0s autopkgtest [04:27:02]: starting date and time: 2024-11-15 04:27:02+0000 1s autopkgtest [04:27:03]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 1s autopkgtest [04:27:03]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.f7xp4xbv/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade python-pyfaidx --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-30.secgroup --name adt-plucky-i386-python-pyfaidx-20241115-042702-juju-7f2275-prod-proposed-migration-environment-15-d68f2365-6d1b-4cb0-ae32-b140a75fd688 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-amd64 -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/ 39s autopkgtest [04:27:41]: testbed dpkg architecture: amd64 39s autopkgtest [04:27:41]: testbed apt version: 2.9.8 40s autopkgtest [04:27:42]: test architecture: i386 40s autopkgtest [04:27:42]: @@@@@@@@@@@@@@@@@@@@ test bed setup 41s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 41s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 41s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1027 kB] 41s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 41s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.3 kB] 41s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [202 kB] 41s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [131 kB] 41s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 41s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [296 kB] 41s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [810 kB] 41s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 41s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9128 B] 42s Fetched 2705 kB in 1s (2999 kB/s) 42s Reading package lists... 44s Reading package lists... 44s Building dependency tree... 44s Reading state information... 44s Calculating upgrade... 44s The following NEW packages will be installed: 44s python3.13-gdbm 44s The following packages will be upgraded: 44s firmware-sof-signed libcap-ng0 libexpat1 libpython3-stdlib lxd-installer 44s man-db pastebinit python3 python3-gdbm python3-minimal python3-systemd 44s xfsprogs 45s 12 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 45s Need to get 9638 kB of archives. 45s After this operation, 542 kB of additional disk space will be used. 45s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 45s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 45s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 45s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 45s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 45s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 45s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 45s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 45s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 45s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 45s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 45s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 45s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 46s Preconfiguring packages ... 46s Fetched 9638 kB in 1s (10.9 MB/s) 46s (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 ... 75542 files and directories currently installed.) 46s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 46s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 46s Setting up python3-minimal (3.12.7-1) ... 46s (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 ... 75542 files and directories currently installed.) 46s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 46s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 46s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 46s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 46s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 46s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 46s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 46s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 46s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 46s (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 ... 75568 files and directories currently installed.) 46s Preparing to unpack .../0-libexpat1_2.6.4-1_amd64.deb ... 46s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 46s Preparing to unpack .../1-man-db_2.13.0-1_amd64.deb ... 46s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 46s Selecting previously unselected package python3.13-gdbm. 46s Preparing to unpack .../2-python3.13-gdbm_3.13.0-2_amd64.deb ... 46s Unpacking python3.13-gdbm (3.13.0-2) ... 46s Preparing to unpack .../3-python3-gdbm_3.12.7-1_amd64.deb ... 46s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 46s Preparing to unpack .../4-lxd-installer_9_all.deb ... 46s Unpacking lxd-installer (9) over (8) ... 47s Preparing to unpack .../5-pastebinit_1.7.1-1_all.deb ... 47s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 47s Preparing to unpack .../6-python3-systemd_235-1build5_amd64.deb ... 47s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 47s Preparing to unpack .../7-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 47s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 47s Setting up libexpat1:amd64 (2.6.4-1) ... 47s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 47s Setting up man-db (2.13.0-1) ... 47s Updating database of manual pages ... 49s man-db.service is a disabled or a static unit not running, not starting it. 49s Setting up lxd-installer (9) ... 49s Setting up python3.13-gdbm (3.13.0-2) ... 49s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 49s Setting up python3 (3.12.7-1) ... 49s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 49s update-initramfs: deferring update (trigger activated) 50s Setting up python3-systemd (235-1build5) ... 50s Setting up python3-gdbm:amd64 (3.12.7-1) ... 50s Setting up pastebinit (1.7.1-1) ... 50s Processing triggers for libc-bin (2.40-1ubuntu3) ... 50s Processing triggers for initramfs-tools (0.142ubuntu34) ... 50s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 50s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 58s Reading package lists... 58s Building dependency tree... 58s Reading state information... 58s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 59s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 59s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 59s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 59s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 60s Reading package lists... 60s Reading package lists... 60s Building dependency tree... 60s Reading state information... 60s Calculating upgrade... 60s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 60s Reading package lists... 61s Building dependency tree... 61s Reading state information... 