0s autopkgtest [19:19:37]: starting date and time: 2024-11-18 19:19:37+0000 0s autopkgtest [19:19:37]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [19:19:37]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qoffu6zm/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:h5py,src:openmpi,src:sphinx-rtd-theme --apt-upgrade python-skbio --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=h5py/3.11.0-8ubuntu1 openmpi/5.0.5-6 sphinx-rtd-theme/3.0.2+dfsg-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-27.secgroup --name adt-plucky-amd64-python-skbio-20241118-191937-juju-7f2275-prod-proposed-migration-environment-20-780807a3-41b7-49fc-a0ae-eece22b31358 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 37s autopkgtest [19:20:14]: testbed dpkg architecture: amd64 37s autopkgtest [19:20:14]: testbed apt version: 2.9.8 37s autopkgtest [19:20:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup 38s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 38s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [72.2 kB] 38s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.5 kB] 38s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 38s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [815 kB] 38s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 38s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [64.6 kB] 38s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 38s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [258 kB] 38s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [659 kB] 38s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [772 B] 38s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [7272 B] 38s Fetched 2115 kB in 1s (2984 kB/s) 38s Reading package lists... 40s Reading package lists... 40s Building dependency tree... 40s Reading state information... 41s Calculating upgrade... 41s The following NEW packages will be installed: 41s liblsof0 41s The following packages will be upgraded: 41s libnvme1t64 linux-firmware lsof 41s 3 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 41s Need to get 538 MB of archives. 41s After this operation, 1578 kB of additional disk space will be used. 41s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsof0 amd64 4.99.3+dfsg-2 [59.4 kB] 41s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 lsof amd64 4.99.3+dfsg-2 [245 kB] 41s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libnvme1t64 amd64 1.11.1-1 [88.7 kB] 41s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20241118.git6e4e94b0-0ubuntu1 [537 MB] 81s Fetched 538 MB in 40s (13.4 MB/s) 81s Selecting previously unselected package liblsof0. 81s (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 ... 75590 files and directories currently installed.) 81s Preparing to unpack .../liblsof0_4.99.3+dfsg-2_amd64.deb ... 81s Unpacking liblsof0 (4.99.3+dfsg-2) ... 81s Preparing to unpack .../lsof_4.99.3+dfsg-2_amd64.deb ... 81s Unpacking lsof (4.99.3+dfsg-2) over (4.95.0-1.1) ... 81s Preparing to unpack .../libnvme1t64_1.11.1-1_amd64.deb ... 81s Unpacking libnvme1t64 (1.11.1-1) over (1.11-2) ... 82s Preparing to unpack .../linux-firmware_20241118.git6e4e94b0-0ubuntu1_amd64.deb ... 82s Unpacking linux-firmware (20241118.git6e4e94b0-0ubuntu1) over (20241108.git3bbb13a7-0ubuntu1) ... 84s Setting up linux-firmware (20241118.git6e4e94b0-0ubuntu1) ... 84s Setting up liblsof0 (4.99.3+dfsg-2) ... 84s Setting up libnvme1t64 (1.11.1-1) ... 84s Setting up lsof (4.99.3+dfsg-2) ... 84s Processing triggers for man-db (2.13.0-1) ... 84s Processing triggers for libc-bin (2.40-1ubuntu3) ... 84s Processing triggers for initramfs-tools (0.142ubuntu35) ... 84s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 84s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 92s Reading package lists... 92s Building dependency tree... 92s Reading state information... 92s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 93s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 93s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 93s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 93s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 94s Reading package lists... 94s Reading package lists... 94s Building dependency tree... 94s Reading state information... 94s Calculating upgrade... 94s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 94s Reading package lists... 94s Building dependency tree... 94s Reading state information... 94s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 95s autopkgtest [19:21:12]: rebooting testbed after setup commands that affected boot 110s autopkgtest [19:21:27]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 113s autopkgtest [19:21:30]: @@@@@@@@@@@@@@@@@@@@ apt-source python-skbio 115s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-3 (dsc) [2897 B] 115s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-3 (tar) [2204 kB] 115s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-3 (diff) [11.1 kB] 115s gpgv: Signature made Sat Sep 28 10:29:34 2024 UTC 115s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 115s gpgv: Can't check signature: No public key 115s dpkg-source: warning: cannot verify inline signature for ./python-skbio_0.6.2-3.dsc: no acceptable signature found 115s autopkgtest [19:21:32]: testing package python-skbio version 0.6.2-3 116s autopkgtest [19:21:33]: build not needed 116s autopkgtest [19:21:33]: test pybuild-autopkgtest: preparing testbed 120s Reading package lists... 120s Building dependency tree... 120s Reading state information... 120s Starting pkgProblemResolver with broken count: 0 120s Starting 2 pkgProblemResolver with broken count: 0 120s Done 120s The following additional packages will be installed: 120s architecture-properties autoconf automake autopoint autotools-dev blt 120s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 120s cython3 debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism 120s docutils-common dwz fontconfig-config fonts-dejavu-core fonts-dejavu-mono 120s fonts-lyx fonts-mathjax fonts-open-sans g++ g++-14 g++-14-x86-64-linux-gnu 120s g++-x86-64-linux-gnu gcc gcc-14 gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu 120s gettext intltool-debian libaec0 libarchive-zip-perl libasan8 libblas3 120s libcc1-0 libdebhelper-perl libdeflate0 libexpat1-dev 120s libfile-stripnondeterminism-perl libfontconfig1 libgcc-14-dev libgfortran5 120s libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1t64 libhdf5-hl-100t64 120s libhwasan0 libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 120s libjs-jquery libjs-jquery-ui libjs-mathjax libjs-sphinxdoc libjs-underscore 120s libjson-perl liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 liblzf1 120s libmpc3 libopenjp2-7 libpython3-all-dev libpython3-dev libpython3.12-dev 120s libqhull-r8.0 libquadmath0 libraqm0 libsharpyuv0 libsimde-dev libssw-dev 120s libssw0 libstdc++-14-dev libsz2 libtcl8.6 libtiff6 libtk8.6 libtool libtsan2 120s libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxft2 libxrender1 libxslt1.1 120s libxss1 m4 po-debconf pybuild-plugin-autopkgtest python-biom-format-doc 120s python-matplotlib-data python-numpy-doc python-pandas-doc python-scipy-doc 120s python-skbio-doc python3-alabaster python3-all python3-all-dev 120s python3-appdirs python3-asttokens python3-biom-format python3-brotli 120s python3-bs4 python3-cachecontrol python3-click python3-colorama 120s python3-contourpy python3-cycler python3-dateutil python3-decorator 120s python3-defusedxml python3-dev python3-doc python3-docutils 120s python3-executing python3-fonttools python3-fs python3-h5py 120s python3-h5py-serial python3-hdmedians python3-imagesize python3-iniconfig 120s python3-ipython python3-jedi python3-joblib python3-kiwisolver python3-lxml 120s