0s autopkgtest [11:25:46]: starting date and time: 2025-02-19 11:25:46+0000 0s autopkgtest [11:25:46]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [11:25:46]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.0kblcf3c/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:sphinx --apt-upgrade bmtk --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=sphinx/8.1.3-5 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-15.secgroup --name adt-plucky-amd64-bmtk-20250219-111836-juju-7f2275-prod-proposed-migration-environment-15-f435c7a3-d58b-42d5-86c8-79431fba5612 --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,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 106s autopkgtest [11:27:32]: testbed dpkg architecture: amd64 106s autopkgtest [11:27:32]: testbed apt version: 2.9.29 106s autopkgtest [11:27:32]: @@@@@@@@@@@@@@@@@@@@ test bed setup 107s autopkgtest [11:27:33]: testbed release detected to be: None 107s autopkgtest [11:27:33]: updating testbed package index (apt update) 108s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 108s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 108s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 108s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 108s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.9 kB] 108s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.1 kB] 108s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [750 kB] 108s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 108s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [101 kB] 108s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [81.8 kB] 108s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [7984 B] 108s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/restricted i386 Packages [2412 B] 108s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [265 kB] 108s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [697 kB] 108s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [3128 B] 108s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [11.5 kB] 109s Fetched 2124 kB in 1s (2227 kB/s) 109s Reading package lists... 110s + lsb_release --codename --short 110s + RELEASE=plucky 110s + cat 110s + [ plucky != trusty ] 110s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 110s Reading package lists... 110s Building dependency tree... 110s Reading state information... 111s Calculating upgrade... 111s The following NEW packages will be installed: 111s libapt-pkg7.0 111s The following packages will be upgraded: 111s apt apt-utils iproute2 liblsof0 libp11-kit0 lsof rsyslog 111s 7 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 111s Need to get 5234 kB of archives. 111s After this operation, 4074 kB of additional disk space will be used. 111s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.30 [1131 kB] 112s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.30 [1434 kB] 112s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.30 [222 kB] 112s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 iproute2 amd64 6.13.0-1ubuntu1 [1277 kB] 112s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libp11-kit0 amd64 0.25.5-2ubuntu3 [311 kB] 112s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu1 [555 kB] 112s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 lsof amd64 4.99.4+dfsg-1 [245 kB] 112s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsof0 amd64 4.99.4+dfsg-1 [59.6 kB] 112s Preconfiguring packages ... 112s Fetched 5234 kB in 1s (6827 kB/s) 112s Selecting previously unselected package libapt-pkg7.0: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 ... 108925 files and directories currently installed.) 113s Preparing to unpack .../libapt-pkg7.0_2.9.30_amd64.deb ... 113s Unpacking libapt-pkg7.0:amd64 (2.9.30) ... 113s Setting up libapt-pkg7.0:amd64 (2.9.30) ... 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 ... 108974 files and directories currently installed.) 113s Preparing to unpack .../archives/apt_2.9.30_amd64.deb ... 113s Unpacking apt (2.9.30) over (2.9.29) ... 113s Setting up apt (2.9.30) ... 114s (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 ... 108974 files and directories currently installed.) 114s Preparing to unpack .../0-apt-utils_2.9.30_amd64.deb ... 114s Unpacking apt-utils (2.9.30) over (2.9.29) ... 114s Preparing to unpack .../1-iproute2_6.13.0-1ubuntu1_amd64.deb ... 114s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 114s Preparing to unpack .../2-libp11-kit0_0.25.5-2ubuntu3_amd64.deb ... 114s Unpacking libp11-kit0:amd64 (0.25.5-2ubuntu3) over (0.25.5-2ubuntu2) ... 114s Preparing to unpack .../3-rsyslog_8.2412.0-2ubuntu1_amd64.deb ... 114s Unpacking rsyslog (8.2412.0-2ubuntu1) over (8.2412.0-1ubuntu1) ... 114s Preparing to unpack .../4-lsof_4.99.4+dfsg-1_amd64.deb ... 114s Unpacking lsof (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 114s Preparing to unpack .../5-liblsof0_4.99.4+dfsg-1_amd64.deb ... 114s Unpacking liblsof0 (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 114s Setting up apt-utils (2.9.30) ... 114s Setting up liblsof0 (4.99.4+dfsg-1) ... 114s Setting up iproute2 (6.13.0-1ubuntu1) ... 114s Setting up rsyslog (8.2412.0-2ubuntu1) ... 114s info: The user `syslog' is already a member of `adm'. 116s Setting up libp11-kit0:amd64 (0.25.5-2ubuntu3) ... 116s Setting up lsof (4.99.4+dfsg-1) ... 116s Processing triggers for man-db (2.13.0-1) ... 117s Processing triggers for libc-bin (2.40-4ubuntu1) ... 117s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 117s + /usr/lib/apt/apt-helper analyze-pattern ?true 117s + uname -r 117s + sed s/\./\\./g 117s + running_kernel_pattern=^linux-.*6\.12\.0-15-generic.* 117s + apt list ?obsolete 117s + tail -n+2 117s + cut -d/ -f1 117s + grep -v ^linux-.*6\.12\.0-15-generic.* 119s + true 119s + obsolete_pkgs= 119s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 119s + grep -q trusty /etc/lsb-release 119s + [ ! -d /usr/share/doc/unattended-upgrades ] 119s + [ ! -d /usr/share/doc/lxd ] 119s + [ ! -d /usr/share/doc/lxd-client ] 119s + [ ! -d /usr/share/doc/snapd ] 119s + type iptables 119s + cat 119s + chmod 755 /etc/rc.local 119s + . /etc/rc.local 119s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 119s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 119s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 119s + uname -m 119s + [ x86_64 = ppc64le ] 119s + [ -d /run/systemd/system ] 119s + systemd-detect-virt --quiet --vm 119s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 119s + cat 119s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 119s + echo COMPRESS=lz4 119s autopkgtest [11:27:45]: upgrading testbed (apt dist-upgrade and autopurge) 119s Reading package lists... 120s Building dependency tree... 120s Reading state information... 120s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 120s Starting 2 pkgProblemResolver with broken count: 0 120s Done 120s Entering ResolveByKeep 121s 121s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 121s Reading package lists... 121s Building dependency tree... 121s Reading state information... 122s Starting pkgProblemResolver with broken count: 0 122s Starting 2 pkgProblemResolver with broken count: 0 122s Done 122s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 122s autopkgtest [11:27:48]: rebooting testbed after setup commands that affected boot 146s autopkgtest [11:28:12]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP PREEMPT_DYNAMIC Tue Feb 4 16:02:16 UTC 2025 149s autopkgtest [11:28:15]: @@@@@@@@@@@@@@@@@@@@ apt-source bmtk 154s Get:1 http://ftpmaster.internal/ubuntu plucky/universe bmtk 1.1.1+ds-3 (dsc) [2744 B] 154s Get:2 http://ftpmaster.internal/ubuntu plucky/universe bmtk 1.1.1+ds-3 (tar) [62.8 MB] 154s Get:3 http://ftpmaster.internal/ubuntu plucky/universe bmtk 1.1.1+ds-3 (diff) [10.9 kB] 154s gpgv: Signature made Fri Dec 6 20:37:01 2024 UTC 154s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 154s gpgv: issuer "tille@debian.org" 154s gpgv: Can't check signature: No public key 154s dpkg-source: warning: cannot verify inline signature for ./bmtk_1.1.1+ds-3.dsc: no acceptable signature found 156s autopkgtest [11:28:22]: testing package bmtk version 1.1.1+ds-3 156s autopkgtest [11:28:22]: build not needed 164s autopkgtest [11:28:30]: test run-unit-test: preparing testbed 165s Reading package lists... 165s Building dependency tree... 165s Reading state information... 165s Starting pkgProblemResolver with broken count: 0 165s Starting 2 pkgProblemResolver with broken count: 0 165s Done 166s The following NEW packages will be installed: 166s blt fontconfig-config fonts-bebas-neue fonts-dejavu-core fonts-dejavu-mono 166s fonts-lyx fonts-mathjax libaec0 libamd-comgr2 libamdhip64-5 libblas3 166s libdeflate0 libevent-pthreads-2.1-7t64 libfabric1 libfontconfig1 166s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-310 166s libhdf5-hl-310 libhsa-runtime64-1 libhsakmt1 libhwloc-plugins libhwloc15 166s libibmad5 libibumad3 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 166s libjs-jquery libjs-jquery-ui libjs-mathjax libjs-requirejs libjs-sphinxdoc 166s libjs-underscore liblapack3 liblbfgsb0 liblcms2-2 liblerc4 libllvm17t64 166s liblzf1 libmunge2 libopenjp2-7 libopenmpi40 libpciaccess0 libpmix2t64 166s libpsm-infinipath1 libpsm2-2 libqhull-r8.0 libraqm0 librdmacm1t64 166s libsharpyuv0 libsz2 libtcl8.6 libtiff6 libtk8.6 libucx0 libwebp7 166s libwebpdemux2 libwebpmux3 libxft2 libxnvctrl0 libxrender1 libxslt1.1 libxss1 166s mpi-default-bin ocl-icd-libopencl1 openmpi-bin openmpi-common 166s python-matplotlib-data python3-all python3-bmtk python3-bmtk-doc 166s python3-bmtk-examples python3-brotli python3-contourpy python3-cycler 166s python3-dateutil python3-decorator python3-fonttools python3-fs python3-h5py 166s python3-h5py-serial python3-imageio python3-iniconfig python3-kiwisolver 166s python3-lazy-loader python3-lxml python3-lz4 python3-matplotlib 166s python3-mpi4py python3-mpmath python3-networkx python3-numpy 166s python3-packaging python3-pandas python3-pandas-lib python3-pil 166s python3-pil.imagetk python3-platformdirs python3-pluggy python3-pytest 166s python3-pytz python3-scipy python3-six python3-skimage python3-skimage-lib 166s python3-sympy python3-tifffile python3-tk python3-tz python3-ufolib2 166s python3-unicodedata2 python3.12 python3.12-minimal python3.12-tk 166s python3.13-tk tk8.6-blt2.5 unicode-data x11-common 166s 0 upgraded, 122 newly installed, 0 to remove and 0 not upgraded. 