5.0-2 [160 kB] 230s Get:22 http://ftpmaster.internal/ubuntu noble/main armhf libgraphite2-3 armhf 1.3.14-2 [72.7 kB] 230s Get:23 http://ftpmaster.internal/ubuntu noble/main armhf libharfbuzz0b armhf 8.3.0-2 [446 kB] 230s Get:24 http://ftpmaster.internal/ubuntu noble/main armhf libraqm0 armhf 0.10.1-1 [12.2 kB] 230s Get:25 http://ftpmaster.internal/ubuntu noble/main armhf libdeflate0 armhf 1.19-1 [41.3 kB] 230s Get:26 http://ftpmaster.internal/ubuntu noble/main armhf libjbig0 armhf 2.1-6.1ubuntu1 [24.9 kB] 230s Get:27 http://ftpmaster.internal/ubuntu noble/main armhf liblerc4 armhf 4.0.0+ds-4ubuntu1 [152 kB] 230s Get:28 http://ftpmaster.internal/ubuntu noble/main armhf libsharpyuv0 armhf 1.3.2-0.4 [13.4 kB] 230s Get:29 http://ftpmaster.internal/ubuntu noble/main armhf libwebp7 armhf 1.3.2-0.4 [183 kB] 230s Get:30 http://ftpmaster.internal/ubuntu noble/main armhf libtiff6 armhf 4.5.1+git230720-3ubuntu1 [201 kB] 230s Get:31 http://ftpmaster.internal/ubuntu noble/main armhf libwebpdemux2 armhf 1.3.2-0.4 [11.8 kB] 230s Get:32 http://ftpmaster.internal/ubuntu noble/main armhf libwebpmux3 armhf 1.3.2-0.4 [22.4 kB] 230s Get:33 http://ftpmaster.internal/ubuntu noble/main armhf python3-pil armhf 10.2.0-1 [447 kB] 230s Get:34 http://ftpmaster.internal/ubuntu noble/main armhf fonts-dejavu-mono all 2.37-8 [502 kB] 230s Get:35 http://ftpmaster.internal/ubuntu noble/main armhf fonts-dejavu-core all 2.37-8 [835 kB] 230s Get:36 http://ftpmaster.internal/ubuntu noble/main armhf libfontenc1 armhf 1:1.1.8-1 [11.5 kB] 230s Get:37 http://ftpmaster.internal/ubuntu noble/main armhf x11-common all 1:7.7+23ubuntu2 [23.4 kB] 230s Get:38 http://ftpmaster.internal/ubuntu noble/main armhf xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 231s Get:39 http://ftpmaster.internal/ubuntu noble/main armhf xfonts-utils armhf 1:7.7+6build2 [89.8 kB] 231s Get:40 http://ftpmaster.internal/ubuntu noble/main armhf fonts-urw-base35 all 20200910-8 [11.0 MB] 231s Get:41 http://ftpmaster.internal/ubuntu noble/main armhf fontconfig-config armhf 2.15.0-1ubuntu1 [37.0 kB] 231s Get:42 http://ftpmaster.internal/ubuntu noble/main armhf libfontconfig1 armhf 2.15.0-1ubuntu1 [113 kB] 231s Get:43 http://ftpmaster.internal/ubuntu noble/main armhf libpixman-1-0 armhf 0.42.2-1 [184 kB] 231s Get:44 http://ftpmaster.internal/ubuntu noble/main armhf libxcb-render0 armhf 1.15-1 [15.2 kB] 231s Get:45 http://ftpmaster.internal/ubuntu noble/main armhf libxcb-shm0 armhf 1.15-1 [5852 B] 231s Get:46 http://ftpmaster.internal/ubuntu noble/main armhf libxrender1 armhf 1:0.9.10-1.1 [16.5 kB] 231s Get:47 http://ftpmaster.internal/ubuntu noble/main armhf libcairo2 armhf 1.18.0-1 [481 kB] 232s Get:48 http://ftpmaster.internal/ubuntu noble/main armhf python3-cairo armhf 1.25.1-2 [141 kB] 232s Get:49 http://ftpmaster.internal/ubuntu noble/universe armhf python3-freetype all 2.4.0-1 [83.1 kB] 232s Get:50 http://ftpmaster.internal/ubuntu noble/universe armhf python3-rlpycairo all 0.3.0-3 [9130 B] 232s Get:51 http://ftpmaster.internal/ubuntu noble/main armhf fonts-dejavu-extra all 2.37-8 [1947 kB] 232s Get:52 http://ftpmaster.internal/ubuntu noble/universe armhf python3-reportlab all 4.1.0-1 [683 kB] 232s Get:53 http://ftpmaster.internal/ubuntu noble/main armhf sgml-base all 1.31 [11.4 kB] 232s Get:54 http://ftpmaster.internal/ubuntu noble/main armhf xml-core all 0.19 [20.3 kB] 232s Get:55 http://ftpmaster.internal/ubuntu noble/universe armhf w3c-sgml-lib all 1.3-3 [280 kB] 232s Get:56 http://ftpmaster.internal/ubuntu noble/universe armhf python3-biopython armhf 1.81+dfsg-3 [1642 kB] 232s Get:57 http://ftpmaster.internal/ubuntu noble/universe armhf libhtscodecs2 armhf 1.6.0-1 [65.9 kB] 232s Get:58 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf tabix armhf 1.19+ds-1.1build2 [428 kB] 234s Fetched 29.2 MB in 5s (5645 kB/s) 234s Selecting previously unselected package python3-more-itertools. 234s (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 ... 58620 files and directories currently installed.) 234s Preparing to unpack .../00-python3-more-itertools_10.2.0-1_all.deb ... 234s Unpacking python3-more-itertools (10.2.0-1) ... 234s Selecting previously unselected package python3-zipp. 234s Preparing to unpack .../01-python3-zipp_1.0.0-6_all.deb ... 234s Unpacking python3-zipp (1.0.0-6) ... 