python3-lz4 python3-matplotlib python3-matplotlib-inline python3-mpmath 120s python3-msgpack python3-natsort python3-numpy python3-numpydoc 120s python3-packaging python3-pandas python3-pandas-lib python3-parso 120s python3-patsy python3-pexpect python3-pil python3-pil.imagetk python3-pluggy 120s python3-prompt-toolkit python3-ptyprocess python3-pure-eval 120s python3-pydata-sphinx-theme python3-pytest python3-roman python3-scipy 120s python3-six python3-skbio python3-sklearn python3-sklearn-lib 120s python3-snowballstemmer python3-soupsieve python3-sphinx 120s python3-sphinx-copybutton python3-sphinx-design python3-stack-data 120s python3-statsmodels python3-statsmodels-lib python3-sympy python3-tabulate 120s python3-threadpoolctl python3-tk python3-traitlets python3-typeshed 120s python3-tz python3-ufolib2 python3-wcwidth python3.12-dev python3.12-doc 120s python3.12-tk python3.13-tk sgml-base sphinx-common tk8.6-blt2.5 120s unicode-data x11-common xml-core zlib1g-dev 120s Suggested packages: 120s autoconf-archive gnu-standards autoconf-doc blt-demo cpp-doc gcc-14-locales 120s cpp-14-doc cython-doc dh-make flit python3-build python3-installer 120s python3-wheel g++-multilib g++-14-multilib gcc-14-doc gcc-multilib 120s manpages-dev flex bison gdb gcc-doc gcc-14-multilib gdb-x86-64-linux-gnu 120s gettext-doc libasprintf-dev libgettextpo-dev libjs-jquery-ui-docs 120s fonts-mathjax-extras fonts-stix libjs-mathjax-doc liblcms2-utils 120s libstdc++-14-doc tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler 120s gcj-jdk m4-doc libmail-box-perl python-imageio-doc python-pytest-doc 120s python-skimage-doc python-cycler-doc python3-examples docutils-doc 120s fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french 120s texlive-latex-base texlive-latex-recommended python-h5py-doc 120s python-ipython-doc python-joblib-doc python-lxml-doc cm-super-minimal dvipng 120s ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 120s librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi-cairo 120s python3-gobject python3-pyqt5 python3-sip python3-tornado 120s texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 120s python-natsort-doc gfortran python-patsy-doc python-pexpect-doc 120s python-pil-doc python3-dap python-sklearn-doc python3-stemmer dvisvgm 120s fonts-freefont-otf imagemagick-6.q16 latexmk python3-sphinx-rtd-theme 120s sphinx-doc tex-gyre texlive-fonts-extra texlive-fonts-recommended 120s texlive-plain-generic python-sphinx-copybutton-doc python-statsmodels-doc 120s python-sympy-doc tix python3-tk-dbg python-traitlets-doc sgml-base-doc 120s Recommended packages: 120s libarchive-cpio-perl javascript-common libjson-xs-perl libltdl-dev 120s libmail-sendmail-perl libpaper-utils python3-simplejson python3-psutil 120s python3-cssselect python3-html5lib python3-bottleneck python3-numexpr 120s python3-odf python3-openpyxl python3-tables python3-numba python3-olefile 120s python3-accessible-pygments python3-cvxopt isympy-common 121s The following NEW packages will be installed: 121s architecture-properties autoconf automake autopkgtest-satdep autopoint 121s autotools-dev blt build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu 121s cpp-x86-64-linux-gnu cython3 debhelper debugedit dh-autoreconf dh-python 121s dh-strip-nondeterminism docutils-common dwz fontconfig-config 121s fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-mathjax fonts-open-sans 121s g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 121s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gettext intltool-debian libaec0 121s libarchive-zip-perl libasan8 libblas3 libcc1-0 libdebhelper-perl libdeflate0 121s libexpat1-dev libfile-stripnondeterminism-perl libfontconfig1 libgcc-14-dev 121s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1t64 121s libhdf5-hl-100t64 libhwasan0 libimagequant0 libisl23 libitm1 libjbig0 121s libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-mathjax 121s libjs-sphinxdoc libjs-underscore libjson-perl liblapack3 liblbfgsb0 121s liblcms2-2 liblerc4 liblsan0 liblzf1 libmpc3 libopenjp2-7 libpython3-all-dev 121s libpython3-dev libpython3.12-dev libqhull-r8.0 libquadmath0 libraqm0 121s libsharpyuv0 libsimde-dev libssw-dev libssw0 libstdc++-14-dev libsz2 121s libtcl8.6 libtiff6 libtk8.6 libtool libtsan2 libubsan1 libwebp7 121s libwebpdemux2 libwebpmux3 libxft2 libxrender1 libxslt1.1 libxss1 m4 121s po-debconf pybuild-plugin-autopkgtest python-biom-format-doc 121s python-matplotlib-data python-numpy-doc python-pandas-doc python-scipy-doc 121s python-skbio-doc python3-alabaster python3-all python3-all-dev 121s python3-appdirs python3-asttokens python3-biom-format python3-brotli 121s python3-bs4 python3-cachecontrol python3-click python3-colorama 121s python3-contourpy python3-cycler python3-dateutil python3-decorator 121s python3-defusedxml python3-dev python3-doc python3-docutils 121s python3-executing python3-fonttools python3-fs python3-h5py 121s python3-h5py-serial python3-hdmedians python3-imagesize python3-iniconfig 121s python3-ipython python3-jedi python3-joblib python3-kiwisolver python3-lxml 121s python3-lz4 python3-matplotlib python3-matplotlib-inline python3-mpmath 121s python3-msgpack python3-natsort python3-numpy python3-numpydoc 121s python3-packaging python3-pandas python3-pandas-lib python3-parso 121s python3-patsy python3-pexpect python3-pil python3-pil.imagetk python3-pluggy 121s python3-prompt-toolkit python3-ptyprocess python3-pure-eval 121s python3-pydata-sphinx-theme python3-pytest python3-roman python3-scipy 121s python3-six python3-skbio python3-sklearn python3-sklearn-lib 121s python3-snowballstemmer python3-soupsieve python3-sphinx 121s python3-sphinx-copybutton python3-sphinx-design python3-stack-data 121s python3-statsmodels python3-statsmodels-lib python3-sympy python3-tabulate 121s python3-threadpoolctl python3-tk python3-traitlets python3-typeshed 121s python3-tz python3-ufolib2 python3-wcwidth python3.12-dev python3.12-doc 121s python3.12-tk python3.13-tk sgml-base sphinx-common tk8.6-blt2.5 121s unicode-data x11-common xml-core zlib1g-dev 121s 0 upgraded, 196 newly installed, 0 to remove and 0 not upgraded. 121s Need to get 221 MB/221 MB of archives. 121s After this operation, 1291 MB of additional disk space will be used. 121s Get:1 /tmp/autopkgtest.gPKQ6A/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [980 B] 121s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 121s Get:3 http://ftpmaster.internal/ubuntu plucky/universe amd64 architecture-properties amd64 0.2.3 [2066 B] 121s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 m4 amd64 1.4.19-4build1 [244 kB] 121s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 autoconf all 2.72-3 [382 kB] 121s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 autotools-dev all 20220109.1 [44.9 kB] 121s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 automake all 1:1.16.5-1.3ubuntu1 [558 kB] 121s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 autopoint all 0.22.5-2 [616 kB] 121s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.15+dfsg-2 [1085 kB] 121s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 122s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 122s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 122s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 122s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 122s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 122s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 122s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 122s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.15-1 [862 kB] 122s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-7build1 [630 kB] 122s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-7build1 [4840 