61s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 61s autopkgtest [04:28:03]: rebooting testbed after setup commands that affected boot 78s autopkgtest [04:28:20]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 80s autopkgtest [04:28:22]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 83s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (dsc) [2544 B] 83s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (tar) [96.5 kB] 83s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (diff) [7096 B] 83s gpgv: Signature made Wed Oct 16 19:20:44 2024 UTC 83s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 83s gpgv: issuer "emollier@debian.org" 83s gpgv: Can't check signature: No public key 83s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.3-1.dsc: no acceptable signature found 83s autopkgtest [04:28:25]: testing package python-pyfaidx version 0.8.1.3-1 83s autopkgtest [04:28:25]: build not needed 84s autopkgtest [04:28:26]: test run-unit-test: preparing testbed 86s Note, using file '/tmp/autopkgtest.xZ9RZW/1-autopkgtest-satdep.dsc' to get the build dependencies 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 86s Starting pkgProblemResolver with broken count: 0 86s Starting 2 pkgProblemResolver with broken count: 0 86s Done 86s The following NEW packages will be installed: 86s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 86s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 g++ 86s g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 86s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libblas3 libcairo2 86s libcc1-0 libdeflate0 libfontconfig1 libfontenc1 libgcc-14-dev libgfortran5 86s libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 libhwasan0 86s libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 86s liblcms2-2 liblerc4 liblsan0 libmpc3 libopenjp2-7 libpixman-1-0 86s libpython3.13-minimal libpython3.13-stdlib libquadmath0 libraqm0 86s libsharpyuv0 libstdc++-14-dev libtiff6 libtsan2 libubsan1 libwebp7 86s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 86s python-pyfaidx-examples python3-all python3-biopython python3-cairo 86s python3-freetype python3-importlib-metadata python3-iniconfig python3-numpy 86s python3-packaging python3-pil python3-pluggy python3-pyfaidx python3-pytest 86s python3-reportlab python3-rlpycairo python3.13 python3.13-minimal sgml-base 86s tabix w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 87s 0 upgraded, 83 newly installed, 0 to remove and 0 not upgraded. 87s Need to get 101 MB of archives. 87s After this operation, 338 MB of additional disk space will be used. 87s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 87s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 87s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 87s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 87s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 87s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 88s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 88s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 88s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 88s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 88s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 88s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 88s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 88s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 88s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 88s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 88s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 88s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 88s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 88s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 88s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 88s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 88s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 88s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 88s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 89s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 89s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 89s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 89s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 89s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 89s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 89s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 89s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 89s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 89s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 89s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 89s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 89s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 89s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 89s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 89s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 89s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 89s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 89s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 89s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 89s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 89s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 89s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 89s Get:49 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 89s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 89s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 89s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 89s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 89s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 89s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 89s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 89s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 89s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 89s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 89s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 89s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 89s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 89s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 89s Get:64 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-pyfaidx-examples all 0.8.1.3-1 [38.6 kB] 89s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 89s Get:66 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 89s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 89s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 89s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 89s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 89s Get:71 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 89s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 89s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 89s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 89s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 90s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4 [1714 kB] 90s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 90s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 90s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 90s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 90s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 90s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 90s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 tabix amd64 1.20+ds-1 [510 kB] 90s Fetched 101 MB in 3s (32.6 MB/s) 90s Selecting previously unselected package libpython3.13-minimal:amd64. 