234s Selecting previously unselected package python3-importlib-metadata. 234s Preparing to unpack .../02-python3-importlib-metadata_4.12.0-1_all.deb ... 234s Unpacking python3-importlib-metadata (4.12.0-1) ... 235s Selecting previously unselected package python3-pyfaidx. 235s Preparing to unpack .../03-python3-pyfaidx_0.8.1.1-1_all.deb ... 235s Unpacking python3-pyfaidx (0.8.1.1-1) ... 235s Selecting previously unselected package python-pyfaidx-examples. 235s Preparing to unpack .../04-python-pyfaidx-examples_0.8.1.1-1_all.deb ... 235s Unpacking python-pyfaidx-examples (0.8.1.1-1) ... 235s Selecting previously unselected package python3-all. 235s Preparing to unpack .../05-python3-all_3.12.1-0ubuntu2_armhf.deb ... 235s Unpacking python3-all (3.12.1-0ubuntu2) ... 235s Selecting previously unselected package python3-iniconfig. 235s Preparing to unpack .../06-python3-iniconfig_1.1.1-2_all.deb ... 235s Unpacking python3-iniconfig (1.1.1-2) ... 235s Selecting previously unselected package python3-packaging. 235s Preparing to unpack .../07-python3-packaging_23.2-1_all.deb ... 235s Unpacking python3-packaging (23.2-1) ... 235s Selecting previously unselected package python3-pluggy. 235s Preparing to unpack .../08-python3-pluggy_1.4.0-1_all.deb ... 235s Unpacking python3-pluggy (1.4.0-1) ... 235s Selecting previously unselected package python3-pytest. 235s Preparing to unpack .../09-python3-pytest_7.4.4-1_all.deb ... 235s Unpacking python3-pytest (7.4.4-1) ... 236s Selecting previously unselected package libblas3:armhf. 236s Preparing to unpack .../10-libblas3_3.12.0-3_armhf.deb ... 236s Unpacking libblas3:armhf (3.12.0-3) ... 236s Selecting previously unselected package libgfortran5:armhf. 236s Preparing to unpack .../11-libgfortran5_14-20240303-1ubuntu1_armhf.deb ... 236s Unpacking libgfortran5:armhf (14-20240303-1ubuntu1) ... 236s Selecting previously unselected package liblapack3:armhf. 236s Preparing to unpack .../12-liblapack3_3.12.0-3_armhf.deb ... 236s Unpacking liblapack3:armhf (3.12.0-3) ... 236s Selecting previously unselected package python3-numpy. 236s Preparing to unpack .../13-python3-numpy_1%3a1.24.2-2_armhf.deb ... 236s Unpacking python3-numpy (1:1.24.2-2) ... 238s Selecting previously unselected package libfreetype6:armhf. 238s Preparing to unpack .../14-libfreetype6_2.13.2+dfsg-1_armhf.deb ... 238s Unpacking libfreetype6:armhf (2.13.2+dfsg-1) ... 238s Selecting previously unselected package libgomp1:armhf. 238s Preparing to unpack .../15-libgomp1_14-20240303-1ubuntu1_armhf.deb ... 238s Unpacking libgomp1:armhf (14-20240303-1ubuntu1) ... 238s Selecting previously unselected package libimagequant0:armhf. 238s Preparing to unpack .../16-libimagequant0_2.18.0-1_armhf.deb ... 238s Unpacking libimagequant0:armhf (2.18.0-1) ... 238s Selecting previously unselected package libjpeg-turbo8:armhf. 238s Preparing to unpack .../17-libjpeg-turbo8_2.1.5-2ubuntu1_armhf.deb ... 238s Unpacking libjpeg-turbo8:armhf (2.1.5-2ubuntu1) ... 238s Selecting previously unselected package libjpeg8:armhf. 238s Preparing to unpack .../18-libjpeg8_8c-2ubuntu11_armhf.deb ... 238s Unpacking libjpeg8:armhf (8c-2ubuntu11) ... 238s Selecting previously unselected package liblcms2-2:armhf. 238s Preparing to unpack .../19-liblcms2-2_2.14-2_armhf.deb ... 238s Unpacking liblcms2-2:armhf (2.14-2) ... 238s Selecting previously unselected package libopenjp2-7:armhf. 239s Preparing to unpack .../20-libopenjp2-7_2.5.0-2_armhf.deb ... 239s Unpacking libopenjp2-7:armhf (2.5.0-2) ... 239s Selecting previously unselected package libgraphite2-3:armhf. 239s Preparing to unpack .../21-libgraphite2-3_1.3.14-2_armhf.deb ... 239s Unpacking libgraphite2-3:armhf (1.3.14-2) ... 239s Selecting previously unselected package libharfbuzz0b:armhf. 239s Preparing to unpack .../22-libharfbuzz0b_8.3.0-2_armhf.deb ... 239s Unpacking libharfbuzz0b:armhf (8.3.0-2) ... 239s Selecting previously unselected package libraqm0:armhf. 239s Preparing to unpack .../23-libraqm0_0.10.1-1_armhf.deb ... 239s Unpacking libraqm0:armhf (0.10.1-1) ... 239s Selecting previously unselected package libdeflate0:armhf. 239s Preparing to unpack .../24-libdeflate0_1.19-1_armhf.deb ... 239s Unpacking libdeflate0:armhf (1.19-1) ... 239s Selecting previously unselected package libjbig0:armhf. 