B] 122s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 122s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 122s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 123s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 123s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 123s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 123s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 123s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 123s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 123s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 123s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 123s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 123s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 123s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 123s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 123s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 123s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 124s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 124s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 124s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 124s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 124s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 125s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 125s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 125s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 125s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 125s Get:47 http://ftpmaster.internal/ubuntu plucky/universe amd64 cython3 amd64 3.0.11+dfsg-1ubuntu2 [3368 kB] 125s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 125s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libtool all 2.4.7-8 [166 kB] 125s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-autoreconf all 20 [16.1 kB] 125s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] 125s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 125s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-strip-nondeterminism all 1.14.0-1 [5058 B] 125s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 debugedit amd64 1:5.1-1 [46.9 kB] 125s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 dwz amd64 0.15-1build6 [115 kB] 125s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 gettext amd64 0.22.5-2 [948 kB] 125s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 125s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] 125s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 debhelper all 13.20ubuntu1 [893 kB] 125s Get:60 http://ftpmaster.internal/ubuntu plucky/universe amd64 dh-python all 6.20241024 [112 kB] 125s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 125s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 docutils-common all 0.21.2+dfsg-2 [131 kB] 125s Get:63 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.2.1-1 [171 kB] 125s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 125s Get:65 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-open-sans all 1.11-2 [635 kB] 125s Get:66 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 125s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 125s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 125s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1-dev amd64 2.6.4-1 [148 kB] 125s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 125s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 125s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 125s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 125s Get:74 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4ubuntu3 [1280 kB] 125s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4ubuntu3 [56.6 kB] 125s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 125s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 125s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 125s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 125s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 125s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 125s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 125s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 libjson-perl all 4.10000-1 [81.9 kB] 125s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 125s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 125s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 125s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 125s Get:88 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 125s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 125s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.12-dev amd64 3.12.7-3 [5699 kB] 125s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-dev amd64 3.12.6-0ubuntu1 [10.2 kB] 125s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-all-dev amd64 3.12.6-0ubuntu1 [916 B] 125s Get:93 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 125s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 125s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 125s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsimde-dev all 0.8.2-1 [466 kB] 125s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 libssw0 amd64 1.1-15 [22.5 kB] 125s Get:98 http://ftpmaster.internal/ubuntu plucky/universe amd64 libssw-dev amd64 1.1-15 [23.8 kB] 125s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 125s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 125s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 125s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 126s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 126s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu1 [169 kB] 126s Get:105 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 126s Get:106 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-biom-format-doc all 2.1.16-1 [57.5 kB] 126s Get:107 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-3 [2928 kB] 126s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 python-numpy-doc all 1:1.26.4+ds-11ubuntu1 [5481 kB] 126s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 126s Get:110 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-pandas-doc all 2.2.3+dfsg-5ubuntu1 [9117 kB] 127s Get:111 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-skbio-doc all 0.6.2-3 [2071 kB] 127s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 127s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-dev amd64 3.12.7-3 [505 kB] 127s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dev amd64 3.12.6-0ubuntu1 [26.7 kB] 127s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all-dev amd64 3.12.6-0ubuntu1 [908 B] 127s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-appdirs all 1.4.4-4 [10.9 kB] 127s Get:117 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-asttokens all 2.4.1-2 [20.8 kB] 127s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11ubuntu1 [5319 kB] 127s Get:119 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-h5py-serial amd64 3.11.0-8ubuntu1 [1686 kB] 127s Get:120 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-h5py all 3.11.0-8ubuntu1 [7982 B] 127s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-colorama all 0.4.6-4 [32.1 kB] 127s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-click all 8.1.7-2 [79.5 kB] 127s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-3 [80.2 kB] 127s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2024.1-2 [31.4 kB] 127s Get:125 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-5ubuntu1 [8271 kB] 127s Get:126 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-5ubuntu1 [3112 kB] 127s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 127s Get:128 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5ubuntu1 [21.7 MB] 128s Get:129 