0s autopkgtest [04:12:17]: starting date and time: 2025-11-14 04:12:17+0000 0s autopkgtest [04:12:17]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [04:12:17]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.yg1v4cz4/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:numpy --apt-upgrade gudhi --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=numpy/1:2.3.4+ds-3ubuntu1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-2.secgroup --name adt-resolute-amd64-gudhi-20251114-041217-juju-7f2275-prod-proposed-migration-environment-2-a59a23d1-5ef5-41e9-8ccb-f82b8eb29433 --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-amd64-gudhi-20251114-041217-juju-7f2275-prod-proposed-migration-environment-2-a59a23d1-5ef5-41e9-8ccb-f82b8eb29433 from image adt/ubuntu-resolute-amd64-server-20251113.img (UUID 05e26563-99bf-4212-bbdc-c963dd13d0a3)... 55s autopkgtest [04:13:12]: testbed dpkg architecture: amd64 55s autopkgtest [04:13:12]: testbed apt version: 3.1.11 55s autopkgtest [04:13:12]: @@@@@@@@@@@@@@@@@@@@ test bed setup 56s autopkgtest [04:13:13]: testbed release detected to be: None 56s autopkgtest [04:13:13]: updating testbed package index (apt update) 57s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [87.8 kB] 57s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 57s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 57s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 57s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [22.4 kB] 57s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [9848 B] 57s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [787 kB] 58s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [83.2 kB] 58s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [117 kB] 58s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [160 kB] 58s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [3120 B] 58s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted i386 Packages [3744 B] 58s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 Packages [64.6 kB] 58s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [336 B] 58s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [236 kB] 58s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [477 kB] 58s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [16.0 kB] 58s Get:18 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [5984 B] 58s Get:19 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [12.9 kB] 58s Get:20 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [628 B] 59s Fetched 2088 kB in 1s (1769 kB/s) 60s Reading package lists... 61s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 61s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 61s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 61s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 62s Reading package lists... 62s Reading package lists... 62s Building dependency tree... 62s Reading state information... 62s Calculating upgrade... 62s The following packages will be upgraded: 62s 3cpio cron cron-daemon-common fwupd libcap2 libcap2-bin libfwupd3 libpam-cap 62s liburcu8t64 libxml2-16 lto-disabled-list 62s 11 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 62s Need to get 7045 kB of archives. 62s After this operation, 53.2 kB of additional disk space will be used. 62s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 cron amd64 3.0pl1-200ubuntu1 [88.6 kB] 63s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libcap2 amd64 1:2.75-10ubuntu1 [31.1 kB] 63s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libpam-cap amd64 1:2.75-10ubuntu1 [12.7 kB] 63s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 libcap2-bin amd64 1:2.75-10ubuntu1 [33.5 kB] 63s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 libxml2-16 amd64 2.15.1+dfsg-0.3 [632 kB] 63s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 cron-daemon-common all 3.0pl1-200ubuntu1 [15.7 kB] 63s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 liburcu8t64 amd64 0.15.5-1 [64.2 kB] 63s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 3cpio amd64 0.12.0-1ubuntu1 [286 kB] 63s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 fwupd amd64 2.0.17-6 [5730 kB] 63s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 libfwupd3 amd64 2.0.17-6 [139 kB] 63s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 lto-disabled-list all 72 [12.4 kB] 64s dpkg-preconfigure: unable to re-open stdin: No such file or directory 64s Fetched 7045 kB in 1s (5869 kB/s) 64s (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 ... 82963 files and directories currently installed.) 64s Preparing to unpack .../cron_3.0pl1-200ubuntu1_amd64.deb ... 64s Unpacking cron (3.0pl1-200ubuntu1) over (3.0pl1-196ubuntu2) ... 64s Preparing to unpack .../libcap2_1%3a2.75-10ubuntu1_amd64.deb ... 64s Unpacking libcap2:amd64 (1:2.75-10ubuntu1) over (1:2.75-7ubuntu2) ... 64s Setting up libcap2:amd64 (1:2.75-10ubuntu1) ... 64s (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 ... 82963 files and directories currently installed.) 64s Preparing to unpack .../0-libpam-cap_1%3a2.75-10ubuntu1_amd64.deb ... 64s Unpacking libpam-cap:amd64 (1:2.75-10ubuntu1) over (1:2.75-7ubuntu2) ... 64s Preparing to unpack .../1-libcap2-bin_1%3a2.75-10ubuntu1_amd64.deb ... 64s Unpacking libcap2-bin (1:2.75-10ubuntu1) over (1:2.75-7ubuntu2) ... 64s Preparing to unpack .../2-libxml2-16_2.15.1+dfsg-0.3_amd64.deb ... 64s Unpacking libxml2-16:amd64 (2.15.1+dfsg-0.3) over (2.14.5+dfsg-0.2build1) ... 64s Preparing to unpack .../3-cron-daemon-common_3.0pl1-200ubuntu1_all.deb ... 64s Unpacking cron-daemon-common (3.0pl1-200ubuntu1) over (3.0pl1-196ubuntu2) ... 65s Preparing to unpack .../4-liburcu8t64_0.15.5-1_amd64.deb ... 65s Unpacking liburcu8t64:amd64 (0.15.5-1) over (0.15.4-1) ... 65s Preparing to unpack .../5-3cpio_0.12.0-1ubuntu1_amd64.deb ... 65s Unpacking 3cpio (0.12.0-1ubuntu1) over (0.11.0-2ubuntu2) ... 65s Preparing to unpack .../6-fwupd_2.0.17-6_amd64.deb ... 65s Unpacking fwupd (2.0.17-6) over (2.0.17-2) ... 65s Preparing to unpack .../7-libfwupd3_2.0.17-6_amd64.deb ... 65s Unpacking libfwupd3:amd64 (2.0.17-6) over (2.0.17-2) ... 65s Preparing to unpack .../8-lto-disabled-list_72_all.deb ... 65s Unpacking lto-disabled-list (72) over (71) ... 65s Setting up liburcu8t64:amd64 (0.15.5-1) ... 65s Setting up 3cpio (0.12.0-1ubuntu1) ... 65s Setting up lto-disabled-list (72) ... 65s Setting up libxml2-16:amd64 (2.15.1+dfsg-0.3) ... 65s Setting up libfwupd3:amd64 (2.0.17-6) ... 65s Setting up libcap2-bin (1:2.75-10ubuntu1) ... 65s Setting up libpam-cap:amd64 (1:2.75-10ubuntu1) ... 65s Setting up fwupd (2.0.17-6) ... 66s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 66s fwupd.service is a disabled or a static unit not running, not starting it. 66s Setting up cron-daemon-common (3.0pl1-200ubuntu1) ... 66s Setting up cron (3.0pl1-200ubuntu1) ... 67s Processing triggers for dbus (1.16.2-2ubuntu2) ... 67s Processing triggers for libc-bin (2.42-2ubuntu2) ... 67s Processing triggers for man-db (2.13.1-1) ... 68s autopkgtest [04:13:25]: upgrading testbed (apt dist-upgrade and autopurge) 68s Reading package lists... 68s Building dependency tree... 68s Reading state information... 68s Calculating upgrade... 68s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 69s Reading package lists... 69s Building dependency tree... 69s Reading state information... 69s Solving dependencies... 