239s Preparing to unpack .../25-libjbig0_2.1-6.1ubuntu1_armhf.deb ... 239s Unpacking libjbig0:armhf (2.1-6.1ubuntu1) ... 239s Selecting previously unselected package liblerc4:armhf. 240s Preparing to unpack .../26-liblerc4_4.0.0+ds-4ubuntu1_armhf.deb ... 240s Unpacking liblerc4:armhf (4.0.0+ds-4ubuntu1) ... 240s Selecting previously unselected package libsharpyuv0:armhf. 240s Preparing to unpack .../27-libsharpyuv0_1.3.2-0.4_armhf.deb ... 240s Unpacking libsharpyuv0:armhf (1.3.2-0.4) ... 240s Selecting previously unselected package libwebp7:armhf. 240s Preparing to unpack .../28-libwebp7_1.3.2-0.4_armhf.deb ... 240s Unpacking libwebp7:armhf (1.3.2-0.4) ... 240s Selecting previously unselected package libtiff6:armhf. 240s Preparing to unpack .../29-libtiff6_4.5.1+git230720-3ubuntu1_armhf.deb ... 240s Unpacking libtiff6:armhf (4.5.1+git230720-3ubuntu1) ... 240s Selecting previously unselected package libwebpdemux2:armhf. 240s Preparing to unpack .../30-libwebpdemux2_1.3.2-0.4_armhf.deb ... 240s Unpacking libwebpdemux2:armhf (1.3.2-0.4) ... 240s Selecting previously unselected package libwebpmux3:armhf. 240s Preparing to unpack .../31-libwebpmux3_1.3.2-0.4_armhf.deb ... 240s Unpacking libwebpmux3:armhf (1.3.2-0.4) ... 240s Selecting previously unselected package python3-pil:armhf. 240s Preparing to unpack .../32-python3-pil_10.2.0-1_armhf.deb ... 240s Unpacking python3-pil:armhf (10.2.0-1) ... 241s Selecting previously unselected package fonts-dejavu-mono. 241s Preparing to unpack .../33-fonts-dejavu-mono_2.37-8_all.deb ... 241s Unpacking fonts-dejavu-mono (2.37-8) ... 241s Selecting previously unselected package fonts-dejavu-core. 241s Preparing to unpack .../34-fonts-dejavu-core_2.37-8_all.deb ... 241s Unpacking fonts-dejavu-core (2.37-8) ... 241s Selecting previously unselected package libfontenc1:armhf. 241s Preparing to unpack .../35-libfontenc1_1%3a1.1.8-1_armhf.deb ... 241s Unpacking libfontenc1:armhf (1:1.1.8-1) ... 241s Selecting previously unselected package x11-common. 241s Preparing to unpack .../36-x11-common_1%3a7.7+23ubuntu2_all.deb ... 241s Unpacking x11-common (1:7.7+23ubuntu2) ... 241s Selecting previously unselected package xfonts-encodings. 241s Preparing to unpack .../37-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 241s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 242s Selecting previously unselected package xfonts-utils. 242s Preparing to unpack .../38-xfonts-utils_1%3a7.7+6build2_armhf.deb ... 242s Unpacking xfonts-utils (1:7.7+6build2) ... 242s Selecting previously unselected package fonts-urw-base35. 242s Preparing to unpack .../39-fonts-urw-base35_20200910-8_all.deb ... 242s Unpacking fonts-urw-base35 (20200910-8) ... 243s Selecting previously unselected package fontconfig-config. 243s Preparing to unpack .../40-fontconfig-config_2.15.0-1ubuntu1_armhf.deb ... 244s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 244s Selecting previously unselected package libfontconfig1:armhf. 244s Preparing to unpack .../41-libfontconfig1_2.15.0-1ubuntu1_armhf.deb ... 244s Unpacking libfontconfig1:armhf (2.15.0-1ubuntu1) ... 244s Selecting previously unselected package libpixman-1-0:armhf. 244s Preparing to unpack .../42-libpixman-1-0_0.42.2-1_armhf.deb ... 244s Unpacking libpixman-1-0:armhf (0.42.2-1) ... 244s Selecting previously unselected package libxcb-render0:armhf. 244s Preparing to unpack .../43-libxcb-render0_1.15-1_armhf.deb ... 244s Unpacking libxcb-render0:armhf (1.15-1) ... 245s Selecting previously unselected package libxcb-shm0:armhf. 245s Preparing to unpack .../44-libxcb-shm0_1.15-1_armhf.deb ... 245s Unpacking libxcb-shm0:armhf (1.15-1) ... 245s Selecting previously unselected package libxrender1:armhf. 245s Preparing to unpack .../45-libxrender1_1%3a0.9.10-1.1_armhf.deb ... 245s Unpacking libxrender1:armhf (1:0.9.10-1.1) ... 245s Selecting previously unselected package libcairo2:armhf. 245s Preparing to unpack .../46-libcairo2_1.18.0-1_armhf.deb ... 245s Unpacking libcairo2:armhf (1.18.0-1) ... 245s Selecting previously unselected package python3-cairo. 245s Preparing to unpack .../47-python3-cairo_1.25.1-2_armhf.deb ... 245s Unpacking python3-cairo (1.25.1-2) ... 245s Selecting previously unselected package python3-freetype. 245s Preparing to unpack .../48-python3-freetype_2.4.0-1_all.deb ... 