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biom-format amd64 2.1.16-1 [141 kB] 128s Get:130 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build3 [368 kB] 128s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-soupsieve all 2.6-1 [33.0 kB] 128s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-bs4 all 4.12.3-3 [109 kB] 128s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-msgpack amd64 1.0.3-3build3 [113 kB] 128s Get:134 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cachecontrol all 0.14.1-1 [19.0 kB] 128s Get:135 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.0-2build1 [271 kB] 128s Get:136 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B] 128s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-defusedxml all 0.7.1-2 [42.0 kB] 128s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-doc all 3.12.7-3 [12.4 MB] 128s Get:139 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-doc all 3.12.6-0ubuntu1 [10.2 kB] 128s Get:140 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-roman all 4.2-1 [10.0 kB] 128s Get:141 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-docutils all 0.21.2+dfsg-2 [409 kB] 128s Get:142 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-executing all 2.1.0-0.1 [24.4 kB] 128s Get:143 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.16.0-7 [13.1 kB] 128s Get:144 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-4 [91.3 kB] 128s Get:145 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.0-1build1 [1834 kB] 128s Get:146 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.0.2+dfsg-1build4 [26.2 kB] 128s Get:147 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 128s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-1 [4228 kB] 128s Get:149 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB] 128s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB] 128s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.54.1-4ubuntu1 [1757 kB] 129s Get:152 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-hdmedians amd64 0.14.2-5.1build2 [200 kB] 129s Get:153 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-imagesize all 1.4.1-1 [6844 B] 129s Get:154 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 129s Get:155 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-parso all 0.8.3-1 [67.2 kB] 129s Get:156 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-typeshed all 0.0~git20231111.6764465-3 [1274 kB] 129s Get:157 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-jedi all 0.19.1+ds1-1 [693 kB] 129s Get:158 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB] 129s Get:159 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib-inline all 0.1.6-2 [8784 B] 129s Get:160 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-wcwidth all 0.2.13+dfsg1-1 [26.3 kB] 129s Get:161 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-prompt-toolkit all 3.0.48-1 [256 kB] 129s Get:162 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pure-eval all 0.2.3-1 [11.4 kB] 129s Get:163 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-stack-data all 0.6.3-1 [22.0 kB] 129s Get:164 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-ptyprocess all 0.7.0-6 [14.8 kB] 129s Get:165 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pexpect all 4.9-2 [48.1 kB] 129s Get:166 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ipython all 8.29.0-1 [569 kB] 129s Get:167 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.3.2-5 [206 kB] 129s Get:168 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-2build1 [70.3 kB] 129s Get:169 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 129s Get:170 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 129s Get:171 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.7-3 [116 kB] 129s Get:172 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-tk amd64 3.13.0-2 [106 kB] 129s Get:173 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.12.7-1 [9752 B] 129s Get:174 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 10.4.0-1ubuntu1 [9394 B] 129s Get:175 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB] 129s Get:176 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-3 [4545 kB] 129s Get:177 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-natsort all 8.0.2-2 [33.8 kB] 129s Get:178 http://ftpmaster.internal/ubuntu plucky/main amd64 sphinx-common all 7.4.7-4 [775 kB] 129s Get:179 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-alabaster all 0.7.16-0.1 [18.5 kB] 129s Get:180 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-snowballstemmer all 2.2.0-4build1 [59.8 kB] 129s Get:181 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-sphinx all 7.4.7-4 [593 kB] 129s Get:182 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tabulate all 0.9.0-1 [45.3 kB] 129s Get:183 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-numpydoc all 1.6.0-2 [50.5 kB] 129s Get:184 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-patsy all 1.0.1-1 [180 kB] 129s Get:185 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 129s Get:186 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pydata-sphinx-theme all 0.15.4+dfsg-2 [41.5 kB] 129s Get:187 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 129s Get:188 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-statsmodels-lib amd64 0.14.4+dfsg-1build1 [2808 kB] 129s Get:189 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-statsmodels all 0.14.4+dfsg-1build1 [5011 kB] 129s Get:190 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-skbio amd64 0.6.2-3 [1407 kB] 129s Get:191 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 129s Get:192 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-6 [3920 kB] 129s Get:193 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn all 1.4.2+dfsg-6 [2257 kB] 129s Get:194 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sphinx-copybutton all 0.5.2-2 [16.6 kB] 129s Get:195 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sphinx-design all 0.6.1-1 [894 kB] 129s Get:196 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-scipy-doc all 1.13.1-5ubuntu1 [31.2 kB] 130s Fetched 221 MB in 9s (25.3 MB/s) 130s Selecting previously unselected package sgml-base. 130s (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 ... 75620 files and directories currently installed.) 130s Preparing to unpack .../000-sgml-base_1.31_all.deb ... 130s Unpacking sgml-base (1.31) ... 130s Selecting previously unselected package architecture-properties:amd64. 130s Preparing to unpack .../001-architecture-properties_0.2.3_amd64.deb ... 130s Unpacking architecture-properties:amd64 (0.2.3) ... 130s Selecting previously unselected package m4. 130s Preparing to unpack .../002-m4_1.4.19-4build1_amd64.deb ... 130s Unpacking m4 (1.4.19-4build1) ... 130s Selecting previously unselected package autoconf. 130s Preparing to unpack .../003-autoconf_2.72-3_all.deb ... 130s Unpacking autoconf (2.72-3) ... 130s Selecting previously unselected package autotools-dev. 130s Preparing to unpack .../004-autotools-dev_20220109.1_all.deb ... 130s Unpacking autotools-dev (20220109.1) ... 130s Selecting previously unselected package automake. 130s Preparing to unpack .../005-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 130s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 130s Selecting previously unselected package autopoint. 130s Preparing to unpack .../006-autopoint_0.22.5-2_all.deb ... 130s Unpacking autopoint (0.22.5-2) ... 130s Selecting previously unselected package libtcl8.6:amd64. 130s Preparing to unpack .../007-libtcl8.6_8.6.15+dfsg-2_amd64.deb ... 130s Unpacking libtcl8.6:amd64 (8.6.15+dfsg-2) ... 130s Selecting previously unselected package fonts-dejavu-mono. 130s Preparing to unpack .../008-fonts-dejavu-mono_2.37-8_all.deb ... 