90s (Reading database ... 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.../13-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package libtsan2:amd64. 91s Preparing to unpack .../14-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package libubsan1:amd64. 91s Preparing to unpack .../15-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package libhwasan0:amd64. 91s Preparing to unpack .../16-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package libquadmath0:amd64. 91s Preparing to unpack .../17-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package libgcc-14-dev:amd64. 91s Preparing to unpack .../18-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 91s Preparing to unpack .../19-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package gcc-14. 91s Preparing to unpack .../20-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 91s Selecting previously unselected package gcc-x86-64-linux-gnu. 91s Preparing to unpack .../21-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 91s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 91s Selecting previously unselected package gcc. 91s Preparing to unpack .../22-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 91s Unpacking gcc (4:14.1.0-2ubuntu1) ... 91s Selecting previously unselected package libstdc++-14-dev:amd64. 91s Preparing to unpack .../23-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 91s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 92s 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Preparing to unpack .../29-fonts-dejavu-mono_2.37-8_all.deb ... 92s Unpacking fonts-dejavu-mono (2.37-8) ... 92s Selecting previously unselected package fonts-dejavu-core. 92s Preparing to unpack .../30-fonts-dejavu-core_2.37-8_all.deb ... 92s Unpacking fonts-dejavu-core (2.37-8) ... 92s Selecting previously unselected package libfontenc1:amd64. 92s Preparing to unpack .../31-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 92s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 92s Selecting previously unselected package x11-common. 92s Preparing to unpack .../32-x11-common_1%3a7.7+23ubuntu3_all.deb ... 92s Unpacking x11-common (1:7.7+23ubuntu3) ... 92s Selecting previously unselected package xfonts-encodings. 92s Preparing to unpack .../33-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 92s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 92s Selecting previously unselected package xfonts-utils. 92s Preparing to unpack .../34-xfonts-utils_1%3a7.7+7_amd64.deb ... 92s Unpacking xfonts-utils 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package libxcb-render0:amd64. 93s Preparing to unpack .../40-libxcb-render0_1.17.0-2_amd64.deb ... 93s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 93s Selecting previously unselected package libxcb-shm0:amd64. 93s Preparing to unpack .../41-libxcb-shm0_1.17.0-2_amd64.deb ... 93s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 93s Selecting previously unselected package libxrender1:amd64. 93s Preparing to unpack .../42-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 93s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 93s Selecting previously unselected package libcairo2:amd64. 93s Preparing to unpack .../43-libcairo2_1.18.2-2_amd64.deb ... 93s Unpacking libcairo2:amd64 (1.18.2-2) ... 93s Selecting previously unselected package libdeflate0:amd64. 93s Preparing to unpack .../44-libdeflate0_1.22-1_amd64.deb ... 93s Unpacking libdeflate0:amd64 (1.22-1) ... 93s Selecting previously unselected package libgfortran5:amd64. 93s Preparing to unpack .../45-libgfortran5_14.2.0-8ubuntu1_amd64.deb 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(2.1.5-2ubuntu2) ... 93s Selecting previously unselected package libjpeg8:amd64. 93s Preparing to unpack .../51-libjpeg8_8c-2ubuntu11_amd64.deb ... 93s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 93s Selecting previously unselected package liblapack3:amd64. 93s Preparing to unpack .../52-liblapack3_3.12.0-3build2_amd64.deb ... 93s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 93s Selecting previously unselected package liblcms2-2:amd64. 93s Preparing to unpack .../53-liblcms2-2_2.16-2_amd64.deb ... 93s Unpacking liblcms2-2:amd64 (2.16-2) ... 93s Selecting previously unselected package liblerc4:amd64. 93s Preparing to unpack .../54-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 93s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 93s Selecting previously unselected package libpython3.13-stdlib:amd64. 93s Preparing to unpack .../55-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 93s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 93s Selecting previously unselected package libraqm0:amd64. 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libwebpdemux2:amd64 (1.4.0-0.1) ... 93s Selecting previously unselected package libwebpmux3:amd64. 93s Preparing to unpack .../62-libwebpmux3_1.4.0-0.1_amd64.deb ... 93s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 93s Selecting previously unselected package python-pyfaidx-examples. 93s Preparing to unpack .../63-python-pyfaidx-examples_0.8.1.3-1_all.deb ... 93s Unpacking python-pyfaidx-examples (0.8.1.3-1) ... 93s Selecting previously unselected package python3.13. 93s Preparing to unpack .../64-python3.13_3.13.0-2_amd64.deb ... 93s Unpacking python3.13 (3.13.0-2) ... 93s Selecting previously unselected package python3-all. 93s Preparing to unpack .../65-python3-all_3.12.7-1_amd64.deb ... 93s Unpacking python3-all (3.12.7-1) ... 93s Selecting previously unselected package python3-numpy. 93s Preparing to unpack .../66-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 93s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 94s Selecting previously unselected package libopenjp2-7:amd64. 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python3-reportlab (4.2.5-1) ... 94s Selecting previously unselected package xml-core. 94s Preparing to unpack .../73-xml-core_0.19_all.deb ... 94s Unpacking xml-core (0.19) ... 94s Selecting previously unselected package w3c-sgml-lib. 94s Preparing to unpack .../74-w3c-sgml-lib_1.3-3_all.deb ... 94s Unpacking w3c-sgml-lib (1.3-3) ... 94s Selecting previously unselected package python3-biopython. 94s Preparing to unpack .../75-python3-biopython_1.84+dfsg-4_amd64.deb ... 94s Unpacking python3-biopython (1.84+dfsg-4) ... 94s Selecting previously unselected package python3-importlib-metadata. 94s Preparing to unpack .../76-python3-importlib-metadata_8.5.0-1_all.deb ... 94s Unpacking python3-importlib-metadata (8.5.0-1) ... 94s Selecting previously unselected package python3-iniconfig. 94s Preparing to unpack .../77-python3-iniconfig_1.1.1-2_all.deb ... 94s Unpacking python3-iniconfig (1.1.1-2) ... 