245s Unpacking python3-freetype (2.4.0-1) ... 245s Selecting previously unselected package python3-rlpycairo. 246s Preparing to unpack .../49-python3-rlpycairo_0.3.0-3_all.deb ... 246s Unpacking python3-rlpycairo (0.3.0-3) ... 246s Selecting previously unselected package fonts-dejavu-extra. 246s Preparing to unpack .../50-fonts-dejavu-extra_2.37-8_all.deb ... 246s Unpacking fonts-dejavu-extra (2.37-8) ... 246s Selecting previously unselected package python3-reportlab. 246s Preparing to unpack .../51-python3-reportlab_4.1.0-1_all.deb ... 246s Unpacking python3-reportlab (4.1.0-1) ... 247s Selecting previously unselected package sgml-base. 247s Preparing to unpack .../52-sgml-base_1.31_all.deb ... 247s Unpacking sgml-base (1.31) ... 247s Selecting previously unselected package xml-core. 247s Preparing to unpack .../53-xml-core_0.19_all.deb ... 247s Unpacking xml-core (0.19) ... 247s Selecting previously unselected package w3c-sgml-lib. 247s Preparing to unpack .../54-w3c-sgml-lib_1.3-3_all.deb ... 247s Unpacking w3c-sgml-lib (1.3-3) ... 247s Selecting previously unselected package python3-biopython. 247s Preparing to unpack .../55-python3-biopython_1.81+dfsg-3_armhf.deb ... 247s Unpacking python3-biopython (1.81+dfsg-3) ... 248s Selecting previously unselected package libhtscodecs2:armhf. 248s Preparing to unpack .../56-libhtscodecs2_1.6.0-1_armhf.deb ... 248s Unpacking libhtscodecs2:armhf (1.6.0-1) ... 248s Selecting previously unselected package tabix. 248s Preparing to unpack .../57-tabix_1.19+ds-1.1build2_armhf.deb ... 248s Unpacking tabix (1.19+ds-1.1build2) ... 249s Setting up libhtscodecs2:armhf (1.6.0-1) ... 249s Setting up python3-more-itertools (10.2.0-1) ... 249s Setting up libgraphite2-3:armhf (1.3.14-2) ... 249s Setting up liblcms2-2:armhf (2.14-2) ... 249s Setting up python3-iniconfig (1.1.1-2) ... 249s Setting up libpixman-1-0:armhf (0.42.2-1) ... 249s Setting up libsharpyuv0:armhf (1.3.2-0.4) ... 249s Setting up liblerc4:armhf (4.0.0+ds-4ubuntu1) ... 249s Setting up libxrender1:armhf (1:0.9.10-1.1) ... 249s Setting up python-pyfaidx-examples (0.8.1.1-1) ... 249s Setting up libxcb-render0:armhf (1.15-1) ... 249s Setting up x11-common (1:7.7+23ubuntu2) ... 251s Setting up libdeflate0:armhf (1.19-1) ... 251s Setting up python3-all (3.12.1-0ubuntu2) ... 251s Setting up libxcb-shm0:armhf (1.15-1) ... 251s Setting up python3-zipp (1.0.0-6) ... 251s Setting up libgomp1:armhf (14-20240303-1ubuntu1) ... 251s Setting up libjbig0:armhf (2.1-6.1ubuntu1) ... 251s Setting up libfontenc1:armhf (1:1.1.8-1) ... 251s Setting up libblas3:armhf (3.12.0-3) ... 251s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 251s Setting up python3-packaging (23.2-1) ... 252s Setting up libfreetype6:armhf (2.13.2+dfsg-1) ... 252s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 252s Setting up libimagequant0:armhf (2.18.0-1) ... 252s Setting up fonts-dejavu-mono (2.37-8) ... 252s Setting up fonts-dejavu-core (2.37-8) ... 252s Setting up libjpeg-turbo8:armhf (2.1.5-2ubuntu1) ... 252s Setting up libgfortran5:armhf (14-20240303-1ubuntu1) ... 252s Setting up python3-pluggy (1.4.0-1) ... 252s Setting up libwebp7:armhf (1.3.2-0.4) ... 252s Setting up fonts-dejavu-extra (2.37-8) ... 252s Setting up libopenjp2-7:armhf (2.5.0-2) ... 252s Setting up libharfbuzz0b:armhf (8.3.0-2) ... 252s Setting up sgml-base (1.31) ... 252s Setting up libwebpmux3:armhf (1.3.2-0.4) ... 252s Setting up tabix (1.19+ds-1.1build2) ... 252s Setting up libjpeg8:armhf (8c-2ubuntu11) ... 252s Setting up liblapack3:armhf (3.12.0-3) ... 252s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 253s Setting up python3-importlib-metadata (4.12.0-1) ... 253s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 254s Setting up python3-pytest (7.4.4-1) ... 255s Setting up libwebpdemux2:armhf (1.3.2-0.4) ... 255s Setting up python3-freetype (2.4.0-1) ... 256s Setting up xfonts-utils (1:7.7+6build2) ... 256s Setting up libraqm0:armhf (0.10.1-1) ... 256s Setting up python3-numpy (1:1.24.2-2) ... 261s Setting up libtiff6:armhf (4.5.1+git230720-3ubuntu1) ... 261s Setting up xml-core (0.19) ... 262s Setting up libfontconfig1:armhf (2.15.0-1ubuntu1) ... 262s Setting up python3-pyfaidx (0.8.1.1-1) ... 263s Setting up fonts-urw-base35 (20200910-8) ... 