130s Unpacking fonts-dejavu-mono (2.37-8) ... 130s Selecting previously unselected package fonts-dejavu-core. 130s Preparing to unpack .../009-fonts-dejavu-core_2.37-8_all.deb ... 130s Unpacking fonts-dejavu-core (2.37-8) ... 130s Selecting previously unselected package fontconfig-config. 130s Preparing to unpack .../010-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 130s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 130s Selecting previously unselected package libfontconfig1:amd64. 130s Preparing to unpack .../011-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 130s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 130s Selecting previously unselected package libxrender1:amd64. 130s Preparing to unpack .../012-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 130s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 130s Selecting previously unselected package libxft2:amd64. 130s Preparing to unpack .../013-libxft2_2.3.6-1build1_amd64.deb ... 130s Unpacking libxft2:amd64 (2.3.6-1build1) ... 130s Selecting previously unselected package x11-common. 130s Preparing to unpack .../014-x11-common_1%3a7.7+23ubuntu3_all.deb ... 130s Unpacking x11-common (1:7.7+23ubuntu3) ... 130s Selecting previously unselected package libxss1:amd64. 130s Preparing to unpack .../015-libxss1_1%3a1.2.3-1build3_amd64.deb ... 130s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 130s Selecting previously unselected package libtk8.6:amd64. 131s Preparing to unpack .../016-libtk8.6_8.6.15-1_amd64.deb ... 131s Unpacking libtk8.6:amd64 (8.6.15-1) ... 131s Selecting previously unselected package tk8.6-blt2.5. 131s Preparing to unpack .../017-tk8.6-blt2.5_2.5.3+dfsg-7build1_amd64.deb ... 131s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 131s Selecting previously unselected package blt. 131s Preparing to unpack .../018-blt_2.5.3+dfsg-7build1_amd64.deb ... 131s Unpacking blt (2.5.3+dfsg-7build1) ... 131s Selecting previously unselected package libisl23:amd64. 131s Preparing to unpack .../019-libisl23_0.27-1_amd64.deb ... 131s Unpacking libisl23:amd64 (0.27-1) ... 131s Selecting previously unselected package libmpc3:amd64. 131s Preparing to unpack .../020-libmpc3_1.3.1-1build2_amd64.deb ... 131s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 131s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 131s Preparing to unpack .../021-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package cpp-14. 131s Preparing to unpack .../022-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package cpp-x86-64-linux-gnu. 131s Preparing to unpack .../023-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 131s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 131s Selecting previously unselected package cpp. 131s Preparing to unpack .../024-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 131s Unpacking cpp (4:14.1.0-2ubuntu1) ... 131s Selecting previously unselected package libcc1-0:amd64. 131s Preparing to unpack .../025-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libgomp1:amd64. 131s Preparing to unpack .../026-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libitm1:amd64. 131s Preparing to unpack .../027-libitm1_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libasan8:amd64. 131s Preparing to unpack .../028-libasan8_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package liblsan0:amd64. 131s Preparing to unpack .../029-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libtsan2:amd64. 131s Preparing to unpack .../030-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libubsan1:amd64. 131s Preparing to unpack .../031-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libhwasan0:amd64. 131s Preparing to unpack .../032-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libquadmath0:amd64. 131s Preparing to unpack .../033-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package libgcc-14-dev:amd64. 131s Preparing to unpack .../034-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 131s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 131s Preparing to unpack .../035-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 131s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 132s Selecting previously unselected package gcc-14. 132s Preparing to unpack .../036-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 132s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 132s Selecting previously unselected package gcc-x86-64-linux-gnu. 132s Preparing to unpack .../037-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 132s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 132s Selecting previously unselected package gcc. 132s Preparing to unpack .../038-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 132s Unpacking gcc (4:14.1.0-2ubuntu1) ... 132s Selecting previously unselected package libstdc++-14-dev:amd64. 132s Preparing to unpack .../039-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 132s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 132s Selecting previously unselected package g++-14-x86-64-linux-gnu. 132s Preparing to unpack .../040-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 132s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 132s Selecting previously unselected package g++-14. 132s Preparing to unpack .../041-g++-14_14.2.0-8ubuntu1_amd64.deb ... 132s Unpacking g++-14 (14.2.0-8ubuntu1) ... 132s Selecting previously unselected package g++-x86-64-linux-gnu. 132s Preparing to unpack .../042-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 132s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 132s Selecting previously unselected package g++. 132s Preparing to unpack .../043-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 132s Unpacking g++ (4:14.1.0-2ubuntu1) ... 132s Selecting previously unselected package build-essential. 132s Preparing to unpack .../044-build-essential_12.10ubuntu1_amd64.deb ... 132s Unpacking build-essential (12.10ubuntu1) ... 132s Selecting previously unselected package cython3. 132s Preparing to unpack .../045-cython3_3.0.11+dfsg-1ubuntu2_amd64.deb ... 132s Unpacking cython3 (3.0.11+dfsg-1ubuntu2) ... 132s Selecting previously unselected package libdebhelper-perl. 132s Preparing to unpack .../046-libdebhelper-perl_13.20ubuntu1_all.deb ... 132s Unpacking libdebhelper-perl (13.20ubuntu1) ... 132s Selecting previously unselected package libtool. 132s Preparing to unpack .../047-libtool_2.4.7-8_all.deb ... 132s Unpacking libtool (2.4.7-8) ... 132s Selecting previously unselected package dh-autoreconf. 132s Preparing to unpack .../048-dh-autoreconf_20_all.deb ... 132s Unpacking dh-autoreconf (20) ... 132s Selecting previously unselected package libarchive-zip-perl. 132s Preparing to unpack .../049-libarchive-zip-perl_1.68-1_all.deb ... 132s Unpacking libarchive-zip-perl (1.68-1) ... 132s Selecting previously unselected package libfile-stripnondeterminism-perl. 132s Preparing to unpack .../050-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 132s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 132s Selecting previously unselected package dh-strip-nondeterminism. 132s Preparing to unpack .../051-dh-strip-nondeterminism_1.14.0-1_all.deb ... 132s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 132s Selecting previously unselected package debugedit. 132s Preparing to unpack .../052-debugedit_1%3a5.1-1_amd64.deb ... 132s Unpacking debugedit (1:5.1-1) ... 132s Selecting previously unselected package dwz. 132s Preparing to unpack .../053-dwz_0.15-1build6_amd64.deb ... 132s Unpacking dwz (0.15-1build6) ... 132s Selecting previously unselected package gettext. 132s Preparing to unpack .../054-gettext_0.22.5-2_amd64.deb ... 132s Unpacking gettext (0.22.5-2) ... 