166s Need to get 276 MB of archives. 166s After this operation, 1093 MB of additional disk space will be used. 166s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-minimal amd64 3.12.9-1 [2348 kB] 167s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12 amd64 3.12.9-1 [671 kB] 167s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB] 167s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 168s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 168s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2ubuntu1 [37.4 kB] 168s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2ubuntu1 [164 kB] 168s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 168s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 168s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 168s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 168s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB] 168s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7build1 [630 kB] 168s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-7build1 [4840 B] 168s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-bebas-neue all 3.0-2 [94.6 kB] 168s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.3-1 [171 kB] 168s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 169s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 169s Get:19 http://ftpmaster.internal/ubuntu plucky/universe amd64 libllvm17t64 amd64 1:17.0.6-20 [26.0 MB] 173s Get:20 http://ftpmaster.internal/ubuntu plucky/universe amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3build2 [14.4 MB] 175s Get:21 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhsakmt1 amd64 5.7.0-1build1 [62.9 kB] 175s Get:22 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhsa-runtime64-1 amd64 5.7.1-2build1 [491 kB] 175s Get:23 http://ftpmaster.internal/ubuntu plucky/universe amd64 libamdhip64-5 amd64 5.7.1-5 [9643 kB] 176s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 176s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 176s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10 [7966 B] 176s Get:27 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.3build1 [178 kB] 176s Get:28 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpsm2-2 amd64 11.2.185-2.1 [193 kB] 176s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 librdmacm1t64 amd64 55.0-1ubuntu1 [71.5 kB] 176s Get:30 http://ftpmaster.internal/ubuntu plucky/universe amd64 libfabric1 amd64 1.17.0-3ubuntu1 [658 kB] 177s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250213-1ubuntu1 [920 kB] 177s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250213-1ubuntu1 [148 kB] 177s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 177s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 177s Get:35 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 177s Get:36 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-310 amd64 1.14.5+repack-3 [1519 kB] 177s Get:37 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [62.6 kB] 177s Get:38 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhwloc15 amd64 2.12.0-1 [194 kB] 177s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 177s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 177s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 177s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 177s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 177s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 177s Get:45 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libjs-sphinxdoc all 8.1.3-5 [31.0 kB] 177s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 178s Get:47 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 178s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 178s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 178s Get:50 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 178s Get:51 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmunge2 amd64 0.5.16-1 [16.5 kB] 178s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libpciaccess0 amd64 0.17-3build1 [18.6 kB] 178s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libxnvctrl0 amd64 510.47.03-0ubuntu4 [12.6 kB] 178s Get:54 http://ftpmaster.internal/ubuntu plucky/universe amd64 ocl-icd-libopencl1 amd64 2.3.2-1build1 [38.5 kB] 178s Get:55 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhwloc-plugins amd64 2.12.0-1 [16.0 kB] 178s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpmix2t64 amd64 5.0.6-3 [714 kB] 178s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libibumad3 amd64 55.0-1ubuntu1 [29.7 kB] 178s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libibmad5 amd64 55.0-1ubuntu1 [42.7 kB] 178s Get:59 http://ftpmaster.internal/ubuntu plucky/universe amd64 libucx0 amd64 1.17.0+ds-3build1 [1162 kB] 179s Get:60 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenmpi40 amd64 5.0.6-4 [2523 kB] 179s Get:61 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 179s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.2-1 [17.2 kB] 179s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 179s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 179s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 179s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 179s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB] 179s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB] 179s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu2 [175 kB] 179s Get:70 http://ftpmaster.internal/ubuntu plucky/universe amd64 openmpi-common all 5.0.6-4 [97.7 kB] 179s Get:71 http://ftpmaster.internal/ubuntu plucky/universe amd64 openmpi-bin amd64 5.0.6-4 [191 kB] 179s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-3ubuntu2 [2929 kB] 179s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.13.1-1~exp2 [894 B] 179s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-13 [5319 kB] 180s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py-serial amd64 3.12.1-1 [1677 kB] 180s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py all 3.12.1-1 [7970 B] 180s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-3 [80.2 kB] 180s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu3 [217 kB] 180s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 11.1.0-5 [589 kB] 180s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.9-1 [116 kB] 180s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-tk amd64 3.13.2-1 [107 kB] 180s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.13.1-1 [9770 B] 180s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 11.1.0-5 [9936 B] 180s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.1-1 [271 kB] 180s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B] 180s Get:86 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build3 [368 kB] 180s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pytz all 2025.1-3 [162 kB] 180s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2025.1-3 [1866 B] 180s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 180s Get:90 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-6 [90.7 kB] 180s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.1-1 [1831 kB] 180s Get:92 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.4.0+dfsg-1 [27.4 kB] 180s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 180s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.14.1-4ubuntu1 [22.3 MB] 183s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 183s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB] 183s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.17.0+dfsg1-1 [33.5 kB] 183s Get:98 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-unicodedata2 amd64 15.1.0+ds-1build2 [360 kB] 183s Get:99 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB] 184s Get:100 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.55.3-2 [1755 kB] 184s Get:101 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-3 [70.4 kB] 184s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB] 184s Get:103 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-3ubuntu2 [4697 kB] 185s Get:104 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-8 [8248 kB] 186s Get:105 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-8 [3112 kB] 186s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.17.0-1 [13.2 kB] 186s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-networkx all 3.2.1-4ubuntu1 [11.5 MB] 187s Get:108 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-skimage-lib amd64 0.25.1-1 [5052 kB] 187s Get:109 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-imageio all 2.37.0-1 [234 kB] 187s Get:110 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lazy-loader all 0.4-1 [11.1 kB] 187s Get:111 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-tifffile all 20250110-1 [177 kB] 187s Get:112 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-skimage all 0.25.1-1 [21.5 MB] 189s Get:113 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-bmtk amd64 1.1.1+ds-3 [575 kB] 189s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 189s Get:115 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-requirejs all 2.3.7+ds+~2.1.37-1 [201 kB] 189s Get:116 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-bmtk-doc all 1.1.1+ds-3 [52.9 MB] 191s Get:117 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-bmtk-examples all 1.1.1+ds-3 [32.6 MB] 192s Get:118 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 192s Get:119 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 192s Get:120 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.4-1 [252 kB] 192s Get:121 http://ftpmaster.internal/ubuntu plucky/universe amd64 mpi-default-bin amd64 1.18 [2510 B] 192s Get:122 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpi4py amd64 4.0.1-6ubuntu1 [1098 kB] 193s Fetched 276 MB in 27s (10.3 MB/s) 193s Selecting previously unselected package python3.12-minimal. 