94s Selecting previously unselected package python3-packaging. 94s Preparing to unpack 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94s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 94s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 94s Setting up python3-importlib-metadata (8.5.0-1) ... 95s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 95s Setting up python-pyfaidx-examples (0.8.1.3-1) ... 95s Setting up libxcb-render0:amd64 (1.17.0-2) ... 95s Setting up x11-common (1:7.7+23ubuntu3) ... 95s Setting up libdeflate0:amd64 (1.22-1) ... 95s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 95s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 95s Setting up python3-freetype (2.5.1-1) ... 95s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 95s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 95s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 95s Setting up libblas3:amd64 (3.12.0-3build2) ... 95s 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 95s Setting up python3-packaging (24.1-1) ... 95s 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get 0 B/700 B of archives. 133s After this operation, 0 B of additional disk space will be used. 133s Get:1 /tmp/autopkgtest.xZ9RZW/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B] 134s Selecting previously unselected package autopkgtest-satdep. 134s (Reading database ... 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[ 93%] 147s tests/test_sequence_class.py::test_negate PASSED [ 94%] 147s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 147s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 147s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 147s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 147s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 147s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 147s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 147s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 147s 147s =================================== FAILURES =================================== 147s _______________________________ test_numpy_array _______________________________ 147s 147s """ 147s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 147s 147s Please note that this module is private. All functions and objects 147s are available in the main ``numpy`` namespace - use that instead. 147s 147s """ 147s 147s import os 147s import warnings 147s 147s from numpy.version import version as __version__ 147s 147s 147s # disables OpenBLAS affinity setting of the main thread that limits 147s # python threads or processes to one core 147s env_added = [] 147s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 147s if envkey not in os.environ: 147s os.environ[envkey] = '1' 147s env_added.append(envkey) 147s 147s try: 147s > from . import multiarray 147s 147s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: 147s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 147s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 147s from . import overrides 147s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 147s 147s """Implementation of __array_function__ overrides from NEP-18.""" 147s import collections 147s import functools 147s import os 147s 147s from .._utils import set_module 147s from .._utils._inspect import getargspec 147s > from numpy.core._multiarray_umath import ( 147s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 147s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 147s 147s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: ModuleNotFoundError 147s 147s During handling of the above exception, another exception occurred: 147s 147s """ 147s NumPy 147s ===== 147s 147s Provides 147s 1. An array object of arbitrary homogeneous items 147s 2. Fast mathematical operations over arrays 147s 3. Linear Algebra, Fourier Transforms, Random Number Generation 147s 147s How to use the documentation 147s ---------------------------- 147s Documentation is available in two forms: docstrings provided 147s with the code, and a loose standing reference guide, available from 147s `the NumPy homepage `_. 147s 147s We recommend exploring the docstrings using 147s `IPython `_, an advanced Python shell with 147s TAB-completion and introspection capabilities. See below for further 147s instructions. 147s 147s The docstring examples assume that `numpy` has been imported as ``np``:: 147s 147s >>> import numpy as np 147s 147s Code snippets are indicated by three greater-than signs:: 147s 147s >>> x = 42 147s >>> x = x + 1 147s 147s Use the built-in ``help`` function to view a function's docstring:: 147s 147s >>> help(np.sort) 147s ... # doctest: +SKIP 147s 147s For some objects, ``np.info(obj)`` may provide additional help. This is 147s particularly true if you see the line "Help on ufunc object:" at the top 147s of the help() page. Ufuncs are implemented in C, not Python, for speed. 147s The native Python help() does not know how to view their help, but our 147s np.info() function does. 147s 147s To search for documents containing a keyword, do:: 147s 147s >>> np.lookfor('keyword') 147s ... # doctest: +SKIP 147s 147s General-purpose documents like a glossary and help on the basic concepts 147s of numpy are available under the ``doc`` sub-module:: 147s 147s >>> from numpy import doc 147s >>> help(doc) 147s ... # doctest: +SKIP 147s 147s Available subpackages 147s --------------------- 147s lib 147s Basic functions used by several sub-packages. 147s random 147s Core Random Tools 147s linalg 147s Core Linear Algebra Tools 147s fft 147s Core FFT routines 147s polynomial 147s Polynomial tools 147s testing 147s NumPy testing tools 147s distutils 147s Enhancements to distutils with support for 147s Fortran compilers support and more (for Python <= 3.11). 147s 147s Utilities 147s --------- 147s test 147s Run numpy unittests 147s show_config 147s Show numpy build configuration 147s matlib 147s Make everything matrices. 147s __version__ 147s NumPy version string 147s 147s Viewing documentation using IPython 147s ----------------------------------- 147s 147s Start IPython and import `numpy` usually under the alias ``np``: `import 147s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 147s examples into the shell. To see which functions are available in `numpy`, 147s type ``np.`` (where ```` refers to the TAB key), or use 147s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 147s down the list. To view the docstring for a function, use 147s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 147s the source code). 147s 147s Copies vs. in-place operation 147s ----------------------------- 147s Most of the functions in `numpy` return a copy of the array argument 147s (e.g., `np.sort`). In-place versions of these functions are often 147s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 147s Exceptions to this rule are documented. 