69s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 69s autopkgtest [04:13:26]: rebooting testbed after setup commands that affected boot 90s autopkgtest [04:13:47]: testbed running kernel: Linux 6.17.0-5-generic #5-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 22 10:00:33 UTC 2025 93s autopkgtest [04:13:50]: @@@@@@@@@@@@@@@@@@@@ apt-source gudhi 99s Get:1 http://ftpmaster.internal/ubuntu resolute/universe gudhi 3.11.0+dfsg-1 (dsc) [3093 B] 99s Get:2 http://ftpmaster.internal/ubuntu resolute/universe gudhi 3.11.0+dfsg-1 (tar) [17.9 MB] 99s Get:3 http://ftpmaster.internal/ubuntu resolute/universe gudhi 3.11.0+dfsg-1 (diff) [11.6 kB] 99s gpgv: Signature made Mon Mar 24 15:09:51 2025 UTC 99s gpgv: using RSA key CFC5EF8510851E7355B55E809D11582AFD548CFA 99s gpgv: issuer "gspr@nonempty.org" 99s gpgv: Can't check signature: No public key 99s dpkg-source: warning: cannot verify inline signature for ./gudhi_3.11.0+dfsg-1.dsc: no acceptable signature found 100s autopkgtest [04:13:57]: testing package gudhi version 3.11.0+dfsg-1 100s autopkgtest [04:13:57]: build not needed 107s autopkgtest [04:14:04]: test python-upstream.sh: preparing testbed 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s Solving dependencies... 108s The following NEW packages will be installed: 108s blt fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx libblas3 108s libdeflate0 libfontconfig1 libgfortran5 libgomp1 libgraphite2-3 108s libharfbuzz0b libhwloc15 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 108s liblapack3 liblcms2-2 liblerc4 libopenjp2-7 libqhull-r8.0 libraqm0 108s libsharpyuv0 libtbb12 libtbbbind-2-5 libtbbmalloc2 libtcl8.6 libtiff6 108s libtk8.6 libwebp7 libwebpdemux2 libwebpmux3 libxft2 libxrender1 libxslt1.1 108s libxss1 libzopfli1 python-matplotlib-data python3-all python3-brotli 108s python3-contourpy python3-cycler python3-decorator python3-eagerpy 108s python3-fonttools python3-fs python3-gudhi python3-iniconfig python3-joblib 108s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 108s python3-mpmath python3-numpy python3-numpy-dev python3-pil 108s python3-pil.imagetk python3-platformdirs python3-pluggy python3-pot 108s python3-pytest python3-scipy python3-sklearn python3-sklearn-lib 108s python3-sympy python3-threadpoolctl python3-tk python3-ufolib2 108s python3-zopfli python3.13-tk python3.14-tk tk8.6-blt2.5 unicode-data 108s x11-common 108s 0 upgraded, 76 newly installed, 0 to remove and 0 not upgraded. 108s Need to get 92.6 MB of archives. 108s After this operation, 439 MB of additional disk space will be used. 108s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3-numpy-dev amd64 1:2.3.4+ds-3ubuntu1 [147 kB] 108s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7 [259 kB] 109s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 15.2.0-7ubuntu1 [939 kB] 109s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7 [2739 kB] 109s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 python3-numpy amd64 1:2.3.4+ds-3ubuntu1 [8126 kB] 109s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1 [1036 kB] 109s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 109s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 109s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.15.0-2.3ubuntu1 [38.0 kB] 109s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.15.0-2.3ubuntu1 [141 kB] 109s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB] 109s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 109s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB] 109s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 109s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 libtk8.6 amd64 8.6.17-1 [823 kB] 109s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-8 [694 kB] 109s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 blt amd64 2.5.3+dfsg-8 [4824 B] 110s Get:18 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-lyx all 2.4.4-2 [171 kB] 110s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2 [49.9 kB] 110s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 15.2.0-7ubuntu1 [151 kB] 110s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 110s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.1.0-1 [535 kB] 110s Get:23 