193s (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 ... 108975 files and directories currently installed.) 193s Preparing to unpack .../000-python3.12-minimal_3.12.9-1_amd64.deb ... 193s Unpacking python3.12-minimal (3.12.9-1) ... 193s Selecting previously unselected package python3.12. 193s Preparing to unpack .../001-python3.12_3.12.9-1_amd64.deb ... 193s Unpacking python3.12 (3.12.9-1) ... 193s Selecting previously unselected package libtcl8.6:amd64. 193s Preparing to unpack .../002-libtcl8.6_8.6.16+dfsg-1_amd64.deb ... 193s Unpacking libtcl8.6:amd64 (8.6.16+dfsg-1) ... 193s Selecting previously unselected package fonts-dejavu-mono. 193s Preparing to unpack .../003-fonts-dejavu-mono_2.37-8_all.deb ... 193s Unpacking fonts-dejavu-mono (2.37-8) ... 193s Selecting previously unselected package fonts-dejavu-core. 193s Preparing to unpack .../004-fonts-dejavu-core_2.37-8_all.deb ... 194s Unpacking fonts-dejavu-core (2.37-8) ... 194s Selecting previously unselected package fontconfig-config. 194s Preparing to unpack .../005-fontconfig-config_2.15.0-2ubuntu1_amd64.deb ... 194s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 194s Selecting previously unselected package libfontconfig1:amd64. 194s Preparing to unpack .../006-libfontconfig1_2.15.0-2ubuntu1_amd64.deb ... 194s Unpacking libfontconfig1:amd64 (2.15.0-2ubuntu1) ... 194s Selecting previously unselected package libxrender1:amd64. 194s Preparing to unpack .../007-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 194s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 194s Selecting previously unselected package libxft2:amd64. 194s Preparing to unpack .../008-libxft2_2.3.6-1build1_amd64.deb ... 194s Unpacking libxft2:amd64 (2.3.6-1build1) ... 194s Selecting previously unselected package x11-common. 194s Preparing to unpack .../009-x11-common_1%3a7.7+23ubuntu3_all.deb ... 194s Unpacking x11-common (1:7.7+23ubuntu3) ... 194s Selecting previously unselected package libxss1:amd64. 194s Preparing to unpack .../010-libxss1_1%3a1.2.3-1build3_amd64.deb ... 194s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 194s Selecting previously unselected package libtk8.6:amd64. 194s Preparing to unpack .../011-libtk8.6_8.6.16-1_amd64.deb ... 194s Unpacking libtk8.6:amd64 (8.6.16-1) ... 194s Selecting previously unselected package tk8.6-blt2.5. 194s Preparing to unpack .../012-tk8.6-blt2.5_2.5.3+dfsg-7build1_amd64.deb ... 194s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 194s Selecting previously unselected package blt. 194s Preparing to unpack .../013-blt_2.5.3+dfsg-7build1_amd64.deb ... 194s Unpacking blt (2.5.3+dfsg-7build1) ... 194s Selecting previously unselected package fonts-bebas-neue. 194s Preparing to unpack .../014-fonts-bebas-neue_3.0-2_all.deb ... 194s Unpacking fonts-bebas-neue (3.0-2) ... 194s Selecting previously unselected package fonts-lyx. 194s Preparing to unpack .../015-fonts-lyx_2.4.3-1_all.deb ... 194s Unpacking fonts-lyx (2.4.3-1) ... 194s Selecting previously unselected package fonts-mathjax. 194s Preparing to unpack .../016-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 194s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 194s Selecting previously unselected package libaec0:amd64. 194s Preparing to unpack .../017-libaec0_1.1.3-1_amd64.deb ... 194s Unpacking libaec0:amd64 (1.1.3-1) ... 194s Selecting previously unselected package libllvm17t64:amd64. 194s Preparing to unpack .../018-libllvm17t64_1%3a17.0.6-20_amd64.deb ... 194s Unpacking libllvm17t64:amd64 (1:17.0.6-20) ... 195s Selecting previously unselected package libamd-comgr2:amd64. 195s Preparing to unpack .../019-libamd-comgr2_6.0+git20231212.4510c28+dfsg-3build2_amd64.deb ... 195s Unpacking libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3build2) ... 195s Selecting previously unselected package libhsakmt1:amd64. 195s Preparing to unpack .../020-libhsakmt1_5.7.0-1build1_amd64.deb ... 195s Unpacking libhsakmt1:amd64 (5.7.0-1build1) ... 195s Selecting previously unselected package libhsa-runtime64-1. 195s Preparing to unpack .../021-libhsa-runtime64-1_5.7.1-2build1_amd64.deb ... 195s Unpacking libhsa-runtime64-1 (5.7.1-2build1) ... 195s Selecting previously unselected package libamdhip64-5. 195s Preparing to unpack .../022-libamdhip64-5_5.7.1-5_amd64.deb ... 195s Unpacking libamdhip64-5 (5.7.1-5) ... 195s Selecting previously unselected package libblas3:amd64. 195s Preparing to unpack .../023-libblas3_3.12.1-2_amd64.deb ... 195s Unpacking libblas3:amd64 (3.12.1-2) ... 195s Selecting previously unselected package libdeflate0:amd64. 195s Preparing to unpack .../024-libdeflate0_1.23-1_amd64.deb ... 195s Unpacking libdeflate0:amd64 (1.23-1) ... 195s Selecting previously unselected package libevent-pthreads-2.1-7t64:amd64. 195s Preparing to unpack .../025-libevent-pthreads-2.1-7t64_2.1.12-stable-10_amd64.deb ... 195s Unpacking libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ... 196s Selecting previously unselected package libpsm-infinipath1. 196s Preparing to unpack .../026-libpsm-infinipath1_3.3+20.604758e7-6.3build1_amd64.deb ... 196s Unpacking libpsm-infinipath1 (3.3+20.604758e7-6.3build1) ... 196s Selecting previously unselected package libpsm2-2. 196s Preparing to unpack .../027-libpsm2-2_11.2.185-2.1_amd64.deb ... 196s Unpacking libpsm2-2 (11.2.185-2.1) ... 196s Selecting previously unselected package librdmacm1t64:amd64. 196s Preparing to unpack .../028-librdmacm1t64_55.0-1ubuntu1_amd64.deb ... 196s Unpacking librdmacm1t64:amd64 (55.0-1ubuntu1) ... 196s Selecting previously unselected package libfabric1:amd64. 196s Preparing to unpack .../029-libfabric1_1.17.0-3ubuntu1_amd64.deb ... 196s Unpacking libfabric1:amd64 (1.17.0-3ubuntu1) ... 196s Selecting previously unselected package libgfortran5:amd64. 196s Preparing to unpack .../030-libgfortran5_15-20250213-1ubuntu1_amd64.deb ... 196s Unpacking libgfortran5:amd64 (15-20250213-1ubuntu1) ... 196s Selecting previously unselected package libgomp1:amd64. 196s Preparing to unpack .../031-libgomp1_15-20250213-1ubuntu1_amd64.deb ... 196s Unpacking libgomp1:amd64 (15-20250213-1ubuntu1) ... 196s Selecting previously unselected package libgraphite2-3:amd64. 196s Preparing to unpack .../032-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 196s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 196s Selecting previously unselected package libharfbuzz0b:amd64. 196s Preparing to unpack .../033-libharfbuzz0b_10.2.0-1_amd64.deb ... 196s Unpacking libharfbuzz0b:amd64 (10.2.0-1) ... 196s Selecting previously unselected package libsz2:amd64. 196s Preparing to unpack .../034-libsz2_1.1.3-1_amd64.deb ... 196s Unpacking libsz2:amd64 (1.1.3-1) ... 196s Selecting previously unselected package libhdf5-310:amd64. 196s Preparing to unpack .../035-libhdf5-310_1.14.5+repack-3_amd64.deb ... 196s Unpacking libhdf5-310:amd64 (1.14.5+repack-3) ... 196s Selecting previously unselected package libhdf5-hl-310:amd64. 196s Preparing to unpack .../036-libhdf5-hl-310_1.14.5+repack-3_amd64.deb ... 196s Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-3) ... 196s Selecting previously unselected package libhwloc15:amd64. 196s Preparing to unpack .../037-libhwloc15_2.12.0-1_amd64.deb ... 196s Unpacking libhwloc15:amd64 (2.12.0-1) ... 196s Selecting previously unselected package libimagequant0:amd64. 196s Preparing to unpack .../038-libimagequant0_2.18.0-1build1_amd64.deb ... 196s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 196s Selecting previously unselected package libjpeg-turbo8:amd64. 196s Preparing to unpack .../039-libjpeg-turbo8_2.1.5-3ubuntu2_amd64.deb ... 196s Unpacking libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 196s Selecting previously unselected package libjpeg8:amd64. 196s Preparing to unpack .../040-libjpeg8_8c-2ubuntu11_amd64.deb ... 196s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 196s Selecting previously unselected package libjs-jquery. 196s Preparing to unpack .../041-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 196s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 196s Selecting previously unselected package libjs-jquery-ui. 196s Preparing to unpack .../042-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 196s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 196s Selecting previously unselected package libjs-underscore. 196s Preparing to unpack .../043-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 196s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 196s Selecting previously unselected package libjs-sphinxdoc. 196s Preparing to unpack .../044-libjs-sphinxdoc_8.1.3-5_all.deb ... 196s Unpacking libjs-sphinxdoc (8.1.3-5) ... 196s Selecting previously unselected package liblapack3:amd64. 196s Preparing to unpack .../045-liblapack3_3.12.1-2_amd64.deb ... 196s Unpacking liblapack3:amd64 (3.12.1-2) ... 196s Selecting previously unselected package liblbfgsb0:amd64. 196s Preparing to unpack .../046-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 196s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 196s Selecting previously unselected package liblcms2-2:amd64. 196s Preparing to unpack .../047-liblcms2-2_2.16-2_amd64.deb ... 196s Unpacking liblcms2-2:amd64 (2.16-2) ... 196s Selecting previously unselected package liblerc4:amd64. 196s Preparing to unpack .../048-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ... 196s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 196s Selecting previously unselected package liblzf1:amd64. 196s Preparing to unpack .../049-liblzf1_3.6-4_amd64.deb ... 196s Unpacking liblzf1:amd64 (3.6-4) ... 196s Selecting previously unselected package libmunge2:amd64. 196s Preparing to unpack .../050-libmunge2_0.5.16-1_amd64.deb ... 