147s 147s """ 147s import sys 147s import warnings 147s 147s from ._globals import _NoValue, _CopyMode 147s # These exceptions were moved in 1.25 and are hidden from __dir__() 147s from .exceptions import ( 147s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 147s TooHardError, AxisError) 147s 147s 147s # If a version with git hash was stored, use that instead 147s from . import version 147s from .version import __version__ 147s 147s # We first need to detect if we're being called as part of the numpy setup 147s # procedure itself in a reliable manner. 147s try: 147s __NUMPY_SETUP__ 147s except NameError: 147s __NUMPY_SETUP__ = False 147s 147s if __NUMPY_SETUP__: 147s sys.stderr.write('Running from numpy source directory.\n') 147s else: 147s # Allow distributors to run custom init code before importing numpy.core 147s from . import _distributor_init 147s 147s try: 147s > from numpy.__config__ import show as show_config 147s 147s /usr/lib/python3/dist-packages/numpy/__init__.py:130: 147s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 147s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 147s from numpy.core._multiarray_umath import ( 147s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 147s 147s """ 147s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 147s 147s Please note that this module is private. All functions and objects 147s are available in the main ``numpy`` namespace - use that instead. 147s 147s """ 147s 147s import os 147s import warnings 147s 147s from numpy.version import version as __version__ 147s 147s 147s # disables OpenBLAS affinity setting of the main thread that limits 147s # python threads or processes to one core 147s env_added = [] 147s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 147s if envkey not in os.environ: 147s os.environ[envkey] = '1' 147s env_added.append(envkey) 147s 147s try: 147s from . import multiarray 147s except ImportError as exc: 147s import sys 147s msg = """ 147s 147s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 147s 147s Importing the numpy C-extensions failed. This error can happen for 147s many reasons, often due to issues with your setup or how NumPy was 147s installed. 147s 147s We have compiled some common reasons and troubleshooting tips at: 147s 147s https://numpy.org/devdocs/user/troubleshooting-importerror.html 147s 147s Please note and check the following: 147s 147s * The Python version is: Python%d.%d from "%s" 147s * The NumPy version is: "%s" 147s 147s and make sure that they are the versions you expect. 147s Please carefully study the documentation linked above for further help. 147s 147s Original error was: %s 147s """ % (sys.version_info[0], sys.version_info[1], sys.executable, 147s __version__, exc) 147s > raise ImportError(msg) 147s E ImportError: 147s E 147s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 147s E 147s E Importing the numpy C-extensions failed. This error can happen for 147s E many reasons, often due to issues with your setup or how NumPy was 147s E installed. 147s E 147s E We have compiled some common reasons and troubleshooting tips at: 147s E 147s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 147s E 147s E Please note and check the following: 147s E 147s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 147s E * The NumPy version is: "1.26.4" 147s E 147s E and make sure that they are the versions you expect. 147s E Please carefully study the documentation linked above for further help. 147s E 147s E Original error was: No module named 'numpy.core._multiarray_umath' 147s 147s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: ImportError 147s 147s The above exception was the direct cause of the following exception: 147s 147s remove_index = None 147s 147s def test_numpy_array(remove_index): 147s """ Test the __array_interface__ """ 147s > import numpy 147s 147s /tmp/autopkgtest.xZ9RZW/build.Jpp/src/tests/test_FastaRecord.py:103: 147s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 147s 147s """ 147s NumPy 147s ===== 147s 147s Provides 147s 1. An array object of arbitrary homogeneous items 147s 2. Fast mathematical operations over arrays 147s 3. Linear Algebra, Fourier Transforms, Random Number Generation 147s 147s How to use the documentation 147s ---------------------------- 147s Documentation is available in two forms: docstrings provided 147s with the code, and a loose standing reference guide, available from 147s `the NumPy homepage `_. 147s 147s We recommend exploring the docstrings using 147s `IPython `_, an advanced Python shell with 147s TAB-completion and introspection capabilities. See below for further 147s instructions. 147s 147s The docstring examples assume that `numpy` has been imported as ``np``:: 147s 147s >>> import numpy as np 147s 147s Code snippets are indicated by three greater-than signs:: 147s 147s >>> x = 42 147s >>> x = x + 1 147s 147s Use the built-in ``help`` function to view a function's docstring:: 147s 147s >>> help(np.sort) 147s ... # doctest: +SKIP 147s 147s For some objects, ``np.info(obj)`` may provide additional help. This is 147s particularly true if you see the line "Help on ufunc object:" at the top 147s of the help() page. Ufuncs are implemented in C, not Python, for speed. 147s The native Python help() does not know how to view their help, but our 147s np.info() function does. 147s 147s To search for documents containing a keyword, do:: 147s 147s >>> np.lookfor('keyword') 147s ... # doctest: +SKIP 147s 147s General-purpose documents like a glossary and help on the basic concepts 147s of numpy are available under the ``doc`` sub-module:: 147s 147s >>> from numpy import doc 147s >>> help(doc) 147s ... # doctest: +SKIP 147s 147s Available subpackages 147s --------------------- 147s lib 147s Basic functions used by several sub-packages. 147s random 147s Core Random Tools 147s linalg 147s Core Linear Algebra Tools 147s fft 147s Core FFT routines 147s polynomial 147s Polynomial tools 147s testing 147s NumPy testing tools 147s distutils 147s Enhancements to distutils with support for 147s Fortran compilers support and more (for Python <= 3.11). 147s 147s Utilities 147s --------- 147s test 147s Run numpy unittests 147s show_config 147s Show numpy build configuration 147s matlib 147s Make everything matrices. 147s __version__ 147s NumPy version string 147s 147s Viewing documentation using IPython 147s ----------------------------------- 147s 147s Start IPython and import `numpy` usually under the alias ``np``: `import 147s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 147s examples into the shell. To see which functions are available in `numpy`, 147s type ``np.`` (where ```` refers to the TAB key), or use 147s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 147s down the list. To view the docstring for a function, use 147s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 147s the source code). 147s 147s Copies vs. in-place operation 147s ----------------------------- 147s Most of the functions in `numpy` return a copy of the array argument 147s (e.g., `np.sort`). In-place versions of these functions are often 147s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 147s Exceptions to this rule are documented. 