264s Setting up libcairo2:armhf (1.18.0-1) ... 264s Setting up python3-pil:armhf (10.2.0-1) ... 265s Setting up python3-cairo (1.25.1-2) ... 266s Setting up python3-rlpycairo (0.3.0-3) ... 266s Setting up python3-reportlab (4.1.0-1) ... 269s Processing triggers for libc-bin (2.39-0ubuntu2) ... 270s Processing triggers for man-db (2.12.0-3) ... 273s Processing triggers for sgml-base (1.31) ... 273s Setting up w3c-sgml-lib (1.3-3) ... 391s Setting up python3-biopython (1.81+dfsg-3) ... 395s Setting up autopkgtest-satdep (0) ... 419s (Reading database ... 62117 files and directories currently installed.) 419s Removing autopkgtest-satdep (0) ... 431s autopkgtest [23:02:20]: test run-unit-test: [----------------------- 433s Testing with python3.12 in /tmp/autopkgtest.oTlbzQ/build.x96/src: 434s ============================= test session starts ============================== 434s platform linux -- Python 3.12.2, pytest-7.4.4, pluggy-1.4.0 -- /usr/bin/python3.12 434s cachedir: .pytest_cache 434s rootdir: /tmp/autopkgtest.oTlbzQ/build.x96/src 435s collecting ... collected 136 items 435s 435s tests/test_FastaRecord.py::test_sequence_uppercase PASSED [ 0%] 435s tests/test_FastaRecord.py::test_long_names PASSED [ 1%] 435s tests/test_FastaRecord.py::test_issue_62 PASSED [ 2%] 435s tests/test_FastaRecord.py::test_unpadded_length PASSED [ 2%] 435s tests/test_FastaRecord.py::test_numpy_array PASSED [ 3%] 435s tests/test_FastaRecord_iter.py::test_fetch_whole_fasta PASSED [ 4%] 435s tests/test_FastaRecord_iter.py::test_line_len PASSED [ 5%] 435s tests/test_FastaRecord_iter.py::test_reverse_iter PASSED [ 5%] 435s tests/test_FastaVariant.py::test_fetch_variant SKIPPED (pysam not in...) [ 6%] 435s tests/test_FastaVariant.py::test_fetch_hom_variant SKIPPED (pysam no...) [ 7%] 435s tests/test_FastaVariant.py::test_fetch_het_variant SKIPPED (pysam no...) [ 8%] 435s tests/test_FastaVariant.py::test_fetch_chr_not_in_vcf SKIPPED (pysam...) [ 8%] 435s tests/test_FastaVariant.py::test_all_pos SKIPPED (pysam not installed.) [ 9%] 435s tests/test_FastaVariant.py::test_all_diff SKIPPED (pysam not installed.) [ 10%] 435s tests/test_Fasta_bgzip.py::test_build_issue_126 XFAIL [ 11%] 435s tests/test_Fasta_bgzip.py::test_integer_slice PASSED [ 11%] 435s tests/test_Fasta_bgzip.py::test_integer_index PASSED [ 12%] 435s tests/test_Fasta_bgzip.py::test_fetch_whole_fasta PASSED [ 13%] 435s tests/test_Fasta_bgzip.py::test_line_len PASSED [ 13%] 435s tests/test_Fasta_bgzip.py::test_mutable_bgzf PASSED [ 14%] 436s tests/test_Fasta_bgzip.py::test_long_names XFAIL [ 15%] 436s tests/test_Fasta_bgzip.py::test_fetch_whole_entry PASSED [ 16%] 436s tests/test_Fasta_bgzip.py::test_fetch_middle PASSED [ 16%] 436s tests/test_Fasta_bgzip.py::test_fetch_end PASSED [ 17%] 436s tests/test_Fasta_bgzip.py::test_fetch_border PASSED [ 18%] 436s tests/test_Fasta_bgzip.py::test_rev PASSED [ 19%] 436s tests/test_Fasta_bgzip.py::test_fetch_past_bounds PASSED [ 19%] 436s tests/test_Fasta_bgzip.py::test_fetch_negative PASSED [ 20%] 436s tests/test_Fasta_bgzip.py::test_fetch_reversed_coordinates PASSED [ 21%] 436s tests/test_Fasta_bgzip.py::test_fetch_keyerror PASSED [ 22%] 436s tests/test_Fasta_bgzip.py::test_blank_string PASSED [ 22%] 436s tests/test_Fasta_bgzip.py::test_slice_from_beginning PASSED [ 23%] 436s tests/test_Fasta_bgzip.py::test_slice_from_end PASSED [ 24%] 436s tests/test_Fasta_bgzip.py::test_issue_74_start PASSED [ 25%] 436s tests/test_Fasta_bgzip.py::test_issue_74_consistency PASSED [ 25%] 436s tests/test_Fasta_bgzip.py::test_issue_74_end_faidx PASSED [ 26%] 436s tests/test_Fasta_bgzip.py::test_issue_74_end_fasta PASSED [ 27%] 436s tests/test_Fasta_bgzip.py::test_issue_79_fix PASSED [ 27%] 436s tests/test_Fasta_bgzip.py::test_issue_79_fix_negate PASSED [ 28%] 436s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false PASSED [ 29%] 436s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false_negate PASSED [ 30%] 436s tests/test_Fasta_bgzip.py::test_fetch_border_padded PASSED [ 30%] 436s tests/test_Fasta_integer_index.py::test_integer_slice PASSED [ 31%] 436s tests/test_Fasta_integer_index.py::test_integer_index PASSED [ 32%] 437s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads PASSED [ 33%] 440s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads_and_writes