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhwloc15 amd64 2.12.2-1 [181 kB] 110s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 110s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu2 [152 kB] 110s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 110s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 110s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 110s Get:29 http://ftpmaster.internal/ubuntu resolute/universe amd64 libqhull-r8.0 amd64 2020.2-7 [197 kB] 110s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libraqm0 amd64 0.10.3-1 [15.4 kB] 110s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 110s Get:32 http://ftpmaster.internal/ubuntu resolute/universe amd64 libtbbbind-2-5 amd64 2022.1.0-3 [14.8 kB] 110s Get:33 http://ftpmaster.internal/ubuntu resolute/universe amd64 libtbbmalloc2 amd64 2022.1.0-3 [53.9 kB] 110s Get:34 http://ftpmaster.internal/ubuntu resolute/universe amd64 libtbb12 amd64 2022.1.0-3 [94.1 kB] 110s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 110s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 110s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB] 110s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB] 110s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB] 110s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libxslt1.1 amd64 1.1.43-0.3 [172 kB] 110s Get:41 http://ftpmaster.internal/ubuntu resolute/universe amd64 libzopfli1 amd64 1.0.3-3 [141 kB] 110s Get:42 http://ftpmaster.internal/ubuntu resolute/universe amd64 python-matplotlib-data all 3.10.7+dfsg1-1 [2930 kB] 110s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-all amd64 3.13.7-1 [884 B] 110s Get:44 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-brotli amd64 1.1.0-2build6 [340 kB] 110s Get:45 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-contourpy amd64 1.3.1-2 [255 kB] 110s Get:46 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-cycler all 0.12.1-2 [9850 B] 110s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-decorator all 5.2.1-2 [28.1 kB] 110s Get:48 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-eagerpy all 0.30.0-3 [19.0 kB] 110s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-platformdirs all 4.3.7-1 [16.9 kB] 110s Get:50 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-fs all 2.4.16-8ubuntu1 [91.1 kB] 110s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-lxml amd64 6.0.2-1 [2333 kB] 110s Get:52 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-lz4 amd64 4.4.4+dfsg-3 [27.5 kB] 110s Get:53 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-scipy amd64 1.15.3-1ubuntu1 [20.3 MB] 111s Get:54 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-mpmath all 1.3.0-2 [423 kB] 111s Get:55 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-sympy all 1.14.0-2 [4306 kB] 111s Get:56 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-ufolib2 all 0.17.1+dfsg1-1 [33.5 kB] 111s Get:57 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-zopfli amd64 0.4.0-1 [11.1 kB] 111s Get:58 http://ftpmaster.internal/ubuntu resolute/universe amd64 unicode-data all 16.0.0-1 [9513 kB] 111s Get:59 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-fonttools amd64 4.57.0-2build1 [1731 kB] 111s Get:60 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-gudhi amd64 3.11.0+dfsg-1 [2819 kB] 111s Get:61 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-iniconfig all 2.1.0-1 [6840 B] 111s Get:62 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-joblib all 1.4.2-4 [205 kB] 111s Get:63 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-kiwisolver amd64 1.4.10~rc0-1 [65.5 kB] 111s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 libopenjp2-7 amd64 2.5.3-2.1 [188 kB] 112s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-pil amd64 11.3.0-1ubuntu2 [504 kB] 112s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.14-tk amd64 3.14.0-4 [108 kB] 112s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.13-tk amd64 3.13.9-1 [108 kB] 112s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-tk amd64 3.13.9-1 [8946 B] 112s Get:69 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pil.imagetk amd64 11.3.0-1ubuntu2 [9804 B] 112s Get:70 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-matplotlib amd64 3.10.7+dfsg1-1 [17.2 MB] 112s Get:71 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pluggy all 1.6.0-1 [21.0 kB] 112s Get:72 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pot amd64 0.9.5+dfsg-1build1 [258 kB] 112s Get:73 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytest all 8.3.5-2 [252 kB] 112s Get:74 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-sklearn-lib amd64 1.7.2+dfsg-3ubuntu1 [6361 kB] 112s Get:75 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 112s Get:76 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-sklearn all 1.7.2+dfsg-3ubuntu1 [2616 kB] 113s Fetched 92.6 MB in 4s (20.9 MB/s) 113s Selecting previously unselected package python3-numpy-dev:amd64. 113s (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 ... 82962 files and directories currently installed.) 113s Preparing to unpack .../00-python3-numpy-dev_1%3a2.3.4+ds-3ubuntu1_amd64.deb ... 113s Unpacking python3-numpy-dev:amd64 (1:2.3.4+ds-3ubuntu1) ... 113s Selecting previously unselected package libblas3:amd64. 113s Preparing to unpack .../01-libblas3_3.12.1-7_amd64.deb ... 113s Unpacking libblas3:amd64 (3.12.1-7) ... 113s Selecting previously unselected package libgfortran5:amd64. 113s Preparing to unpack .../02-libgfortran5_15.2.0-7ubuntu1_amd64.deb ... 113s Unpacking libgfortran5:amd64 (15.2.0-7ubuntu1) ... 113s Selecting previously unselected package liblapack3:amd64. 113s Preparing to unpack .../03-liblapack3_3.12.1-7_amd64.deb ... 113s Unpacking liblapack3:amd64 (3.12.1-7) ... 113s Selecting previously unselected package python3-numpy. 113s Preparing to unpack .../04-python3-numpy_1%3a2.3.4+ds-3ubuntu1_amd64.deb ... 113s Unpacking python3-numpy (1:2.3.4+ds-3ubuntu1) ... 113s Selecting previously unselected package libtcl8.6:amd64. 113s Preparing to unpack .../05-libtcl8.6_8.6.17+dfsg-1_amd64.deb ... 113s Unpacking libtcl8.6:amd64 (8.6.17+dfsg-1) ... 113s Selecting previously unselected package fonts-dejavu-mono. 113s Preparing to unpack .../06-fonts-dejavu-mono_2.37-8_all.deb ... 113s Unpacking fonts-dejavu-mono (2.37-8) ... 113s Selecting previously unselected package fonts-dejavu-core. 113s Preparing to unpack .../07-fonts-dejavu-core_2.37-8_all.deb ... 113s Unpacking fonts-dejavu-core (2.37-8) ... 113s Selecting previously unselected package fontconfig-config. 113s Preparing to unpack .../08-fontconfig-config_2.15.0-2.3ubuntu1_amd64.deb ... 114s Unpacking fontconfig-config (2.15.0-2.3ubuntu1) ... 114s Selecting previously unselected package libfontconfig1:amd64. 114s Preparing to unpack .../09-libfontconfig1_2.15.0-2.3ubuntu1_amd64.deb ... 114s Unpacking libfontconfig1:amd64 (2.15.0-2.3ubuntu1) ... 114s Selecting previously unselected package libxrender1:amd64. 114s Preparing to unpack .../10-libxrender1_1%3a0.9.12-1_amd64.deb ... 114s Unpacking libxrender1:amd64 (1:0.9.12-1) ... 114s Selecting previously unselected package libxft2:amd64. 114s Preparing to unpack .../11-libxft2_2.3.6-1build1_amd64.deb ... 114s Unpacking libxft2:amd64 (2.3.6-1build1) ... 114s Selecting previously unselected package x11-common. 114s Preparing to unpack .../12-x11-common_1%3a7.7+24ubuntu1_all.deb ... 114s Unpacking x11-common (1:7.7+24ubuntu1) ... 114s Selecting previously unselected package libxss1:amd64. 114s Preparing to unpack .../13-libxss1_1%3a1.2.3-1build3_amd64.deb ... 114s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 114s Selecting previously unselected package libtk8.6:amd64. 114s Preparing to unpack .../14-libtk8.6_8.6.17-1_amd64.deb ... 