196s Unpacking libmunge2:amd64 (0.5.16-1) ... 196s Selecting previously unselected package libpciaccess0:amd64. 196s Preparing to unpack .../051-libpciaccess0_0.17-3build1_amd64.deb ... 196s Unpacking libpciaccess0:amd64 (0.17-3build1) ... 197s Selecting previously unselected package libxnvctrl0:amd64. 197s Preparing to unpack .../052-libxnvctrl0_510.47.03-0ubuntu4_amd64.deb ... 197s Unpacking libxnvctrl0:amd64 (510.47.03-0ubuntu4) ... 197s Selecting previously unselected package ocl-icd-libopencl1:amd64. 197s Preparing to unpack .../053-ocl-icd-libopencl1_2.3.2-1build1_amd64.deb ... 197s Unpacking ocl-icd-libopencl1:amd64 (2.3.2-1build1) ... 197s Selecting previously unselected package libhwloc-plugins:amd64. 197s Preparing to unpack .../054-libhwloc-plugins_2.12.0-1_amd64.deb ... 197s Unpacking libhwloc-plugins:amd64 (2.12.0-1) ... 197s Selecting previously unselected package libpmix2t64:amd64. 197s Preparing to unpack .../055-libpmix2t64_5.0.6-3_amd64.deb ... 197s Unpacking libpmix2t64:amd64 (5.0.6-3) ... 197s Selecting previously unselected package libibumad3:amd64. 197s Preparing to unpack .../056-libibumad3_55.0-1ubuntu1_amd64.deb ... 197s Unpacking libibumad3:amd64 (55.0-1ubuntu1) ... 197s Selecting previously unselected package libibmad5:amd64. 197s Preparing to unpack .../057-libibmad5_55.0-1ubuntu1_amd64.deb ... 197s Unpacking libibmad5:amd64 (55.0-1ubuntu1) ... 197s Selecting previously unselected package libucx0:amd64. 197s Preparing to unpack .../058-libucx0_1.17.0+ds-3build1_amd64.deb ... 197s Unpacking libucx0:amd64 (1.17.0+ds-3build1) ... 197s Selecting previously unselected package libopenmpi40:amd64. 197s Preparing to unpack .../059-libopenmpi40_5.0.6-4_amd64.deb ... 197s Unpacking libopenmpi40:amd64 (5.0.6-4) ... 197s Selecting previously unselected package libqhull-r8.0:amd64. 197s Preparing to unpack .../060-libqhull-r8.0_2020.2-6build1_amd64.deb ... 197s Unpacking libqhull-r8.0:amd64 (2020.2-6build1) ... 197s Selecting previously unselected package libraqm0:amd64. 197s Preparing to unpack .../061-libraqm0_0.10.2-1_amd64.deb ... 197s Unpacking libraqm0:amd64 (0.10.2-1) ... 197s Selecting previously unselected package libsharpyuv0:amd64. 197s Preparing to unpack .../062-libsharpyuv0_1.5.0-0.1_amd64.deb ... 197s Unpacking libsharpyuv0:amd64 (1.5.0-0.1) ... 197s Selecting previously unselected package libjbig0:amd64. 197s Preparing to unpack .../063-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 197s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 197s Selecting previously unselected package libwebp7:amd64. 197s Preparing to unpack .../064-libwebp7_1.5.0-0.1_amd64.deb ... 197s Unpacking libwebp7:amd64 (1.5.0-0.1) ... 197s Selecting previously unselected package libtiff6:amd64. 197s Preparing to unpack .../065-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 197s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 197s Selecting previously unselected package libwebpdemux2:amd64. 197s Preparing to unpack .../066-libwebpdemux2_1.5.0-0.1_amd64.deb ... 197s Unpacking libwebpdemux2:amd64 (1.5.0-0.1) ... 197s Selecting previously unselected package libwebpmux3:amd64. 197s Preparing to unpack .../067-libwebpmux3_1.5.0-0.1_amd64.deb ... 197s Unpacking libwebpmux3:amd64 (1.5.0-0.1) ... 197s Selecting previously unselected package libxslt1.1:amd64. 197s Preparing to unpack .../068-libxslt1.1_1.1.39-0exp1ubuntu2_amd64.deb ... 197s Unpacking libxslt1.1:amd64 (1.1.39-0exp1ubuntu2) ... 197s Selecting previously unselected package openmpi-common. 197s Preparing to unpack .../069-openmpi-common_5.0.6-4_all.deb ... 197s Unpacking openmpi-common (5.0.6-4) ... 197s Selecting previously unselected package openmpi-bin. 197s Preparing to unpack .../070-openmpi-bin_5.0.6-4_amd64.deb ... 197s Unpacking openmpi-bin (5.0.6-4) ... 197s Selecting previously unselected package python-matplotlib-data. 197s Preparing to unpack .../071-python-matplotlib-data_3.8.3-3ubuntu2_all.deb ... 197s Unpacking python-matplotlib-data (3.8.3-3ubuntu2) ... 197s Selecting previously unselected package python3-all. 197s Preparing to unpack .../072-python3-all_3.13.1-1~exp2_amd64.deb ... 197s Unpacking python3-all (3.13.1-1~exp2) ... 197s Selecting previously unselected package python3-numpy. 197s Preparing to unpack .../073-python3-numpy_1%3a1.26.4+ds-13_amd64.deb ... 197s Unpacking python3-numpy (1:1.26.4+ds-13) ... 198s Selecting previously unselected package python3-h5py-serial. 198s Preparing to unpack .../074-python3-h5py-serial_3.12.1-1_amd64.deb ... 198s Unpacking python3-h5py-serial (3.12.1-1) ... 198s Selecting previously unselected package python3-h5py. 198s Preparing to unpack .../075-python3-h5py_3.12.1-1_all.deb ... 198s Unpacking python3-h5py (3.12.1-1) ... 198s Selecting previously unselected package python3-dateutil. 198s Preparing to unpack .../076-python3-dateutil_2.9.0-3_all.deb ... 198s Unpacking python3-dateutil (2.9.0-3) ... 198s Selecting previously unselected package libopenjp2-7:amd64. 198s Preparing to unpack .../077-libopenjp2-7_2.5.0-2ubuntu3_amd64.deb ... 198s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu3) ... 198s Selecting previously unselected package python3-pil:amd64. 198s Preparing to unpack .../078-python3-pil_11.1.0-5_amd64.deb ... 198s Unpacking python3-pil:amd64 (11.1.0-5) ... 198s Selecting previously unselected package python3.12-tk. 198s Preparing to unpack .../079-python3.12-tk_3.12.9-1_amd64.deb ... 198s Unpacking python3.12-tk (3.12.9-1) ... 198s Selecting previously unselected package python3.13-tk. 198s Preparing to unpack .../080-python3.13-tk_3.13.2-1_amd64.deb ... 198s Unpacking python3.13-tk (3.13.2-1) ... 198s Selecting previously unselected package python3-tk:amd64. 198s Preparing to unpack .../081-python3-tk_3.13.1-1_amd64.deb ... 198s Unpacking python3-tk:amd64 (3.13.1-1) ... 198s Selecting previously unselected package python3-pil.imagetk:amd64. 198s Preparing to unpack .../082-python3-pil.imagetk_11.1.0-5_amd64.deb ... 198s Unpacking python3-pil.imagetk:amd64 (11.1.0-5) ... 198s Selecting previously unselected package python3-contourpy. 198s Preparing to unpack .../083-python3-contourpy_1.3.1-1_amd64.deb ... 198s Unpacking python3-contourpy (1.3.1-1) ... 198s Selecting previously unselected package python3-cycler. 198s Preparing to unpack .../084-python3-cycler_0.12.1-1_all.deb ... 198s Unpacking python3-cycler (0.12.1-1) ... 198s Selecting previously unselected package python3-brotli. 198s Preparing to unpack .../085-python3-brotli_1.1.0-2build3_amd64.deb ... 198s Unpacking python3-brotli (1.1.0-2build3) ... 198s Selecting previously unselected package python3-pytz. 198s Preparing to unpack .../086-python3-pytz_2025.1-3_all.deb ... 198s Unpacking python3-pytz (2025.1-3) ... 198s Selecting previously unselected package python3-tz. 198s Preparing to unpack .../087-python3-tz_2025.1-3_all.deb ... 198s Unpacking python3-tz (2025.1-3) ... 198s Selecting previously unselected package python3-platformdirs. 198s Preparing to unpack .../088-python3-platformdirs_4.3.6-1_all.deb ... 198s Unpacking python3-platformdirs (4.3.6-1) ... 198s Selecting previously unselected package python3-fs. 198s Preparing to unpack .../089-python3-fs_2.4.16-6_all.deb ... 198s Unpacking python3-fs (2.4.16-6) ... 198s Selecting previously unselected package python3-lxml:amd64. 198s Preparing to unpack .../090-python3-lxml_5.3.1-1_amd64.deb ... 198s Unpacking python3-lxml:amd64 (5.3.1-1) ... 198s Selecting previously unselected package python3-lz4. 198s Preparing to unpack .../091-python3-lz4_4.4.0+dfsg-1_amd64.deb ... 198s Unpacking python3-lz4 (4.4.0+dfsg-1) ... 198s Selecting previously unselected package python3-decorator. 198s Preparing to unpack .../092-python3-decorator_5.1.1-5_all.deb ... 198s Unpacking python3-decorator (5.1.1-5) ... 199s Selecting previously unselected package python3-scipy. 199s Preparing to unpack .../093-python3-scipy_1.14.1-4ubuntu1_amd64.deb ... 199s Unpacking python3-scipy (1.14.1-4ubuntu1) ... 199s Selecting previously unselected package python3-mpmath. 199s Preparing to unpack .../094-python3-mpmath_1.3.0-1_all.deb ... 199s Unpacking python3-mpmath (1.3.0-1) ... 199s Selecting previously unselected package python3-sympy. 199s Preparing to unpack .../095-python3-sympy_1.13.3-1_all.deb ... 199s Unpacking python3-sympy (1.13.3-1) ... 200s Selecting previously unselected package python3-ufolib2. 200s Preparing to unpack .../096-python3-ufolib2_0.17.0+dfsg1-1_all.deb ... 200s Unpacking python3-ufolib2 (0.17.0+dfsg1-1) ... 200s Selecting previously unselected package python3-unicodedata2. 200s Preparing to unpack .../097-python3-unicodedata2_15.1.0+ds-1build2_amd64.deb ... 200s Unpacking python3-unicodedata2 (15.1.0+ds-1build2) ... 200s Selecting previously unselected package unicode-data. 200s Preparing to unpack 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Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-8) ... 201s Selecting previously unselected package python3-pandas. 201s Preparing to unpack .../104-python3-pandas_2.2.3+dfsg-8_all.deb ... 201s Unpacking python3-pandas (2.2.3+dfsg-8) ... 201s Selecting previously unselected package python3-six. 201s Preparing to unpack .../105-python3-six_1.17.0-1_all.deb ... 201s Unpacking python3-six (1.17.0-1) ... 201s Selecting previously unselected package python3-networkx. 201s Preparing to unpack .../106-python3-networkx_3.2.1-4ubuntu1_all.deb ... 201s Unpacking python3-networkx (3.2.1-4ubuntu1) ... 202s Selecting previously unselected package python3-skimage-lib:amd64. 202s Preparing to unpack .../107-python3-skimage-lib_0.25.1-1_amd64.deb ... 202s Unpacking python3-skimage-lib:amd64 (0.25.1-1) ... 202s Selecting previously unselected package python3-imageio. 202s Preparing to unpack .../108-python3-imageio_2.37.0-1_all.deb ... 202s Unpacking python3-imageio (2.37.0-1) ... 202s Selecting previously unselected package python3-lazy-loader. 202s Preparing to unpack .../109-python3-lazy-loader_0.4-1_all.deb ... 