132s Selecting previously unselected package intltool-debian. 132s Preparing to unpack .../055-intltool-debian_0.35.0+20060710.6_all.deb ... 132s Unpacking intltool-debian (0.35.0+20060710.6) ... 132s Selecting previously unselected package po-debconf. 132s Preparing to unpack .../056-po-debconf_1.0.21+nmu1_all.deb ... 132s Unpacking po-debconf (1.0.21+nmu1) ... 132s Selecting previously unselected package debhelper. 132s Preparing to unpack .../057-debhelper_13.20ubuntu1_all.deb ... 132s Unpacking debhelper (13.20ubuntu1) ... 132s Selecting previously unselected package dh-python. 132s Preparing to unpack .../058-dh-python_6.20241024_all.deb ... 132s Unpacking dh-python (6.20241024) ... 132s Selecting previously unselected package xml-core. 132s Preparing to unpack .../059-xml-core_0.19_all.deb ... 132s Unpacking xml-core (0.19) ... 132s Selecting previously unselected package docutils-common. 133s Preparing to unpack .../060-docutils-common_0.21.2+dfsg-2_all.deb ... 133s Unpacking docutils-common (0.21.2+dfsg-2) ... 133s Selecting previously unselected package fonts-lyx. 133s Preparing to unpack .../061-fonts-lyx_2.4.2.1-1_all.deb ... 133s Unpacking fonts-lyx (2.4.2.1-1) ... 133s Selecting previously unselected package fonts-mathjax. 133s Preparing to unpack .../062-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 133s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 133s Selecting previously unselected package fonts-open-sans. 133s Preparing to unpack .../063-fonts-open-sans_1.11-2_all.deb ... 133s Unpacking fonts-open-sans (1.11-2) ... 133s Selecting previously unselected package libaec0:amd64. 133s Preparing to unpack .../064-libaec0_1.1.3-1_amd64.deb ... 133s Unpacking libaec0:amd64 (1.1.3-1) ... 133s Selecting previously unselected package libblas3:amd64. 133s Preparing to unpack .../065-libblas3_3.12.0-3build2_amd64.deb ... 133s Unpacking libblas3:amd64 (3.12.0-3build2) ... 133s Selecting previously unselected package libdeflate0:amd64. 133s Preparing to unpack .../066-libdeflate0_1.22-1_amd64.deb ... 133s Unpacking libdeflate0:amd64 (1.22-1) ... 133s Selecting previously unselected package libexpat1-dev:amd64. 133s Preparing to unpack .../067-libexpat1-dev_2.6.4-1_amd64.deb ... 133s Unpacking libexpat1-dev:amd64 (2.6.4-1) ... 133s Selecting previously unselected package libgfortran5:amd64. 133s Preparing to unpack .../068-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 133s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 133s Selecting previously unselected package libgraphite2-3:amd64. 133s Preparing to unpack .../069-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 133s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 133s Selecting previously unselected package libharfbuzz0b:amd64. 133s Preparing to unpack .../070-libharfbuzz0b_10.0.1-1_amd64.deb ... 133s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 133s Selecting previously unselected package libsz2:amd64. 133s Preparing to unpack .../071-libsz2_1.1.3-1_amd64.deb ... 133s Unpacking libsz2:amd64 (1.1.3-1) ... 133s Selecting previously unselected package libhdf5-103-1t64:amd64. 133s Preparing to unpack .../072-libhdf5-103-1t64_1.10.10+repack-4ubuntu3_amd64.deb ... 133s Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ... 133s Selecting previously unselected package libhdf5-hl-100t64:amd64. 133s Preparing to unpack .../073-libhdf5-hl-100t64_1.10.10+repack-4ubuntu3_amd64.deb ... 133s Unpacking libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ... 133s Selecting previously unselected package libimagequant0:amd64. 133s Preparing to unpack .../074-libimagequant0_2.18.0-1build1_amd64.deb ... 133s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 133s Selecting previously unselected package libjpeg-turbo8:amd64. 133s Preparing to unpack .../075-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 133s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 133s Selecting previously unselected package libjpeg8:amd64. 133s Preparing to unpack .../076-libjpeg8_8c-2ubuntu11_amd64.deb ... 133s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 133s Selecting previously unselected package libjs-jquery. 133s Preparing to unpack .../077-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 133s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 133s Selecting previously unselected package libjs-jquery-ui. 133s Preparing to unpack .../078-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 133s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 133s Selecting previously unselected package libjs-underscore. 133s Preparing to unpack .../079-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 133s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 133s Selecting previously unselected package libjs-sphinxdoc. 133s Preparing to unpack .../080-libjs-sphinxdoc_7.4.7-4_all.deb ... 133s Unpacking libjs-sphinxdoc (7.4.7-4) ... 133s Selecting previously unselected package libjson-perl. 133s Preparing to unpack .../081-libjson-perl_4.10000-1_all.deb ... 133s Unpacking libjson-perl (4.10000-1) ... 133s Selecting previously unselected package liblapack3:amd64. 133s Preparing to unpack .../082-liblapack3_3.12.0-3build2_amd64.deb ... 133s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 133s Selecting previously unselected package liblbfgsb0:amd64. 133s Preparing to unpack .../083-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 133s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 133s Selecting previously unselected package liblcms2-2:amd64. 133s Preparing to unpack .../084-liblcms2-2_2.16-2_amd64.deb ... 133s Unpacking liblcms2-2:amd64 (2.16-2) ... 133s Selecting previously unselected package liblerc4:amd64. 133s Preparing to unpack .../085-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 133s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 133s Selecting previously unselected package liblzf1:amd64. 133s Preparing to unpack .../086-liblzf1_3.6-4_amd64.deb ... 133s Unpacking liblzf1:amd64 (3.6-4) ... 133s Selecting previously unselected package zlib1g-dev:amd64. 133s Preparing to unpack .../087-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_amd64.deb ... 133s Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 133s Selecting previously unselected package libpython3.12-dev:amd64. 133s Preparing to unpack .../088-libpython3.12-dev_3.12.7-3_amd64.deb ... 133s Unpacking libpython3.12-dev:amd64 (3.12.7-3) ... 133s Selecting previously unselected package libpython3-dev:amd64. 133s Preparing to unpack .../089-libpython3-dev_3.12.6-0ubuntu1_amd64.deb ... 133s Unpacking libpython3-dev:amd64 (3.12.6-0ubuntu1) ... 133s Selecting previously unselected package libpython3-all-dev:amd64. 133s Preparing to unpack .../090-libpython3-all-dev_3.12.6-0ubuntu1_amd64.deb ... 133s Unpacking libpython3-all-dev:amd64 (3.12.6-0ubuntu1) ... 133s Selecting previously unselected package libqhull-r8.0:amd64. 133s Preparing to unpack .../091-libqhull-r8.0_2020.2-6build1_amd64.deb ... 133s Unpacking libqhull-r8.0:amd64 (2020.2-6build1) ... 134s Selecting previously unselected package libraqm0:amd64. 134s Preparing to unpack .../092-libraqm0_0.10.1-1build1_amd64.deb ... 134s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 134s Selecting previously unselected package libsharpyuv0:amd64. 134s Preparing to unpack .../093-libsharpyuv0_1.4.0-0.1_amd64.deb ... 134s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 134s Selecting previously unselected package libsimde-dev. 134s Preparing to unpack .../094-libsimde-dev_0.8.2-1_all.deb ... 134s Unpacking libsimde-dev (0.8.2-1) ... 134s Selecting previously unselected package libssw0:amd64. 134s Preparing to unpack .../095-libssw0_1.1-15_amd64.deb ... 134s Unpacking libssw0:amd64 (1.1-15) ... 