114s Unpacking libtk8.6:amd64 (8.6.17-1) ... 114s Selecting previously unselected package tk8.6-blt2.5. 114s Preparing to unpack .../15-tk8.6-blt2.5_2.5.3+dfsg-8_amd64.deb ... 114s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-8) ... 114s Selecting previously unselected package blt. 114s Preparing to unpack .../16-blt_2.5.3+dfsg-8_amd64.deb ... 114s Unpacking blt (2.5.3+dfsg-8) ... 114s Selecting previously unselected package fonts-lyx. 114s Preparing to unpack .../17-fonts-lyx_2.4.4-2_all.deb ... 114s Unpacking fonts-lyx (2.4.4-2) ... 114s Selecting previously unselected package libdeflate0:amd64. 114s Preparing to unpack .../18-libdeflate0_1.23-2_amd64.deb ... 114s Unpacking libdeflate0:amd64 (1.23-2) ... 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unselected package libwebp7:amd64. 114s Preparing to unpack .../35-libwebp7_1.5.0-0.1_amd64.deb ... 114s Unpacking libwebp7:amd64 (1.5.0-0.1) ... 114s Selecting previously unselected package libtiff6:amd64. 114s Preparing to unpack .../36-libtiff6_4.7.0-3ubuntu3_amd64.deb ... 114s Unpacking libtiff6:amd64 (4.7.0-3ubuntu3) ... 114s Selecting previously unselected package libwebpdemux2:amd64. 114s Preparing to unpack .../37-libwebpdemux2_1.5.0-0.1_amd64.deb ... 114s Unpacking libwebpdemux2:amd64 (1.5.0-0.1) ... 114s Selecting previously unselected package libwebpmux3:amd64. 114s Preparing to unpack .../38-libwebpmux3_1.5.0-0.1_amd64.deb ... 114s Unpacking libwebpmux3:amd64 (1.5.0-0.1) ... 114s Selecting previously unselected package libxslt1.1:amd64. 114s Preparing to unpack .../39-libxslt1.1_1.1.43-0.3_amd64.deb ... 114s Unpacking libxslt1.1:amd64 (1.1.43-0.3) ... 114s Selecting previously unselected package libzopfli1. 114s Preparing to unpack .../40-libzopfli1_1.0.3-3_amd64.deb ... 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package python3-decorator. 114s Preparing to unpack .../46-python3-decorator_5.2.1-2_all.deb ... 114s Unpacking python3-decorator (5.2.1-2) ... 114s Selecting previously unselected package python3-eagerpy. 114s Preparing to unpack .../47-python3-eagerpy_0.30.0-3_all.deb ... 114s Unpacking python3-eagerpy (0.30.0-3) ... 114s Selecting previously unselected package python3-platformdirs. 114s Preparing to unpack .../48-python3-platformdirs_4.3.7-1_all.deb ... 114s Unpacking python3-platformdirs (4.3.7-1) ... 114s Selecting previously unselected package python3-fs. 114s Preparing to unpack .../49-python3-fs_2.4.16-8ubuntu1_all.deb ... 114s Unpacking python3-fs (2.4.16-8ubuntu1) ... 114s Selecting previously unselected package python3-lxml:amd64. 114s Preparing to unpack .../50-python3-lxml_6.0.2-1_amd64.deb ... 114s Unpacking python3-lxml:amd64 (6.0.2-1) ... 114s Selecting previously unselected package python3-lz4. 114s Preparing to unpack .../51-python3-lz4_4.4.4+dfsg-3_amd64.deb ... 114s 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python3-pil.imagetk:amd64. 116s Preparing to unpack .../68-python3-pil.imagetk_11.3.0-1ubuntu2_amd64.deb ... 116s Unpacking python3-pil.imagetk:amd64 (11.3.0-1ubuntu2) ... 116s Selecting previously unselected package python3-matplotlib. 116s Preparing to unpack .../69-python3-matplotlib_3.10.7+dfsg1-1_amd64.deb ... 116s Unpacking python3-matplotlib (3.10.7+dfsg1-1) ... 116s Selecting previously unselected package python3-pluggy. 116s Preparing to unpack .../70-python3-pluggy_1.6.0-1_all.deb ... 116s Unpacking python3-pluggy (1.6.0-1) ... 116s Selecting previously unselected package python3-pot. 116s Preparing to unpack .../71-python3-pot_0.9.5+dfsg-1build1_amd64.deb ... 116s Unpacking python3-pot (0.9.5+dfsg-1build1) ... 116s Selecting previously unselected package python3-pytest. 116s Preparing to unpack .../72-python3-pytest_8.3.5-2_all.deb ... 116s Unpacking python3-pytest (8.3.5-2) ... 116s Selecting previously unselected package python3-sklearn-lib:amd64. 