202s Unpacking python3-lazy-loader (0.4-1) ... 202s Selecting previously unselected package python3-tifffile. 202s Preparing to unpack .../110-python3-tifffile_20250110-1_all.deb ... 202s Unpacking python3-tifffile (20250110-1) ... 202s Selecting previously unselected package python3-skimage. 202s Preparing to unpack .../111-python3-skimage_0.25.1-1_all.deb ... 202s Unpacking python3-skimage (0.25.1-1) ... 202s Selecting previously unselected package python3-bmtk. 202s Preparing to unpack .../112-python3-bmtk_1.1.1+ds-3_amd64.deb ... 202s Unpacking python3-bmtk (1.1.1+ds-3) ... 202s Selecting previously unselected package libjs-mathjax. 202s Preparing to unpack .../113-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 202s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 203s Selecting previously unselected package libjs-requirejs. 203s Preparing to unpack .../114-libjs-requirejs_2.3.7+ds+~2.1.37-1_all.deb ... 203s Unpacking libjs-requirejs (2.3.7+ds+~2.1.37-1) ... 203s Selecting previously unselected package python3-bmtk-doc. 203s Preparing to unpack .../115-python3-bmtk-doc_1.1.1+ds-3_all.deb ... 203s Unpacking python3-bmtk-doc (1.1.1+ds-3) ... 203s Selecting previously unselected package python3-bmtk-examples. 203s Preparing to unpack .../116-python3-bmtk-examples_1.1.1+ds-3_all.deb ... 203s Unpacking python3-bmtk-examples (1.1.1+ds-3) ... 204s Selecting previously unselected package python3-iniconfig. 204s Preparing to unpack .../117-python3-iniconfig_1.1.1-2_all.deb ... 204s Unpacking python3-iniconfig (1.1.1-2) ... 204s Selecting previously unselected package python3-pluggy. 204s Preparing to unpack .../118-python3-pluggy_1.5.0-1_all.deb ... 204s Unpacking python3-pluggy (1.5.0-1) ... 204s Selecting previously unselected package python3-pytest. 204s Preparing to unpack .../119-python3-pytest_8.3.4-1_all.deb ... 204s Unpacking python3-pytest (8.3.4-1) ... 204s Selecting previously unselected package mpi-default-bin. 204s Preparing to unpack .../120-mpi-default-bin_1.18_amd64.deb ... 204s Unpacking mpi-default-bin (1.18) ... 204s Selecting previously unselected package python3-mpi4py. 204s Preparing to unpack .../121-python3-mpi4py_4.0.1-6ubuntu1_amd64.deb ... 204s Unpacking python3-mpi4py (4.0.1-6ubuntu1) ... 205s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 205s Setting up liblcms2-2:amd64 (2.16-2) ... 205s Setting up python3-iniconfig (1.1.1-2) ... 205s Setting up python3.12-minimal (3.12.9-1) ... 206s Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... 206s Setting up libpciaccess0:amd64 (0.17-3build1) ... 206s Setting up fonts-mathjax (2.7.9+dfsg-1) ... 206s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 206s Setting up libjs-mathjax (2.7.9+dfsg-1) ... 206s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 206s Setting up python3-lz4 (4.4.0+dfsg-1) ... 206s Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10) ... 206s Setting up python3-unicodedata2 (15.1.0+ds-1build2) ... 206s Setting up fonts-lyx (2.4.3-1) ... 206s Setting up python3.12 (3.12.9-1) ... 207s Setting up x11-common (1:7.7+23ubuntu3) ... 207s Setting up libibumad3:amd64 (55.0-1ubuntu1) ... 207s Setting up libdeflate0:amd64 (1.23-1) ... 207s Setting up libqhull-r8.0:amd64 (2020.2-6build1) ... 207s Setting up python3-all (3.13.1-1~exp2) ... 207s Setting up python3-pytz (2025.1-3) ... 208s Setting up libibmad5:amd64 (55.0-1ubuntu1) ... 208s Setting up libgomp1:amd64 (15-20250213-1ubuntu1) ... 208s Setting up libjs-requirejs (2.3.7+ds+~2.1.37-1) ... 208s Setting up python3-networkx (3.2.1-4ubuntu1) ... 210s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 210s Setting up libaec0:amd64 (1.1.3-1) ... 210s Setting up python3-platformdirs (4.3.6-1) ... 210s Setting up python3-tz (2025.1-3) ... 210s Setting up python3-fs (2.4.16-6) ... 210s Setting up libxnvctrl0:amd64 (510.47.03-0ubuntu4) ... 210s Setting up unicode-data (15.1.0-1) ... 210s Setting up python3-six (1.17.0-1) ... 211s Setting up python3-decorator (5.1.1-5) ... 211s Setting up libblas3:amd64 (3.12.1-2) ... 211s 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 211s Setting up python3-packaging (24.2-1) ... 211s Setting up libmunge2:amd64 (0.5.16-1) ... 211s Setting up libllvm17t64:amd64 (1:17.0.6-20) ... 211s Setting up python3-brotli (1.1.0-2build3) ... 211s Setting up liblzf1:amd64 (3.6-4) ... 211s Setting up python3-cycler (0.12.1-1) ... 211s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 211s Setting up fonts-dejavu-mono (2.37-8) ... 211s Setting up python3-kiwisolver (1.4.7-3) ... 212s Setting up libhwloc15:amd64 (2.12.0-1) ... 212s Setting up libtcl8.6:amd64 (8.6.16+dfsg-1) ... 212s Setting up fonts-dejavu-core (2.37-8) ... 212s Setting up libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 212s Setting up libgfortran5:amd64 (15-20250213-1ubuntu1) ... 212s Setting up python3-pluggy (1.5.0-1) ... 212s Setting up libwebp7:amd64 (1.5.0-0.1) ... 212s Setting up ocl-icd-libopencl1:amd64 (2.3.2-1build1) ... 212s Setting up fonts-bebas-neue (3.0-2) ... 212s Setting up libxslt1.1:amd64 (1.1.39-0exp1ubuntu2) ... 212s Setting up libpsm2-2 (11.2.185-2.1) ... 212s Setting up openmpi-common (5.0.6-4) ... 212s Setting up librdmacm1t64:amd64 (55.0-1ubuntu1) ... 212s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu3) ... 212s Setting up libharfbuzz0b:amd64 (10.2.0-1) ... 212s Setting up python3-dateutil (2.9.0-3) ... 212s Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3build2) ... 212s Setting up libxss1:amd64 (1:1.2.3-1build3) ... 212s Setting up python3-lazy-loader (0.4-1) ... 212s Setting up libpsm-infinipath1 (3.3+20.604758e7-6.3build1) ... 212s update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode 212s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 212s Setting up python3-mpmath (1.3.0-1) ... 213s Setting up python-matplotlib-data (3.8.3-3ubuntu2) ... 213s Setting up libwebpmux3:amd64 (1.5.0-0.1) ... 213s Setting up libhsakmt1:amd64 (5.7.0-1build1) ... 213s Setting up libsz2:amd64 (1.1.3-1) ... 213s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 213s Setting up python3-bmtk-examples (1.1.1+ds-3) ... 213s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 213s Setting up libfabric1:amd64 (1.17.0-3ubuntu1) ... 213s Setting up python3-sympy (1.13.3-1) ... 225s Setting up liblapack3:amd64 (3.12.1-2) ... 225s 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 225s Setting up fontconfig-config (2.15.0-2ubuntu1) ... 225s Setting up python3-pytest (8.3.4-1) ... 226s Setting up libwebpdemux2:amd64 (1.5.0-0.1) ... 226s Setting up libhwloc-plugins:amd64 (2.12.0-1) ... 226s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 226s Setting up libraqm0:amd64 (0.10.2-1) ... 226s Setting up libpmix2t64:amd64 (5.0.6-3) ... 226s Setting up python3-numpy (1:1.26.4+ds-13) ... 229s Setting up libjs-sphinxdoc (8.1.3-5) ... 229s Setting up libhdf5-310:amd64 (1.14.5+repack-3) ... 229s Setting up python3-lxml:amd64 (5.3.1-1) ... 229s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 229s Setting up libhsa-runtime64-1 (5.7.1-2build1) ... 229s Setting up python3-contourpy (1.3.1-1) ... 229s Setting up libfontconfig1:amd64 (2.15.0-2ubuntu1) ... 229s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 229s Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ... 229s Setting up libxft2:amd64 (2.3.6-1build1) ... 229s Setting up python3-scipy (1.14.1-4ubuntu1) ... 235s Setting up python3-skimage-lib:amd64 (0.25.1-1) ... 235s Setting up python3-bmtk-doc (1.1.1+ds-3) ... 235s Setting up libtk8.6:amd64 (8.6.16-1) ... 235s Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-8) ... 235s Setting up python3.12-tk (3.12.9-1) ... 235s Setting up python3-h5py-serial (3.12.1-1) ... 236s Setting up python3-tifffile (20250110-1) ... 236s Setting up python3.13-tk (3.13.2-1) ... 236s Setting up python3-pil:amd64 (11.1.0-5) ... 237s Setting up python3-pandas (2.2.3+dfsg-8) ... 245s Setting up libamdhip64-5 (5.7.1-5) ... 245s Setting up python3-h5py (3.12.1-1) ... 246s Setting up python3-imageio (2.37.0-1) ... 246s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 246s Setting up libucx0:amd64 (1.17.0+ds-3build1) ... 246s Setting up blt (2.5.3+dfsg-7build1) ... 246s Setting up python3-tk:amd64 (3.13.1-1) ... 246s Setting up python3-pil.imagetk:amd64 (11.1.0-5) ... 246s Setting up libopenmpi40:amd64 (5.0.6-4) ... 246s Setting up openmpi-bin (5.0.6-4) ... 246s update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode 246s update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist 246s update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode 246s Setting up mpi-default-bin (1.18) ... 246s Setting up python3-mpi4py (4.0.1-6ubuntu1) ... 247s Setting up python3-fonttools (4.55.3-2) ... 248s Setting up python3-ufolib2 (0.17.0+dfsg1-1) ... 249s Setting up python3-matplotlib (3.8.3-3ubuntu2) ... 251s Setting up python3-skimage (0.25.1-1) ... 252s Setting up python3-bmtk (1.1.1+ds-3) ... 253s Processing triggers for libc-bin (2.40-4ubuntu1) ... 253s Processing triggers for systemd (257.2-3ubuntu1) ... 253s Processing triggers for man-db (2.13.0-1) ... 