134s Selecting previously unselected package libssw-dev:amd64. 134s Preparing to unpack .../096-libssw-dev_1.1-15_amd64.deb ... 134s Unpacking libssw-dev:amd64 (1.1-15) ... 134s Selecting previously unselected package libjbig0:amd64. 134s Preparing to unpack .../097-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 134s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 134s Selecting previously unselected package libwebp7:amd64. 134s Preparing to unpack .../098-libwebp7_1.4.0-0.1_amd64.deb ... 134s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 134s Selecting previously unselected package libtiff6:amd64. 134s Preparing to unpack .../099-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 134s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 134s Selecting previously unselected package libwebpdemux2:amd64. 134s Preparing to unpack .../100-libwebpdemux2_1.4.0-0.1_amd64.deb ... 134s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 134s Selecting previously unselected package libwebpmux3:amd64. 134s Preparing to unpack .../101-libwebpmux3_1.4.0-0.1_amd64.deb ... 134s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 134s Selecting previously unselected package libxslt1.1:amd64. 134s Preparing to unpack .../102-libxslt1.1_1.1.39-0exp1ubuntu1_amd64.deb ... 134s Unpacking libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ... 134s Selecting previously unselected package pybuild-plugin-autopkgtest. 134s Preparing to unpack .../103-pybuild-plugin-autopkgtest_6.20241024_all.deb ... 134s Unpacking pybuild-plugin-autopkgtest (6.20241024) ... 134s Selecting previously unselected package python-biom-format-doc. 134s Preparing to unpack .../104-python-biom-format-doc_2.1.16-1_all.deb ... 134s Unpacking python-biom-format-doc (2.1.16-1) ... 134s Selecting previously unselected package python-matplotlib-data. 134s Preparing to unpack .../105-python-matplotlib-data_3.8.3-3_all.deb ... 134s Unpacking python-matplotlib-data (3.8.3-3) ... 134s Selecting previously unselected package python-numpy-doc. 134s Preparing to unpack .../106-python-numpy-doc_1%3a1.26.4+ds-11ubuntu1_all.deb ... 134s Unpacking python-numpy-doc (1:1.26.4+ds-11ubuntu1) ... 135s Selecting previously unselected package libjs-mathjax. 135s Preparing to unpack .../107-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 135s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 135s Selecting previously unselected package python-pandas-doc. 135s Preparing to unpack .../108-python-pandas-doc_2.2.3+dfsg-5ubuntu1_all.deb ... 135s Unpacking python-pandas-doc (2.2.3+dfsg-5ubuntu1) ... 136s Selecting previously unselected package python-skbio-doc. 136s Preparing to unpack .../109-python-skbio-doc_0.6.2-3_all.deb ... 136s Unpacking python-skbio-doc (0.6.2-3) ... 137s Selecting previously unselected package python3-all. 137s Preparing to unpack .../110-python3-all_3.12.6-0ubuntu1_amd64.deb ... 137s Unpacking python3-all (3.12.6-0ubuntu1) ... 137s Selecting previously unselected package python3.12-dev. 137s Preparing to unpack .../111-python3.12-dev_3.12.7-3_amd64.deb ... 137s Unpacking python3.12-dev (3.12.7-3) ... 137s Selecting previously unselected package python3-dev. 137s Preparing to unpack .../112-python3-dev_3.12.6-0ubuntu1_amd64.deb ... 137s Unpacking python3-dev (3.12.6-0ubuntu1) ... 137s Selecting previously unselected package python3-all-dev. 137s Preparing to unpack .../113-python3-all-dev_3.12.6-0ubuntu1_amd64.deb ... 137s Unpacking python3-all-dev (3.12.6-0ubuntu1) ... 137s Selecting previously unselected package python3-appdirs. 137s Preparing to unpack .../114-python3-appdirs_1.4.4-4_all.deb ... 137s Unpacking python3-appdirs (1.4.4-4) ... 137s Selecting previously unselected package python3-asttokens. 137s Preparing to unpack .../115-python3-asttokens_2.4.1-2_all.deb ... 137s Unpacking python3-asttokens (2.4.1-2) ... 137s Selecting previously unselected package python3-numpy. 137s Preparing to unpack .../116-python3-numpy_1%3a1.26.4+ds-11ubuntu1_amd64.deb ... 137s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ... 137s Selecting previously unselected package python3-h5py-serial. 137s Preparing to unpack .../117-python3-h5py-serial_3.11.0-8ubuntu1_amd64.deb ... 137s Unpacking python3-h5py-serial (3.11.0-8ubuntu1) ... 137s Selecting previously unselected package python3-h5py. 137s Preparing to unpack .../118-python3-h5py_3.11.0-8ubuntu1_all.deb ... 137s Unpacking python3-h5py (3.11.0-8ubuntu1) ... 137s Selecting previously unselected package python3-colorama. 137s Preparing to unpack .../119-python3-colorama_0.4.6-4_all.deb ... 137s Unpacking python3-colorama (0.4.6-4) ... 137s Selecting previously unselected package python3-click. 137s Preparing to unpack .../120-python3-click_8.1.7-2_all.deb ... 137s Unpacking python3-click (8.1.7-2) ... 137s Selecting previously unselected package python3-dateutil. 137s Preparing to unpack .../121-python3-dateutil_2.9.0-3_all.deb ... 137s Unpacking python3-dateutil (2.9.0-3) ... 137s Selecting previously unselected package python3-tz. 137s Preparing to unpack .../122-python3-tz_2024.1-2_all.deb ... 137s Unpacking python3-tz (2024.1-2) ... 137s Selecting previously unselected package python3-pandas-lib:amd64. 137s Preparing to unpack .../123-python3-pandas-lib_2.2.3+dfsg-5ubuntu1_amd64.deb ... 137s Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-5ubuntu1) ... 137s Selecting previously unselected package python3-pandas. 137s Preparing to unpack .../124-python3-pandas_2.2.3+dfsg-5ubuntu1_all.deb ... 137s Unpacking python3-pandas (2.2.3+dfsg-5ubuntu1) ... 138s Selecting previously unselected package python3-decorator. 138s Preparing to unpack .../125-python3-decorator_5.1.1-5_all.deb ... 138s Unpacking python3-decorator (5.1.1-5) ... 138s Selecting previously unselected package python3-scipy. 138s Preparing to unpack .../126-python3-scipy_1.13.1-5ubuntu1_amd64.deb ... 138s Unpacking python3-scipy (1.13.1-5ubuntu1) ... 138s Selecting previously unselected package python3-biom-format. 138s Preparing to unpack .../127-python3-biom-format_2.1.16-1_amd64.deb ... 138s Unpacking python3-biom-format (2.1.16-1) ... 138s Selecting previously unselected package python3-brotli. 138s Preparing to unpack .../128-python3-brotli_1.1.0-2build3_amd64.deb ... 138s Unpacking python3-brotli (1.1.0-2build3) ... 138s Selecting previously unselected package python3-soupsieve. 138s Preparing to unpack .../129-python3-soupsieve_2.6-1_all.deb ... 138s Unpacking python3-soupsieve (2.6-1) ... 138s Selecting previously unselected package python3-bs4. 138s Preparing to unpack .../130-python3-bs4_4.12.3-3_all.deb ... 138s Unpacking python3-bs4 (4.12.3-3) ... 138s Selecting previously unselected package python3-msgpack. 138s Preparing to unpack .../131-python3-msgpack_1.0.3-3build3_amd64.deb ... 138s Unpacking python3-msgpack (1.0.3-3build3) ... 138s Selecting previously unselected package python3-cachecontrol. 138s Preparing to unpack .../132-python3-cachecontrol_0.14.1-1_all.deb ... 138s Unpacking python3-cachecontrol (0.14.1-1) ... 138s Selecting previously unselected package python3-contourpy. 138s Preparing to unpack .../133-python3-contourpy_1.3.0-2build1_amd64.deb ... 138s Unpacking python3-contourpy (1.3.0-2build1) ... 138s Selecting previously unselected package python3-cycler. 138s Preparing to unpack .../134-python3-cycler_0.12.1-1_all.deb ... 138s Unpacking python3-cycler (0.12.1-1) ... 138s Selecting previously unselected package python3-defusedxml. 138s Preparing to unpack .../135-python3-defusedxml_0.7.1-2_all.deb ... 138s Unpacking python3-defusedxml (0.7.1-2) ... 139s Selecting previously unselected package python3.12-doc. 139s Preparing to unpack .../136-python3.12-doc_3.12.7-3_all.deb ... 139s Unpacking python3.12-doc (3.12.7-3) ... 