116s Preparing to unpack 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(2.4.4-2) ... 117s Setting up python3-threadpoolctl (3.1.0-1) ... 117s Setting up x11-common (1:7.7+24ubuntu1) ... 117s Setting up libdeflate0:amd64 (1.23-2) ... 117s Setting up libqhull-r8.0:amd64 (2020.2-7) ... 117s Setting up python3-all (3.13.7-1) ... 117s Setting up libgomp1:amd64 (15.2.0-7ubuntu1) ... 117s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 117s Setting up python3-platformdirs (4.3.7-1) ... 117s Setting up python3-fs (2.4.16-8ubuntu1) ... 118s Setting up unicode-data (16.0.0-1) ... 118s Setting up python3-decorator (5.2.1-2) ... 118s Setting up libblas3:amd64 (3.12.1-7) ... 118s 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 118s Setting up libzopfli1 (1.0.3-3) ... 118s Setting up python3-brotli (1.1.0-2build6) ... 118s Setting up python3-cycler (0.12.1-2) ... 118s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 118s Setting up fonts-dejavu-mono (2.37-8) ... 118s Setting up python3-kiwisolver (1.4.10~rc0-1) ... 118s Setting up libhwloc15:amd64 (2.12.2-1) ... 118s Setting up python3-numpy-dev:amd64 (1:2.3.4+ds-3ubuntu1) ... 118s Setting up libtcl8.6:amd64 (8.6.17+dfsg-1) ... 118s Setting up fonts-dejavu-core (2.37-8) ... 118s Setting up libjpeg-turbo8:amd64 (2.1.5-4ubuntu2) ... 118s Setting up libgfortran5:amd64 (15.2.0-7ubuntu1) ... 118s Setting up python3-pluggy (1.6.0-1) ... 118s Setting up libwebp7:amd64 (1.5.0-0.1) ... 118s Setting up libxslt1.1:amd64 (1.1.43-0.3) ... 118s Setting up libopenjp2-7:amd64 (2.5.3-2.1) ... 118s Setting up libharfbuzz0b:amd64 (12.1.0-1) ... 118s Setting up libxss1:amd64 (1:1.2.3-1build3) ... 118s Setting up python3-mpmath (1.3.0-2) ... 118s Setting up python-matplotlib-data (3.10.7+dfsg1-1) ... 118s Setting up libwebpmux3:amd64 (1.5.0-0.1) ... 118s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 118s Setting up python3-sympy (1.14.0-2) ... 123s Setting up liblapack3:amd64 (3.12.1-7) ... 123s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 123s Setting up fontconfig-config (2.15.0-2.3ubuntu1) ... 123s Setting up python3-pytest (8.3.5-2) ... 124s Setting up libwebpdemux2:amd64 (1.5.0-0.1) ... 124s Setting up python3-zopfli (0.4.0-1) ... 124s Setting up libtbbbind-2-5:amd64 (2022.1.0-3) ... 124s Setting up libraqm0:amd64 (0.10.3-1) ... 124s Setting up python3-numpy (1:2.3.4+ds-3ubuntu1) ... 125s Setting up python3-lxml:amd64 (6.0.2-1) ... 125s Setting up libtiff6:amd64 (4.7.0-3ubuntu3) ... 125s Setting up python3-contourpy (1.3.1-2) ... 126s Setting up libfontconfig1:amd64 (2.15.0-2.3ubuntu1) ... 126s Setting up libxft2:amd64 (2.3.6-1build1) ... 126s Setting up python3-scipy (1.15.3-1ubuntu1) ... 128s Setting up python3-pot (0.9.5+dfsg-1build1) ... 129s /usr/lib/python3/dist-packages/ot/unbalanced/_lbfgs.py:38: SyntaxWarning: invalid escape sequence '\m' 129s If None, then use :math:`\mathbf{c} = \mathbf{a} \mathbf{b}^T`. 129s Setting up libtk8.6:amd64 (8.6.17-1) ... 129s Setting up python3-sklearn-lib:amd64 (1.7.2+dfsg-3ubuntu1) ... 129s Setting up libtbb12:amd64 (2022.1.0-3) ... 129s Setting up python3.13-tk (3.13.9-1) ... 129s Setting up python3-pil:amd64 (11.3.0-1ubuntu2) ... 129s Setting up python3-eagerpy (0.30.0-3) ... 129s Setting up python3-sklearn (1.7.2+dfsg-3ubuntu1) ... 131s Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ... 131s Setting up python3.14-tk (3.14.0-4) ... 131s Setting up blt (2.5.3+dfsg-8) ... 131s Setting up python3-tk:amd64 (3.13.9-1) ... 131s Setting up python3-gudhi (3.11.0+dfsg-1) ... 131s /usr/lib/python3/dist-packages/gudhi/persistence_graphical_tools.py:290: SyntaxWarning: invalid escape sequence '\l' 131s :param band: band (not displayed if :math:`\leq` 0. - default is 0.) 131s Setting up python3-pil.imagetk:amd64 (11.3.0-1ubuntu2) ... 131s Setting up python3-fonttools (4.57.0-2build1) ... 132s Setting up python3-ufolib2 (0.17.1+dfsg1-1) ... 