PASSED [ 33%] 442s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_writes PASSED [ 34%] 442s tests/test_Path.py::test_Faidx PASSED [ 35%] 442s tests/test_Path.py::test_Fasta PASSED [ 36%] 442s tests/test_bio_seqio.py::test_fetch_whole_entry PASSED [ 36%] 442s tests/test_bio_seqio.py::test_slice_whole_entry PASSED [ 37%] 442s tests/test_bio_seqio.py::test_revcomp_whole_entry PASSED [ 38%] 442s tests/test_faidx.py::test_short_line_lengths PASSED [ 38%] 442s tests/test_faidx.py::test_fetch_whole_file PASSED [ 39%] 442s tests/test_faidx.py::test_split_entry PASSED [ 40%] 442s tests/test_faidx.py::test_fetch_error PASSED [ 41%] 442s tests/test_faidx.py::test_key_warning PASSED [ 41%] 442s tests/test_faidx.py::test_auto_strand PASSED [ 42%] 442s tests/test_faidx.py::test_regexp PASSED [ 43%] 443s tests/test_faidx.py::test_not_regexp PASSED [ 44%] 443s tests/test_faidx.py::test_not_regexp_multi PASSED [ 44%] 443s tests/test_feature_bounds_check.py::test_index_zero_length PASSED [ 45%] 443s tests/test_feature_bounds_check.py::test_fetch_zero_length PASSED [ 46%] 443s tests/test_feature_bounds_check.py::test_as_raw_zero_length_subsequence PASSED [ 47%] 443s tests/test_feature_bounds_check.py::test_zero_length_subsequence PASSED [ 47%] 443s tests/test_feature_bounds_check.py::test_fetch_whole_entry PASSED [ 48%] 443s tests/test_feature_bounds_check.py::test_fetch_middle PASSED [ 49%] 443s tests/test_feature_bounds_check.py::test_fetch_end PASSED [ 50%] 443s tests/test_feature_bounds_check.py::test_fetch_border PASSED [ 50%] 443s tests/test_feature_bounds_check.py::test_rev PASSED [ 51%] 443s tests/test_feature_bounds_check.py::test_fetch_past_bounds PASSED [ 52%] 443s tests/test_feature_bounds_check.py::test_fetch_negative PASSED [ 52%] 443s tests/test_feature_bounds_check.py::test_fetch_reversed_coordinates PASSED [ 53%] 443s tests/test_feature_bounds_check.py::test_fetch_keyerror PASSED [ 54%] 443s tests/test_feature_bounds_check.py::test_blank_string PASSED [ 55%] 443s tests/test_feature_bounds_check.py::test_slice_from_beginning PASSED [ 55%] 443s tests/test_feature_bounds_check.py::test_slice_from_end PASSED [ 56%] 443s tests/test_feature_bounds_check.py::test_issue_74_start PASSED [ 57%] 443s tests/test_feature_bounds_check.py::test_issue_74_consistency PASSED [ 58%] 443s tests/test_feature_bounds_check.py::test_issue_74_end_faidx PASSED [ 58%] 443s tests/test_feature_bounds_check.py::test_issue_74_end_fasta PASSED [ 59%] 443s tests/test_feature_bounds_check.py::test_issue_79_fix PASSED [ 60%] 443s tests/test_feature_bounds_check.py::test_issue_79_fix_negate PASSED [ 61%] 443s tests/test_feature_bounds_check.py::test_issue_79_fix_one_based_false PASSED [ 61%] 443s tests/test_feature_bounds_check.py::test_issue_79_fix_one_based_false_negate PASSED [ 62%] 443s tests/test_feature_default_seq.py::test_fetch_border_padded PASSED [ 63%] 443s tests/test_feature_indexing.py::test_version_issue_206 PASSED [ 63%] 443s tests/test_feature_indexing.py::test_build PASSED [ 64%] 443s tests/test_feature_indexing.py::test_build_issue_141 PASSED [ 65%] 443s tests/test_feature_indexing.py::test_build_issue_111 PASSED [ 66%] 443s tests/test_feature_indexing.py::test_order PASSED [ 66%] 469s tests/test_feature_indexing.py::test_valgrind_short_lines PASSED [ 67%] 496s tests/test_feature_indexing.py::test_valgrind_long_lines PASSED [ 68%] 521s tests/test_feature_indexing.py::test_valgrind_blank_lines PASSED [ 69%] 523s tests/test_feature_indexing.py::test_reindex_on_modification PASSED [ 69%] 523s tests/test_feature_indexing.py::test_build_issue_83 PASSED [ 70%] 523s tests/test_feature_indexing.py::test_build_issue_96_fail_build_faidx PASSED [ 71%] 523s tests/test_feature_indexing.py::test_build_issue_96_fail_read_malformed_index_duplicate_key PASSED [ 72%] 523s tests/test_feature_indexing.py::test_read_back_index PASSED [ 72%] 523s tests/test_feature_indexing.py::test_issue_134_no_build_index PASSED [ 73%] 523s tests/test_feature_indexing.py::test_issue_144_no_defline PASSED [ 74%] 523s tests/test_feature_key_function.py::test_keys PASSED [ 75%] 523s tests/test_feature_key_function.py::test_key_function_by_dictionary_get_key PASSED [ 75%] 523s tests/test_feature_key_function.py::test_key_function_by_fetch PASSED [ 76%] 