256s autopkgtest [11:30:02]: test run-unit-test: [----------------------- 256s ============================= test session starts ============================== 256s platform linux -- Python 3.12.9, pytest-8.3.4, pluggy-1.5.0 -- /usr/bin/python3.12 256s cachedir: .pytest_cache 256s rootdir: /tmp/autopkgtest.R7Lha3/autopkgtest_tmp 256s plugins: typeguard-4.4.1 260s collecting ... collected 361 items / 5 skipped 260s 260s tests/builder/auxi/test_edge_connectors.py::test_distance_connector PASSED [ 0%] 260s tests/builder/auxi/test_edge_connectors.py::test_connect_random PASSED [ 0%] 260s tests/builder/auxi/test_node_params.py::test_positions_columinar PASSED [ 0%] 260s tests/builder/auxi/test_node_params.py::test_positions_cuboid PASSED [ 1%] 260s tests/builder/auxi/test_node_params.py::test_positions_list PASSED [ 1%] 260s tests/builder/auxi/test_node_params.py::test_positions_rect_prism PASSED [ 1%] 260s tests/builder/auxi/test_node_params.py::test_positions_ellipsoid PASSED [ 1%] 260s tests/builder/auxi/test_node_params.py::test_positions_density_matrix PASSED [ 2%] 260s tests/builder/auxi/test_node_params.py::test_positions_nrrd SKIPPED [ 2%] 260s 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tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv[write_csv_itr-STCSVBuffer] PASSED [ 57%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_bytime[write_csv-STMemoryBuffer] PASSED [ 57%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_bytime[write_csv-STCSVBuffer] PASSED [ 58%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_bytime[write_csv_itr-STMemoryBuffer] PASSED [ 58%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_bytime[write_csv_itr-STCSVBuffer] PASSED [ 58%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_byid[write_csv-STMemoryBuffer] PASSED [ 59%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_byid[write_csv-STCSVBuffer] PASSED [ 59%] 270s tests/utils/reports/spike_trains/test_csv_adaptor.py::test_write_csv_byid[write_csv_itr-STMemoryBuffer] PASSED [ 59%] 270s 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tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_byid[write_csv-STCSVMPIBufferV2] PASSED [ 62%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_byid[write_csv_itr-STMPIBuffer] PASSED [ 62%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_byid[write_csv_itr-STCSVMPIBufferV2] PASSED [ 62%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_bytime[write_csv-STMPIBuffer] PASSED [ 62%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_bytime[write_csv-STCSVMPIBufferV2] PASSED [ 63%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_bytime[write_csv_itr-STMPIBuffer] PASSED [ 63%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_bytime[write_csv_itr-STCSVMPIBufferV2] PASSED [ 63%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_empty[write_csv-STMPIBuffer] PASSED [ 63%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_empty[write_csv-STCSVMPIBufferV2] PASSED [ 64%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_empty[write_csv_itr-STMPIBuffer] PASSED [ 64%] 270s tests/utils/reports/spike_trains/test_csv_adaptor_mpi.py::test_write_csv_empty[write_csv_itr-STCSVMPIBufferV2] PASSED [ 64%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_load_spikes_api PASSED [ 65%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_load_spikes_file PASSED [ 65%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_raster[True-None] PASSED [ 65%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_raster[True-node_groups1] PASSED [ 65%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_raster[True-node_groups2] PASSED [ 66%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_raster[False-None] PASSED [ 66%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_raster[False-node_groups1] PASSED [ 66%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_raster[False-node_groups2] PASSED [ 67%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[True-None] PASSED [ 67%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[True-node_groups1] PASSED [ 67%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[True-node_groups2] PASSED [ 67%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[False-None] PASSED [ 68%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[False-node_groups1] PASSED [ 68%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[False-node_groups2] PASSED [ 68%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[None-None] PASSED [ 68%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[None-node_groups1] PASSED [ 69%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates[None-node_groups2] PASSED [ 69%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates_boxplot[None] PASSED [ 69%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates_boxplot[node_groups1] PASSED [ 70%] 270s tests/utils/reports/spike_trains/test_plotting.py::test_plot_rates_boxplot[node_groups2] PASSED [ 70%] 270s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata[write_sonata-STMemoryBuffer] PASSED [ 70%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata[write_sonata-STCSVBuffer] PASSED [ 70%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata[write_sonata_itr-STMemoryBuffer] PASSED [ 71%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata[write_sonata_itr-STCSVBuffer] PASSED [ 71%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_compression[write_sonata-STMemoryBuffer] PASSED [ 71%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_compression[write_sonata-STCSVBuffer] PASSED [ 72%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_compression[write_sonata_itr-STMemoryBuffer] PASSED [ 72%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_compression[write_sonata_itr-STCSVBuffer] PASSED [ 72%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_empty[write_sonata-STMemoryBuffer] PASSED [ 72%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_empty[write_sonata-STCSVBuffer] PASSED [ 73%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_empty[write_sonata_itr-STMemoryBuffer] PASSED [ 73%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_empty[write_sonata_itr-STCSVBuffer] PASSED [ 73%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_append[write_sonata-STMemoryBuffer] PASSED [ 73%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_append[write_sonata-STCSVBuffer] PASSED [ 74%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_append[write_sonata_itr-STMemoryBuffer] PASSED [ 74%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_append[write_sonata_itr-STCSVBuffer] PASSED [ 74%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_bytime[write_sonata-STMemoryBuffer] PASSED [ 75%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_bytime[write_sonata-STCSVBuffer] PASSED [ 75%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_bytime[write_sonata_itr-STMemoryBuffer] PASSED [ 75%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_bytime[write_sonata_itr-STCSVBuffer] PASSED [ 75%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_byid[write_sonata-STMemoryBuffer] PASSED [ 76%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_byid[write_sonata-STCSVBuffer] PASSED [ 76%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_byid[write_sonata_itr-STMemoryBuffer] PASSED [ 76%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_write_sonata_byid[write_sonata_itr-STCSVBuffer] PASSED [ 77%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_sonata_reader PASSED [ 77%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_oldsonata_reader PASSED [ 77%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor.py::test_load_sonata PASSED [ 77%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata[write_sonata-STMPIBuffer] PASSED [ 78%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata[write_sonata-STCSVMPIBufferV2] PASSED [ 78%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata[write_sonata_itr-STMPIBuffer] PASSED [ 78%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 78%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_compression[write_sonata-STMPIBuffer] PASSED [ 79%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_compression[write_sonata-STCSVMPIBufferV2] PASSED [ 79%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_compression[write_sonata_itr-STMPIBuffer] PASSED [ 79%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_compression[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 80%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_byid[write_sonata-STMPIBuffer] PASSED [ 80%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_byid[write_sonata-STCSVMPIBufferV2] PASSED [ 80%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_byid[write_sonata_itr-STMPIBuffer] PASSED [ 80%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_byid[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 81%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata-STMPIBuffer] PASSED [ 81%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata-STCSVMPIBufferV2] PASSED [ 81%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata_itr-STMPIBuffer] PASSED [ 81%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 82%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata-STMPIBuffer] PASSED [ 82%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata-STCSVMPIBufferV2] PASSED [ 82%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata_itr-STMPIBuffer] PASSED [ 83%] 271s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 83%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spike[spiketrain_buffer0] PASSED [ 83%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spike[spiketrain_buffer1] PASSED [ 83%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spike[spiketrain_buffer2] PASSED [ 84%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spikes[spiketrain_buffer0] PASSED [ 84%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spikes[spiketrain_buffer1] PASSED [ 84%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spikes[spiketrain_buffer2] PASSED [ 85%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_to_dataframe[spiketrain_buffer0] PASSED [ 85%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_to_dataframe[spiketrain_buffer1] PASSED [ 85%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_to_dataframe[spiketrain_buffer2] PASSED [ 85%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_iterator[spiketrain_buffer0] PASSED [ 86%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_iterator[spiketrain_buffer1] PASSED [ 86%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_iterator[spiketrain_buffer2] PASSED [ 86%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_invalid_pop[spiketrain_buffer0] PASSED [ 86%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_invalid_pop[spiketrain_buffer1] PASSED [ 87%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_invalid_pop[spiketrain_buffer2] PASSED [ 