132s Setting up python3-matplotlib (3.10.7+dfsg1-1) ... 133s Processing triggers for libc-bin (2.42-2ubuntu2) ... 133s Processing triggers for man-db (2.13.1-1) ... 135s autopkgtest [04:14:32]: test python-upstream.sh: [----------------------- 135s Running tests with Python 3.13. 137s Blacklist: ['test_knn.py', 'test_representations.py', 'test_wasserstein_distance.py::test_wasserstein_distance_grad', 'test_remote_datasets.py'] 137s Ignorelist: ['test_diff.py', 'test_dtm.py', 'test_perslay.py', 'test_wasserstein_with_tensors.py'] 137s ============================= test session starts ============================== 137s platform linux -- Python 3.13.9, pytest-8.3.5, pluggy-1.6.0 137s rootdir: /tmp/autopkgtest.xByzNl/autopkgtest_tmp 137s plugins: typeguard-4.4.2 137s collected 170 items / 32 deselected / 138 selected 137s 137s test/test_alpha_complex.py ...... [ 4%] 137s test/test_betti_curve_representations.py .... [ 7%] 137s test/test_bottleneck_distance.py . [ 7%] 137s test/test_collapse_edges.py .. [ 9%] 137s test/test_cover_complex.py ....... [ 14%] 137s test/test_cubical_complex.py .................. [ 27%] 137s test/test_datasets_generators.py .. [ 28%] 137s test/test_delaunay_complex.py ........ [ 34%] 137s test/test_dtm_rips_complex.py ... [ 36%] 137s test/test_euclidean_witness_complex.py .... [ 39%] 137s test/test_off.py .... [ 42%] 138s test/test_persistence_graphical_tools.py ........ [ 48%] 138s test/test_reader_utils.py ...... [ 52%] 138s test/test_representations_interface.py ..... [ 56%] 138s test/test_representations_preprocessing.py . [ 57%] 138s test/test_rips_complex.py ....... [ 62%] 138s test/test_simplex_generators.py ... [ 64%] 138s test/test_simplex_tree.py .................... [ 78%] 138s test/test_simplex_tree_serialization.py .. [ 80%] 138s test/test_sklearn_cubical_persistence.py ... [ 82%] 142s test/test_sklearn_rips_persistence.py ....... [ 87%] 142s test/test_subsampling.py ..... [ 91%] 142s test/test_tangential_complex.py . [ 92%] 142s test/test_time_delay.py . [ 92%] 142s test/test_tomato.py .. [ 94%] 142s test/test_wasserstein_barycenter.py . [ 94%] 142s test/test_weighted_rips_complex.py .... [ 97%] 142s test/test_witness_complex.py ... [100%] 142s 142s =============================== warnings summary =============================== 142s test/test_persistence_graphical_tools.py::test_limit_plot_persistence 142s /usr/lib/python3/dist-packages/gudhi/persistence_graphical_tools.py:129: UserWarning: usetex mode requires TeX. 142s warnings.warn("usetex mode requires TeX.") 142s 142s test/test_representations_interface.py::test_compose 142s /usr/lib/python3/dist-packages/sklearn/base.py:1365: ConvergenceWarning: Number of distinct clusters (1) found smaller than n_clusters (2). Possibly due to duplicate points in X. 142s return fit_method(estimator, *args, **kwargs) 142s 142s test/test_representations_interface.py::test_compose 142s /usr/lib/python3/dist-packages/gudhi/representations/vector_methods.py:711: RuntimeWarning: invalid value encountered in divide 142s return np.exp(-cdist(XA=measure, XB=centers, metric="sqeuclidean") / inertias**2) 142s 142s test/test_wasserstein_barycenter.py::test_lagrangian_barycenter 142s /usr/lib/python3/dist-packages/gudhi/wasserstein/barycenter.py:61: UserWarning: Computing barycenter of empty diag set. Returns None. 142s warnings.warn("Computing barycenter of empty diag set. Returns None.") 142s 142s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 142s ================ 138 passed, 32 deselected, 4 warnings in 6.70s ================ 143s ********** 143s autopkgtest [04:14:40]: test python-upstream.sh: -----------------------] 143s autopkgtest [04:14:40]: test python-upstream.sh: - - - - - - - - - - results - - - - - - - - - - 143s python-upstream.sh PASS 144s autopkgtest [04:14:41]: @@@@@@@@@@@@@@@@@@@@ summary 144s python-upstream.sh PASS