523s tests/test_feature_key_function.py::test_duplicated_keys PASSED [ 77%] 523s tests/test_feature_key_function.py::test_duplicated_keys_shortest PASSED [ 77%] 523s tests/test_feature_key_function.py::test_duplicated_keys_longest PASSED [ 78%] 523s tests/test_feature_read_ahead_buffer.py::test_buffer_false PASSED [ 79%] 523s tests/test_feature_read_ahead_buffer.py::test_buffer_true PASSED [ 80%] 523s tests/test_feature_read_ahead_buffer.py::test_buffer_exceed PASSED [ 80%] 523s tests/test_feature_read_ahead_buffer.py::test_bounds_error PASSED [ 81%] 523s tests/test_feature_read_ahead_buffer.py::test_buffer_value PASSED [ 82%] 523s tests/test_feature_sequence_as_raw.py::test_as_raw_false PASSED [ 83%] 523s tests/test_feature_sequence_as_raw.py::test_as_raw_true PASSED [ 83%] 523s tests/test_feature_sequence_as_raw.py::test_as_raw_false_error PASSED [ 84%] 523s tests/test_feature_sequence_as_raw.py::test_as_raw_true_error PASSED [ 85%] 523s tests/test_feature_sequence_as_raw.py::test_as_raw_type_when_blen_lt_0 PASSED [ 86%] 523s tests/test_feature_spliced_seq.py::test_split_seq PASSED [ 86%] 523s tests/test_feature_spliced_seq.py::test_get_seq_rc PASSED [ 87%] 523s tests/test_feature_split_char.py::test_keys PASSED [ 88%] 523s tests/test_feature_split_char.py::test_key_function_by_dictionary_get_key PASSED [ 88%] 523s tests/test_feature_split_char.py::test_key_function_by_fetch PASSED [ 89%] 523s tests/test_feature_split_char.py::test_stop PASSED [ 90%] 523s tests/test_fsspec.py::test_fsspec_fetch_whole_file SKIPPED (uncondit...) [ 91%] 523s tests/test_fsspec.py::test_fsspec_default_index SKIPPED (uncondition...) [ 91%] 523s tests/test_fsspec.py::test_fsspec_local_index SKIPPED (unconditional...) [ 92%] 523s tests/test_fsspec.py::test_fsspec_remote_index SKIPPED (unconditiona...) [ 93%] 523s tests/test_sequence_class.py::test_negate PASSED [ 94%] 523s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 523s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 523s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 523s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 523s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 523s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 523s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 523s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 523s 523s ============ 124 passed, 10 skipped, 2 xfailed in 89.26s (0:01:29) ============= 524s autopkgtest [23:03:53]: test run-unit-test: -----------------------] 528s run-unit-test PASS 528s autopkgtest [23:03:57]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 532s autopkgtest [23:04:01]: test autodep8-python3: preparing testbed 601s autopkgtest [23:05:10]: @@@@@@@@@@@@@@@@@@@@ test bed setup 604s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 605s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [485 kB] 605s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB] 605s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 605s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3726 kB] 605s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main armhf Packages [574 kB] 605s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf c-n-f Metadata [2492 B] 605s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted armhf Packages [1372 B] 605s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted armhf c-n-f Metadata [116 B] 605s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf Packages [3500 kB] 606s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf c-n-f Metadata [7776 B] 606s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse armhf Packages [33.8 kB] 606s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse armhf c-n-f Metadata [116 B] 617s Fetched 8505 kB in 3s (2484 kB/s) 617s Reading package lists... 629s /etc/apt/sources.list.d/proposed.list 631s tee: /proc/self/fd/2: Permission denied 662s Hit:1 http://ports.ubuntu.com/ubuntu-ports noble InRelease 662s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 662s Hit:3 http://ports.ubuntu.com/ubuntu-ports noble-updates InRelease 662s Hit:4 http://ftpmaster.internal/ubuntu noble-updates InRelease 662s Hit:5 http://ports.ubuntu.com/ubuntu-ports noble-backports InRelease 662s Hit:6 http://ftpmaster.internal/ubuntu noble-security InRelease 662s Hit:7 http://ports.ubuntu.com/ubuntu-ports noble-security InRelease 662s Hit:8 http://ftpmaster.internal/ubuntu noble-proposed InRelease 668s Reading package lists... 