87%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_no_spikes[spiketrain_buffer0] PASSED [ 87%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_no_spikes[spiketrain_buffer1] PASSED [ 88%] 271s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_no_spikes[spiketrain_buffer2] PASSED [ 88%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic[st0] PASSED [ 88%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic[st1] PASSED [ 88%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic_root[st0] PASSED [ 89%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic_root[st1] PASSED [ 89%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_split_ids[st0] PASSED [ 89%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_split_ids[st1] PASSED [ 90%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_to_dataframe[st0] PASSED [ 90%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_to_dataframe[st1] PASSED [ 90%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_iterator[st0] PASSED [ 90%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_iterator[st1] PASSED [ 91%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_root_spikes[st0] PASSED [ 91%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_root_spikes[st1] PASSED [ 91%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_root_spikesonly[st0] PASSED [ 91%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_root_spikesonly[st1] PASSED [ 92%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_spikes[st0] PASSED [ 92%] 271s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_spikes[st1] PASSED [ 92%] 271s tests/utils/reports/spike_trains/test_spikes_core.py::test_psg_fixed PASSED [ 93%] 271s tests/utils/reports/spike_trains/test_spikes_core.py::test_psg_variable PASSED [ 93%] 271s tests/utils/reports/spike_trains/test_spikes_core.py::test_psg_none_seed PASSED [ 93%] 271s tests/utils/reports/spike_trains/test_spikes_core.py::test_equals PASSED [ 93%] 271s tests/utils/reports/spike_trains/test_spikes_core.py::test_subset PASSED [ 94%] 271s tests/utils/sonata/test_config.py::test_json PASSED [ 94%] 271s tests/utils/sonata/test_config.py::test_json_split PASSED [ 94%] 271s tests/utils/sonata/test_config.py::test_dict PASSED [ 95%] 271s tests/utils/sonata/test_config.py::test_build_manifest1 PASSED [ 95%] 271s tests/utils/sonata/test_config.py::test_build_manifest2 PASSED [ 95%] 271s tests/utils/sonata/test_config.py::test_build_manifest_fail1 PASSED [ 95%] 271s tests/utils/sonata/test_config.py::test_build_manifest_fail2 PASSED [ 96%] 271s tests/utils/sonata/test_config.py::test_output_dir PASSED [ 96%] 271s tests/utils/sonata/test_config.py::test_speical_vars PASSED [ 96%] 271s tests/utils/sonata/test_config.py::test_user_vars PASSED [ 96%] 271s tests/utils/sonata/test_config.py::test_node_set_file PASSED [ 97%] 271s tests/utils/sonata/test_config_validator.py::test_valid_config PASSED [ 97%] 271s tests/utils/sonata/test_config_validator.py::test_negative_tstop PASSED [ 97%] 271s tests/utils/sonata/test_config_validator.py::test_missing_nodes_file PASSED [ 98%] 271s tests/utils/sonata/test_config_validator.py::test_inputs PASSED [ 98%] 271s tests/utils/sonata/test_edge_stats.py::test_to_edges_dataframe PASSED [ 98%] 271s tests/utils/sonata/test_edge_stats.py::test_to_nodes_dataframe PASSED [ 98%] 271s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution PASSED [ 99%] 271s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution PASSED [ 99%] 271s tests/utils/sonata/test_edge_stats.py::test_nconnections_distributions PASSED [ 99%] 271s tests/utils/sonata/test_edge_stats.py::test_edge_stats_table PASSED [100%] 271s 271s =============================== warnings summary =============================== 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s /usr/lib/python3/dist-packages/bmtk/builder/index_builders.py:205: FutureWarning: Series.fillna with 'method' is deprecated and will raise in a future version. Use obj.ffill() or obj.bfill() instead. 271s i2r_table_df['range_end'] = i2r_table_df['range_end'].fillna(method='ffill') 271s 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s /usr/lib/python3/dist-packages/bmtk/builder/index_builders.py:206: FutureWarning: A value is trying to be set on a copy of a DataFrame or Series through chained assignment using an inplace method. 271s The behavior will change in pandas 3.0. This inplace method will never work because the intermediate object on which we are setting values always behaves as a copy. 271s 271s For example, when doing 'df[col].method(value, inplace=True)', try using 'df.method({col: value}, inplace=True)' or df[col] = df[col].method(value) instead, to perform the operation inplace on the original object. 271s 271s 271s i2r_table_df['range_end'].fillna(0, inplace=True) 271s 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 271s /usr/lib/python3/dist-packages/bmtk/builder/index_builders.py:209: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! 271s You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. 271s A typical example is when you are setting values in a column of a DataFrame, like: 271s 271s df["col"][row_indexer] = value 271s 271s Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. 271s 271s See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy 271s 271s i2r_table_df['range_beg'][nans_mask] = i2r_table_df['range_end'][nans_mask] 271s 271s tests/simulator/core/test_simulation_config_validator.py::test_validate_network 271s /usr/lib/python3/dist-packages/bmtk/simulator/core/simulation_config_validator.py:30: DeprecationWarning: Subclassing validator classes is not intended to be part of their public API. A future version will make doing so an error, as the behavior of subclasses isn't guaranteed to stay the same between releases of jsonschema. Instead, prefer composition of validators, wrapping them in an object owned entirely by the downstream library. 271s class SimulationConfigValidator(Draft4Validator): 271s 271s tests/simulator/filternet/lgnmodel/test_subclass_metrics.py::test_get_data_metrics[sus_sus-expected_val4] 271s tests/simulator/filternet/lgnmodel/test_subclass_metrics.py::test_get_data_metrics[trans_sus-expected_val5] 271s /usr/lib/python3/dist-packages/bmtk/simulator/filternet/lgnmodel/cellmetrics.py:57: FutureWarning: The behavior of DataFrame.idxmax with all-NA values, or any-NA and skipna=False, is deprecated. In a future version this will raise ValueError 271s exp_df['max_tf'] = sub_df.idxmax(axis=1).values # sub_df.idxmax(axis=1) 271s 271s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 271s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 271s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 271s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 271s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution 271s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution 271s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution 271s /usr/lib/python3/dist-packages/bmtk/utils/sonata/edge_stats.py:282: FutureWarning: Downcasting object dtype arrays on .fillna, .ffill, .bfill is deprecated and will change in a future version. Call result.infer_objects(copy=False) instead. To opt-in to the future behavior, set `pd.set_option('future.no_silent_downcasting', True)` 271s edges_df[edge_prop] = fill_val if edge_prop not in edges_df.columns else edges_df[edge_prop].fillna(fill_val) 271s 271s tests/utils/sonata/test_edge_stats.py::test_edge_stats_table 271s /usr/lib/python3/dist-packages/bmtk/utils/sonata/edge_stats.py:434: FutureWarning: Downcasting object dtype arrays on .fillna, .ffill, .bfill is deprecated and will change in a future version. Call result.infer_objects(copy=False) instead. To opt-in to the future behavior, set `pd.set_option('future.no_silent_downcasting', True)` 271s edges_df['nsyns'] = 1 if 'nsyns' not in edges_df.columns else edges_df['nsyns'].fillna(1) 271s 271s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 271s ================ 311 passed, 55 skipped, 29 warnings in 14.86s ================= 272s ============================= test session starts ============================== 272s platform linux -- Python 3.13.2, pytest-8.3.4, pluggy-1.5.0 -- /usr/bin/python3.13 272s cachedir: .pytest_cache 272s rootdir: /tmp/autopkgtest.R7Lha3/autopkgtest_tmp 272s plugins: typeguard-4.4.1 276s collecting ... collected 361 items / 5 skipped 276s 276s tests/builder/auxi/test_edge_connectors.py::test_distance_connector PASSED [ 0%] 276s tests/builder/auxi/test_edge_connectors.py::test_connect_random PASSED [ 0%] 276s tests/builder/auxi/test_node_params.py::test_positions_columinar PASSED [ 0%] 276s 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tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata-STCSVMPIBufferV2] PASSED [ 81%] 286s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata_itr-STMPIBuffer] PASSED [ 81%] 286s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_bytime[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 82%] 286s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata-STMPIBuffer] PASSED [ 82%] 286s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata-STCSVMPIBufferV2] PASSED [ 82%] 286s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata_itr-STMPIBuffer] PASSED [ 83%] 286s tests/utils/reports/spike_trains/test_sonata_adaptor_mpi.py::test_write_sonata_empty[write_sonata_itr-STCSVMPIBufferV2] PASSED [ 83%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spike[spiketrain_buffer0] PASSED [ 83%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spike[spiketrain_buffer1] PASSED [ 83%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spike[spiketrain_buffer2] PASSED [ 84%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spikes[spiketrain_buffer0] PASSED [ 84%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spikes[spiketrain_buffer1] PASSED [ 84%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_add_spikes[spiketrain_buffer2] PASSED [ 85%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_to_dataframe[spiketrain_buffer0] PASSED [ 85%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_to_dataframe[spiketrain_buffer1] PASSED [ 85%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_to_dataframe[spiketrain_buffer2] PASSED [ 85%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_iterator[spiketrain_buffer0] PASSED [ 86%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_iterator[spiketrain_buffer1] PASSED [ 86%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_iterator[spiketrain_buffer2] PASSED [ 86%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_invalid_pop[spiketrain_buffer0] PASSED [ 86%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_invalid_pop[spiketrain_buffer1] PASSED [ 87%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_invalid_pop[spiketrain_buffer2] PASSED [ 87%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_no_spikes[spiketrain_buffer0] PASSED [ 87%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_no_spikes[spiketrain_buffer1] PASSED [ 88%] 286s tests/utils/reports/spike_trains/test_spikes_buffer.py::test_no_spikes[spiketrain_buffer2] PASSED [ 88%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic[st0] PASSED [ 88%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic[st1] PASSED [ 88%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic_root[st0] PASSED [ 89%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_basic_root[st1] PASSED [ 89%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_split_ids[st0] PASSED [ 89%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_split_ids[st1] PASSED [ 90%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_to_dataframe[st0] PASSED [ 90%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_to_dataframe[st1] PASSED [ 90%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_iterator[st0] PASSED [ 90%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_iterator[st1] PASSED [ 91%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_root_spikes[st0] PASSED [ 91%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_root_spikes[st1] PASSED [ 91%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_root_spikesonly[st0] PASSED [ 91%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_root_spikesonly[st1] PASSED [ 92%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_spikes[st0] PASSED [ 92%] 286s tests/utils/reports/spike_trains/test_spikes_buffer_mpi.py::test_no_spikes[st1] PASSED [ 92%] 286s tests/utils/reports/spike_trains/test_spikes_core.py::test_psg_fixed PASSED [ 93%] 286s tests/utils/reports/spike_trains/test_spikes_core.py::test_psg_variable PASSED [ 93%] 286s tests/utils/reports/spike_trains/test_spikes_core.py::test_psg_none_seed PASSED [ 93%] 286s tests/utils/reports/spike_trains/test_spikes_core.py::test_equals PASSED [ 93%] 286s tests/utils/reports/spike_trains/test_spikes_core.py::test_subset PASSED [ 94%] 286s tests/utils/sonata/test_config.py::test_json PASSED [ 94%] 286s tests/utils/sonata/test_config.py::test_json_split PASSED [ 94%] 286s tests/utils/sonata/test_config.py::test_dict PASSED [ 95%] 286s tests/utils/sonata/test_config.py::test_build_manifest1 PASSED [ 95%] 286s tests/utils/sonata/test_config.py::test_build_manifest2 PASSED [ 95%] 286s tests/utils/sonata/test_config.py::test_build_manifest_fail1 PASSED [ 95%] 286s tests/utils/sonata/test_config.py::test_build_manifest_fail2 PASSED [ 96%] 286s tests/utils/sonata/test_config.py::test_output_dir PASSED [ 96%] 286s tests/utils/sonata/test_config.py::test_speical_vars PASSED [ 96%] 286s tests/utils/sonata/test_config.py::test_user_vars PASSED [ 96%] 286s tests/utils/sonata/test_config.py::test_node_set_file PASSED [ 97%] 286s tests/utils/sonata/test_config_validator.py::test_valid_config PASSED [ 97%] 286s tests/utils/sonata/test_config_validator.py::test_negative_tstop PASSED [ 97%] 286s tests/utils/sonata/test_config_validator.py::test_missing_nodes_file PASSED [ 98%] 286s tests/utils/sonata/test_config_validator.py::test_inputs PASSED [ 98%] 286s tests/utils/sonata/test_edge_stats.py::test_to_edges_dataframe PASSED [ 98%] 286s tests/utils/sonata/test_edge_stats.py::test_to_nodes_dataframe PASSED [ 98%] 286s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution PASSED [ 99%] 286s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution PASSED [ 99%] 286s tests/utils/sonata/test_edge_stats.py::test_nconnections_distributions PASSED [ 99%] 286s tests/utils/sonata/test_edge_stats.py::test_edge_stats_table PASSED [100%] 286s 286s =============================== warnings summary =============================== 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s /usr/lib/python3/dist-packages/bmtk/builder/index_builders.py:205: FutureWarning: Series.fillna with 'method' is deprecated and will raise in a future version. Use obj.ffill() or obj.bfill() instead. 286s i2r_table_df['range_end'] = i2r_table_df['range_end'].fillna(method='ffill') 286s 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s /usr/lib/python3/dist-packages/bmtk/builder/index_builders.py:206: FutureWarning: A value is trying to be set on a copy of a DataFrame or Series through chained assignment using an inplace method. 286s The behavior will change in pandas 3.0. This inplace method will never work because the intermediate object on which we are setting values always behaves as a copy. 286s 286s For example, when doing 'df[col].method(value, inplace=True)', try using 'df.method({col: value}, inplace=True)' or df[col] = df[col].method(value) instead, to perform the operation inplace on the original object. 286s 286s 286s i2r_table_df['range_end'].fillna(0, inplace=True) 286s 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s tests/builder/test_index_builders.py::test_create_index[create_index_on_disk-indexer_args1] 286s /usr/lib/python3/dist-packages/bmtk/builder/index_builders.py:209: FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0! 286s You are setting values through chained assignment. Currently this works in certain cases, but when using Copy-on-Write (which will become the default behaviour in pandas 3.0) this will never work to update the original DataFrame or Series, because the intermediate object on which we are setting values will behave as a copy. 286s A typical example is when you are setting values in a column of a DataFrame, like: 286s 286s df["col"][row_indexer] = value 286s 286s Use `df.loc[row_indexer, "col"] = values` instead, to perform the assignment in a single step and ensure this keeps updating the original `df`. 286s 286s See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy 286s 286s i2r_table_df['range_beg'][nans_mask] = i2r_table_df['range_end'][nans_mask] 286s 286s tests/simulator/core/test_simulation_config_validator.py::test_validate_network 286s /usr/lib/python3/dist-packages/bmtk/simulator/core/simulation_config_validator.py:30: DeprecationWarning: Subclassing validator classes is not intended to be part of their public API. A future version will make doing so an error, as the behavior of subclasses isn't guaranteed to stay the same between releases of jsonschema. Instead, prefer composition of validators, wrapping them in an object owned entirely by the downstream library. 286s class SimulationConfigValidator(Draft4Validator): 286s 286s tests/simulator/filternet/lgnmodel/test_subclass_metrics.py::test_get_data_metrics[sus_sus-expected_val4] 286s tests/simulator/filternet/lgnmodel/test_subclass_metrics.py::test_get_data_metrics[trans_sus-expected_val5] 286s /usr/lib/python3/dist-packages/bmtk/simulator/filternet/lgnmodel/cellmetrics.py:57: FutureWarning: The behavior of DataFrame.idxmax with all-NA values, or any-NA and skipna=False, is deprecated. In a future version this will raise ValueError 286s exp_df['max_tf'] = sub_df.idxmax(axis=1).values # sub_df.idxmax(axis=1) 286s 286s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 286s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 286s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 286s tests/utils/sonata/test_edge_stats.py::test_edge_props_distribution 286s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution 286s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution 286s tests/utils/sonata/test_edge_stats.py::test_nsyns_distribution 286s /usr/lib/python3/dist-packages/bmtk/utils/sonata/edge_stats.py:282: FutureWarning: Downcasting object dtype arrays on .fillna, .ffill, .bfill is deprecated and will change in a future version. Call result.infer_objects(copy=False) instead. To opt-in to the future behavior, set `pd.set_option('future.no_silent_downcasting', True)` 286s edges_df[edge_prop] = fill_val if edge_prop not in edges_df.columns else edges_df[edge_prop].fillna(fill_val) 286s 286s tests/utils/sonata/test_edge_stats.py::test_edge_stats_table 286s /usr/lib/python3/dist-packages/bmtk/utils/sonata/edge_stats.py:434: FutureWarning: Downcasting object dtype arrays on .fillna, .ffill, .bfill is deprecated and will change in a future version. Call result.infer_objects(copy=False) instead. To opt-in to the future behavior, set `pd.set_option('future.no_silent_downcasting', True)` 286s edges_df['nsyns'] = 1 if 'nsyns' not in edges_df.columns else edges_df['nsyns'].fillna(1) 286s 286s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 286s ================ 311 passed, 55 skipped, 29 warnings in 14.27s ================= 287s autopkgtest [11:30:33]: test run-unit-test: -----------------------] 288s autopkgtest [11:30:34]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 288s run-unit-test PASS 288s autopkgtest [11:30:34]: @@@@@@@@@@@@@@@@@@@@ summary 288s run-unit-test PASS 305s nova [W] Skipping flock for amd64 305s Creating nova instance adt-plucky-amd64-bmtk-20250219-111836-juju-7f2275-prod-proposed-migration-environment-15-f435c7a3-d58b-42d5-86c8-79431fba5612 from image adt/ubuntu-plucky-amd64-server-20250219.img (UUID 90711abf-916f-4a80-845a-825250a78697)... 305s nova [W] Timed out waiting for 96e061be-701d-4c3a-860c-8962dd7b482f to get deleted.