147s 147s """ 147s import sys 147s import warnings 147s 147s from ._globals import _NoValue, _CopyMode 147s # These exceptions were moved in 1.25 and are hidden from __dir__() 147s from .exceptions import ( 147s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 147s TooHardError, AxisError) 147s 147s 147s # If a version with git hash was stored, use that instead 147s from . import version 147s from .version import __version__ 147s 147s # We first need to detect if we're being called as part of the numpy setup 147s # procedure itself in a reliable manner. 147s try: 147s __NUMPY_SETUP__ 147s except NameError: 147s __NUMPY_SETUP__ = False 147s 147s if __NUMPY_SETUP__: 147s sys.stderr.write('Running from numpy source directory.\n') 147s else: 147s # Allow distributors to run custom init code before importing numpy.core 147s from . import _distributor_init 147s 147s try: 147s from numpy.__config__ import show as show_config 147s except ImportError as e: 147s msg = """Error importing numpy: you should not try to import numpy from 147s its source directory; please exit the numpy source tree, and relaunch 147s your python interpreter from there.""" 147s > raise ImportError(msg) from e 147s E ImportError: Error importing numpy: you should not try to import numpy from 147s E its source directory; please exit the numpy source tree, and relaunch 147s E your python interpreter from there. 147s 147s /usr/lib/python3/dist-packages/numpy/__init__.py:135: ImportError 147s =========================== short test summary info ============================ 147s FAILED tests/test_FastaRecord.py::test_numpy_array - ImportError: Error impor... 147s ============ 1 failed, 120 passed, 14 skipped, 1 xfailed in 10.44s ============= 148s autopkgtest [04:29:30]: test run-unit-test: -----------------------] 148s autopkgtest [04:29:30]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 148s run-unit-test FAIL non-zero exit status 1 149s autopkgtest [04:29:31]: test autodep8-python3: preparing testbed 200s autopkgtest [04:30:22]: testbed dpkg architecture: amd64 200s autopkgtest [04:30:22]: testbed apt version: 2.9.8 200s autopkgtest [04:30:22]: test architecture: i386 200s autopkgtest [04:30:22]: @@@@@@@@@@@@@@@@@@@@ test bed setup 201s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 201s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 201s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1027 kB] 202s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.3 kB] 202s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 202s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [202 kB] 202s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [131 kB] 202s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 202s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [296 kB] 202s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [810 kB] 202s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9128 B] 202s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 202s Fetched 2705 kB in 1s (3182 kB/s) 202s Reading package lists... 204s Reading package lists... 204s Building dependency tree... 204s Reading state information... 204s Calculating upgrade... 204s The following NEW packages will be installed: 204s python3.13-gdbm 204s The following packages will be upgraded: 204s firmware-sof-signed libcap-ng0 libexpat1 libpython3-stdlib lxd-installer 204s man-db pastebinit python3 python3-gdbm python3-minimal python3-systemd 204s xfsprogs 205s 12 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 205s Need to get 9638 kB of archives. 205s After this operation, 542 kB of additional disk space will be used. 205s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 205s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 205s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 205s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 205s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 205s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 205s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 205s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 205s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 205s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 205s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 205s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 205s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 206s Preconfiguring packages ... 206s Fetched 9638 kB in 1s (10.7 MB/s) 206s (Reading database ... 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(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 ... 75542 files and directories currently installed.) 206s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 206s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 206s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 206s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 206s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 206s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 206s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 206s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 206s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 206s (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 ... 75568 files and directories currently installed.) 206s Preparing to unpack .../0-libexpat1_2.6.4-1_amd64.deb ... 206s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 206s Preparing to unpack .../1-man-db_2.13.0-1_amd64.deb ... 206s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 207s Selecting previously unselected package python3.13-gdbm. 207s Preparing to unpack .../2-python3.13-gdbm_3.13.0-2_amd64.deb ... 207s Unpacking python3.13-gdbm (3.13.0-2) ... 207s Preparing to unpack .../3-python3-gdbm_3.12.7-1_amd64.deb ... 207s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 207s Preparing to unpack .../4-lxd-installer_9_all.deb ... 207s Unpacking lxd-installer (9) over (8) ... 207s Preparing to unpack .../5-pastebinit_1.7.1-1_all.deb ... 207s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 207s Preparing to unpack .../6-python3-systemd_235-1build5_amd64.deb ... 207s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 207s Preparing to unpack .../7-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 207s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 207s Setting up libexpat1:amd64 (2.6.4-1) ... 207s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 207s Setting up man-db (2.13.0-1) ... 207s Updating database of manual pages ... 209s man-db.service is a disabled or a static unit not running, not starting it. 209s Setting up lxd-installer (9) ... 209s Setting up python3.13-gdbm (3.13.0-2) ... 209s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 209s Setting up python3 (3.12.7-1) ... 209s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 209s update-initramfs: deferring update (trigger activated) 210s Setting up python3-systemd (235-1build5) ... 