669s Reading package lists... 669s Building dependency tree... 669s Reading state information... 671s Calculating upgrade... 672s The following packages have been kept back: 672s curl openssl 672s 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. 672s Reading package lists... 673s Building dependency tree... 673s Reading state information... 675s 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. 677s autopkgtest [23:06:26]: rebooting testbed after setup commands that affected boot 714s autopkgtest [23:07:03]: testbed dpkg architecture: armhf 743s Reading package lists... 744s Building dependency tree... 744s Reading state information... 745s Correcting dependencies...Starting pkgProblemResolver with broken count: 0 746s Starting 2 pkgProblemResolver with broken count: 0 746s Done 747s Done 748s Starting pkgProblemResolver with broken count: 0 748s Starting 2 pkgProblemResolver with broken count: 0 748s Done 750s The following additional packages will be installed: 750s python3-all python3-importlib-metadata python3-more-itertools 750s python3-pyfaidx python3-zipp 750s Recommended packages: 750s python3-biopython 750s The following NEW packages will be installed: 750s python3-all python3-importlib-metadata python3-more-itertools 750s python3-pyfaidx python3-zipp 751s 0 upgraded, 5 newly installed, 0 to remove and 2 not upgraded. 751s 1 not fully installed or removed. 751s Need to get 107 kB of archives. 751s After this operation, 502 kB of additional disk space will be used. 751s Get:1 http://ftpmaster.internal/ubuntu noble/main armhf python3-all armhf 3.12.1-0ubuntu2 [906 B] 751s Get:2 http://ftpmaster.internal/ubuntu noble/main armhf python3-more-itertools all 10.2.0-1 [52.9 kB] 751s Get:3 http://ftpmaster.internal/ubuntu noble/main armhf python3-zipp all 1.0.0-6 [6090 B] 751s Get:4 http://ftpmaster.internal/ubuntu noble/main armhf python3-importlib-metadata all 4.12.0-1 [17.8 kB] 751s Get:5 http://ftpmaster.internal/ubuntu noble/universe armhf python3-pyfaidx all 0.8.1.1-1 [29.6 kB] 752s Fetched 107 kB in 1s (210 kB/s) 752s Selecting previously unselected package python3-all. 753s (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 ... 58620 files and directories currently installed.) 753s Preparing to unpack .../python3-all_3.12.1-0ubuntu2_armhf.deb ... 753s Unpacking python3-all (3.12.1-0ubuntu2) ... 753s Selecting previously unselected package python3-more-itertools. 753s Preparing to unpack .../python3-more-itertools_10.2.0-1_all.deb ... 753s Unpacking python3-more-itertools (10.2.0-1) ... 753s Selecting previously unselected package python3-zipp. 753s Preparing to unpack .../python3-zipp_1.0.0-6_all.deb ... 753s Unpacking python3-zipp (1.0.0-6) ... 753s Selecting previously unselected package python3-importlib-metadata. 753s Preparing to unpack .../python3-importlib-metadata_4.12.0-1_all.deb ... 753s Unpacking python3-importlib-metadata (4.12.0-1) ... 753s Selecting previously unselected package python3-pyfaidx. 753s Preparing to unpack .../python3-pyfaidx_0.8.1.1-1_all.deb ... 753s Unpacking python3-pyfaidx (0.8.1.1-1) ... 753s Setting up python3-more-itertools (10.2.0-1) ... 754s Setting up python3-all (3.12.1-0ubuntu2) ... 754s Setting up python3-zipp (1.0.0-6) ... 754s Setting up python3-importlib-metadata (4.12.0-1) ... 755s Setting up python3-pyfaidx (0.8.1.1-1) ... 755s Setting up autopkgtest-satdep (0) ... 755s Processing triggers for man-db (2.12.0-3) ... 775s (Reading database ... 58679 files and directories currently installed.) 775s Removing autopkgtest-satdep (0) ... 794s autopkgtest [23:08:23]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import pyfaidx; print(pyfaidx)" ; done 794s autopkgtest [23:08:23]: test autodep8-python3: [----------------------- 797s Testing with python3.12: 797s 797s autopkgtest [23:08:26]: test autodep8-python3: -----------------------] 802s autodep8-python3 PASS (superficial) 802s autopkgtest [23:08:31]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 806s autopkgtest [23:08:35]: @@@@@@@@@@@@@@@@@@@@ summary 806s run-unit-test PASS 806s autodep8-python3 PASS (superficial)