210s Setting up python3-gdbm:amd64 (3.12.7-1) ... 210s Setting up pastebinit (1.7.1-1) ... 210s Processing triggers for libc-bin (2.40-1ubuntu3) ... 210s Processing triggers for initramfs-tools (0.142ubuntu34) ... 210s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 210s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 218s Reading package lists... 218s Building dependency tree... 218s Reading state information... 218s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 219s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 219s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 219s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 219s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 220s Reading package lists... 220s Reading package lists... 220s Building dependency tree... 220s Reading state information... 220s Calculating upgrade... 220s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 220s Reading package lists... 220s Building dependency tree... 220s Reading state information... 220s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 221s autopkgtest [04:30:43]: rebooting testbed after setup commands that affected boot 224s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 242s Note, using file '/tmp/autopkgtest.xZ9RZW/3-autopkgtest-satdep.dsc' to get the build dependencies 242s Reading package lists... 243s Building dependency tree... 243s Reading state information... 243s Starting pkgProblemResolver with broken count: 0 243s Starting 2 pkgProblemResolver with broken count: 0 243s Done 243s The following NEW packages will be installed: 243s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu g++ 243s g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 243s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libcc1-0 libgcc-14-dev 243s libgomp1 libhwasan0 libisl23 libitm1 liblsan0 libmpc3 libpython3.13-minimal 243s libpython3.13-stdlib libquadmath0 libstdc++-14-dev libtsan2 libubsan1 243s python3-all python3-importlib-metadata python3-packaging python3-pyfaidx 243s python3.13 python3.13-minimal 243s 0 upgraded, 34 newly installed, 0 to remove and 0 not upgraded. 243s Need to get 71.4 MB of archives. 243s After this operation, 245 MB of additional disk space will be used. 243s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 244s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 244s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 244s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 244s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 244s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 244s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 244s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 244s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 244s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 244s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 244s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 244s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 244s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 244s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 244s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 244s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 244s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 244s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 245s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 245s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 245s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 245s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 245s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 245s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 245s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 245s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 245s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 245s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 245s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 245s Get:31 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 245s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 245s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 245s Get:34 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 246s Fetched 71.4 MB in 2s (30.7 MB/s) 246s Selecting previously unselected package libpython3.13-minimal:amd64. 246s (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 ... 75581 files and directories currently installed.) 246s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 246s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 246s Selecting previously unselected package python3.13-minimal. 246s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 246s Unpacking python3.13-minimal (3.13.0-2) ... 246s Selecting previously unselected package libisl23:amd64. 246s Preparing to unpack .../02-libisl23_0.27-1_amd64.deb ... 246s Unpacking libisl23:amd64 (0.27-1) ... 246s Selecting previously unselected package libmpc3:amd64. 246s Preparing to unpack .../03-libmpc3_1.3.1-1build2_amd64.deb ... 246s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 246s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 246s Preparing to unpack .../04-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 246s Selecting previously unselected package cpp-14. 246s Preparing to unpack .../05-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 246s Selecting previously unselected package cpp-x86-64-linux-gnu. 246s Preparing to unpack .../06-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 246s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 246s Selecting previously unselected package cpp. 246s Preparing to unpack .../07-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 246s Unpacking cpp (4:14.1.0-2ubuntu1) ... 246s Selecting previously unselected package libcc1-0:amd64. 246s Preparing to unpack .../08-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 246s Selecting previously unselected package libgomp1:amd64. 246s Preparing to unpack .../09-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 246s Selecting previously unselected package libitm1:amd64. 246s Preparing to unpack .../10-libitm1_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 246s Selecting previously unselected package libasan8:amd64. 246s Preparing to unpack .../11-libasan8_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 246s Selecting previously unselected package liblsan0:amd64. 246s Preparing to unpack .../12-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 246s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package libtsan2:amd64. 247s Preparing to unpack .../13-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package libubsan1:amd64. 247s Preparing to unpack .../14-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package libhwasan0:amd64. 247s Preparing to unpack .../15-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package libquadmath0:amd64. 247s Preparing to unpack .../16-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package libgcc-14-dev:amd64. 247s Preparing to unpack .../17-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 247s Preparing to unpack .../18-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package gcc-14. 247s Preparing to unpack .../19-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package gcc-x86-64-linux-gnu. 247s Preparing to unpack .../20-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 247s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 247s Selecting previously unselected package gcc. 247s Preparing to unpack .../21-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 247s Unpacking gcc (4:14.1.0-2ubuntu1) ... 247s Selecting previously unselected package libstdc++-14-dev:amd64. 247s Preparing to unpack .../22-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package g++-14-x86-64-linux-gnu. 247s Preparing to unpack .../23-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package g++-14. 247s Preparing to unpack .../24-g++-14_14.2.0-8ubuntu1_amd64.deb ... 247s Unpacking g++-14 (14.2.0-8ubuntu1) ... 247s Selecting previously unselected package g++-x86-64-linux-gnu. 248s Preparing to unpack .../25-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 248s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 248s Selecting previously unselected package g++. 248s Preparing to unpack .../26-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 248s Unpacking g++ (4:14.1.0-2ubuntu1) ... 248s Selecting previously unselected package build-essential. 248s Preparing to unpack .../27-build-essential_12.10ubuntu1_amd64.deb ... 248s Unpacking build-essential (12.10ubuntu1) ... 248s Selecting previously unselected package libpython3.13-stdlib:amd64. 248s Preparing to unpack .../28-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 248s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 248s Selecting previously unselected package python3.13. 248s Preparing to unpack .../29-python3.13_3.13.0-2_amd64.deb ... 248s Unpacking python3.13 (3.13.0-2) ... 248s Selecting previously unselected package python3-all. 248s Preparing to unpack .../30-python3-all_3.12.7-1_amd64.deb ... 248s Unpacking python3-all (3.12.7-1) ... 248s Selecting previously unselected package python3-importlib-metadata. 248s Preparing to unpack .../31-python3-importlib-metadata_8.5.0-1_all.deb ... 248s Unpacking python3-importlib-metadata (8.5.0-1) ... 248s Selecting previously unselected package python3-packaging. 248s Preparing to unpack .../32-python3-packaging_24.1-1_all.deb ... 248s Unpacking python3-packaging (24.1-1) ... 248s Selecting previously unselected package python3-pyfaidx. 248s Preparing to unpack .../33-python3-pyfaidx_0.8.1.3-1_all.deb ... 248s Unpacking python3-pyfaidx (0.8.1.3-1) ... 248s Setting up python3-importlib-metadata (8.5.0-1) ... 248s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 248s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 248s Setting up python3-packaging (24.1-1) ... 248s Setting up libquadmath0:amd64 (14.2.0-8ubuntu1) ... 248s Setting up libmpc3:amd64 (1.3.1-1build2) ... 248s Setting up libubsan1:amd64 (14.2.0-8ubuntu1) ... 248s Setting up libhwasan0:amd64 (14.2.0-8ubuntu1) ... 248s Setting up libasan8:amd64 (14.2.0-8ubuntu1) ... 248s Setting up python3.13-minimal (3.13.0-2) ... 249s Setting up libtsan2:amd64 (14.2.0-8ubuntu1) ... 249s Setting up libisl23:amd64 (0.27-1) ... 249s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 249s Setting up libcc1-0:amd64 (14.2.0-8ubuntu1) ... 249s Setting up liblsan0:amd64 (14.2.0-8ubuntu1) ... 249s Setting up libitm1:amd64 (14.2.0-8ubuntu1) ... 249s Setting up python3-pyfaidx (0.8.1.3-1) ... 249s Setting up python3.13 (3.13.0-2) ... 250s Setting up python3-all (3.12.7-1) ... 250s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 250s Setting up cpp-14 (14.2.0-8ubuntu1) ... 250s Setting up libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 250s Setting up libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 250s Setting up cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 250s Setting up cpp (4:14.1.0-2ubuntu1) ... 250s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 250s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 250s Setting up gcc-14 (14.2.0-8ubuntu1) ... 250s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 250s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 250s Setting up g++-14 (14.2.0-8ubuntu1) ... 250s Setting up gcc (4:14.1.0-2ubuntu1) ... 250s Setting up g++ (4:14.1.0-2ubuntu1) ... 250s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 250s Setting up build-essential (12.10ubuntu1) ... 250s Processing triggers for systemd (256.5-2ubuntu4) ... 250s Processing triggers for man-db (2.13.0-1) ... 250s Processing triggers for libc-bin (2.40-1ubuntu3) ... 256s Reading package lists... 256s Building dependency tree... 256s Reading state information... 256s Starting pkgProblemResolver with broken count: 0 256s Starting 2 pkgProblemResolver with broken count: 0 256s Done 256s The following NEW packages will be installed: 256s autopkgtest-satdep 256s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 256s Need to get 0 B/700 B of archives. 256s After this operation, 0 B of additional disk space will be used. 256s Get:1 /tmp/autopkgtest.xZ9RZW/4-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B] 257s Selecting previously unselected package autopkgtest-satdep. 257s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 77636 files and directories currently installed.) 257s Preparing to unpack .../4-autopkgtest-satdep.deb ... 257s Unpacking autopkgtest-satdep (0) ... 257s Setting up autopkgtest-satdep (0) ... 257s autopkgtest: WARNING: package python3-pyfaidx:i386 is not installed though it should be 259s (Reading database ... 77636 files and directories currently installed.) 259s Removing autopkgtest-satdep (0) ... 260s autopkgtest [04:31:22]: 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 260s autopkgtest [04:31:22]: test autodep8-python3: [----------------------- 260s Testing with python3.13: 260s 260s Testing with python3.12: 260s 261s autopkgtest [04:31:23]: test autodep8-python3: -----------------------] 261s autopkgtest [04:31:23]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 261s autodep8-python3 PASS (superficial) 262s autopkgtest [04:31:24]: @@@@@@@@@@@@@@@@@@@@ summary 262s run-unit-test FAIL non-zero exit status 1 262s autodep8-python3 PASS (superficial) 273s nova [W] Skipping flock for amd64 273s Creating nova instance adt-plucky-i386-python-pyfaidx-20241115-042702-juju-7f2275-prod-proposed-migration-environment-15-d68f2365-6d1b-4cb0-ae32-b140a75fd688 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)... 273s nova [W] Skipping flock for amd64 273s Creating nova instance adt-plucky-i386-python-pyfaidx-20241115-042702-juju-7f2275-prod-proposed-migration-environment-15-d68f2365-6d1b-4cb0-ae32-b140a75fd688 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...