139s Selecting previously unselected package python3-doc. 139s Preparing to unpack .../137-python3-doc_3.12.6-0ubuntu1_all.deb ... 139s Unpacking python3-doc (3.12.6-0ubuntu1) ... 139s Selecting previously unselected package python3-roman. 139s Preparing to unpack .../138-python3-roman_4.2-1_all.deb ... 139s Unpacking python3-roman (4.2-1) ... 139s Selecting previously unselected package python3-docutils. 139s Preparing to unpack .../139-python3-docutils_0.21.2+dfsg-2_all.deb ... 139s Unpacking python3-docutils (0.21.2+dfsg-2) ... 139s Selecting previously unselected package python3-executing. 139s Preparing to unpack .../140-python3-executing_2.1.0-0.1_all.deb ... 139s Unpacking python3-executing (2.1.0-0.1) ... 139s Selecting previously unselected package python3-six. 139s Preparing to unpack .../141-python3-six_1.16.0-7_all.deb ... 139s Unpacking python3-six (1.16.0-7) ... 139s Selecting previously unselected package python3-fs. 139s Preparing to unpack .../142-python3-fs_2.4.16-4_all.deb ... 139s Unpacking python3-fs (2.4.16-4) ... 139s Selecting previously unselected package python3-lxml:amd64. 139s Preparing to unpack .../143-python3-lxml_5.3.0-1build1_amd64.deb ... 139s Unpacking python3-lxml:amd64 (5.3.0-1build1) ... 139s Selecting previously unselected package python3-lz4. 139s Preparing to unpack .../144-python3-lz4_4.0.2+dfsg-1build4_amd64.deb ... 139s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ... 139s Selecting previously unselected package python3-mpmath. 139s Preparing to unpack .../145-python3-mpmath_1.3.0-1_all.deb ... 139s Unpacking python3-mpmath (1.3.0-1) ... 139s Selecting previously unselected package python3-sympy. 139s Preparing to unpack .../146-python3-sympy_1.13.3-1_all.deb ... 139s Unpacking python3-sympy (1.13.3-1) ... 139s Selecting previously unselected package python3-ufolib2. 139s Preparing to unpack .../147-python3-ufolib2_0.16.1+dfsg1-1_all.deb ... 139s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ... 139s Selecting previously unselected package unicode-data. 139s Preparing to unpack .../148-unicode-data_15.1.0-1_all.deb ... 139s Unpacking unicode-data (15.1.0-1) ... 140s Selecting previously unselected package python3-fonttools. 140s Preparing to unpack .../149-python3-fonttools_4.54.1-4ubuntu1_amd64.deb ... 140s Unpacking python3-fonttools (4.54.1-4ubuntu1) ... 140s Selecting previously unselected package python3-hdmedians. 140s Preparing to unpack .../150-python3-hdmedians_0.14.2-5.1build2_amd64.deb ... 140s Unpacking python3-hdmedians (0.14.2-5.1build2) ... 140s Selecting previously unselected package python3-imagesize. 140s Preparing to unpack .../151-python3-imagesize_1.4.1-1_all.deb ... 140s Unpacking python3-imagesize (1.4.1-1) ... 140s Selecting previously unselected package python3-iniconfig. 140s Preparing to unpack .../152-python3-iniconfig_1.1.1-2_all.deb ... 140s Unpacking python3-iniconfig (1.1.1-2) ... 140s Selecting previously unselected package python3-parso. 140s Preparing to unpack .../153-python3-parso_0.8.3-1_all.deb ... 140s Unpacking python3-parso (0.8.3-1) ... 140s Selecting previously unselected package python3-typeshed. 140s Preparing to unpack .../154-python3-typeshed_0.0~git20231111.6764465-3_all.deb ... 140s Unpacking python3-typeshed (0.0~git20231111.6764465-3) ... 140s Selecting previously unselected package python3-jedi. 140s Preparing to unpack .../155-python3-jedi_0.19.1+ds1-1_all.deb ... 140s Unpacking python3-jedi (0.19.1+ds1-1) ... 141s Selecting previously unselected package python3-traitlets. 141s Preparing to unpack .../156-python3-traitlets_5.14.3+really5.14.3-1_all.deb ... 141s Unpacking python3-traitlets (5.14.3+really5.14.3-1) ... 141s Selecting previously unselected package python3-matplotlib-inline. 141s Preparing to unpack .../157-python3-matplotlib-inline_0.1.6-2_all.deb ... 141s Unpacking python3-matplotlib-inline (0.1.6-2) ... 141s Selecting previously unselected package python3-wcwidth. 141s Preparing to unpack .../158-python3-wcwidth_0.2.13+dfsg1-1_all.deb ... 141s Unpacking python3-wcwidth (0.2.13+dfsg1-1) ... 141s Selecting previously unselected package python3-prompt-toolkit. 141s Preparing to unpack .../159-python3-prompt-toolkit_3.0.48-1_all.deb ... 141s Unpacking python3-prompt-toolkit (3.0.48-1) ... 141s Selecting previously unselected package python3-pure-eval. 141s Preparing to unpack .../160-python3-pure-eval_0.2.3-1_all.deb ... 141s Unpacking python3-pure-eval (0.2.3-1) ... 141s Selecting previously unselected package python3-stack-data. 141s Preparing to unpack .../161-python3-stack-data_0.6.3-1_all.deb ... 141s Unpacking python3-stack-data (0.6.3-1) ... 141s Selecting previously unselected package python3-ptyprocess. 141s Preparing to unpack .../162-python3-ptyprocess_0.7.0-6_all.deb ... 141s Unpacking python3-ptyprocess (0.7.0-6) ... 141s Selecting previously unselected package python3-pexpect. 141s Preparing to unpack .../163-python3-pexpect_4.9-2_all.deb ... 141s Unpacking python3-pexpect (4.9-2) ... 141s Selecting previously unselected package python3-ipython. 141s Preparing to unpack .../164-python3-ipython_8.29.0-1_all.deb ... 141s Unpacking python3-ipython (8.29.0-1) ... 141s Selecting previously unselected package python3-joblib. 141s Preparing to unpack .../165-python3-joblib_1.3.2-5_all.deb ... 141s Unpacking python3-joblib (1.3.2-5) ... 141s Selecting previously unselected package python3-kiwisolver. 141s Preparing to unpack .../166-python3-kiwisolver_1.4.7-2build1_amd64.deb ... 141s Unpacking python3-kiwisolver (1.4.7-2build1) ... 141s Selecting previously unselected package libopenjp2-7:amd64. 141s Preparing to unpack .../167-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 141s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 141s Selecting previously unselected package python3-pil:amd64. 141s Preparing to unpack .../168-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 141s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 141s Selecting previously unselected package python3.12-tk. 141s Preparing to unpack .../169-python3.12-tk_3.12.7-3_amd64.deb ... 141s Unpacking python3.12-tk (3.12.7-3) ... 141s Selecting previously unselected package python3.13-tk. 141s Preparing to unpack .../170-python3.13-tk_3.13.0-2_amd64.deb ... 141s Unpacking python3.13-tk (3.13.0-2) ... 141s Selecting previously unselected package python3-tk:amd64. 141s Preparing to unpack .../171-python3-tk_3.12.7-1_amd64.deb ... 141s Unpacking python3-tk:amd64 (3.12.7-1) ... 141s Selecting previously unselected package python3-pil.imagetk:amd64. 141s Preparing to unpack .../172-python3-pil.imagetk_10.4.0-1ubuntu1_amd64.deb ... 141s Unpacking python3-pil.imagetk:amd64 (10.4.0-1ubuntu1) ... 141s Selecting previously unselected package python3-packaging. 141s Preparing to unpack .../173-python3-packaging_24.2-1_all.deb ... 141s Unpacking python3-packaging (24.2-1) ... 141s Selecting previously unselected package python3-matplotlib. 141s Preparing to unpack .../174-python3-matplotlib_3.8.3-3_amd64.deb ... 141s Unpacking python3-matplotlib (3.8.3-3) ... 141s Selecting previously unselected package python3-natsort. 141s Preparing to unpack .../175-python3-natsort_8.0.2-2_all.deb ... 141s Unpacking python3-natsort (8.0.2-2) ... 141s Selecting previously unselected package sphinx-common. 141s Preparing to unpack .../176-sphinx-common_7.4.7-4_all.deb ... 141s Unpacking sphinx-common (7.4.7-4) ... 141s Selecting previously unselected package python3-alabaster. 141s Preparing to unpack .../177-python3-alabaster_0.7.16-0.1_all.deb ... 141s Unpacking python3-alabaster (0.7.16-0.1) ... 141s Selecting previously unselected package python3-snowballstemmer. 141s Preparing to unpack .../178-python3-snowballstemmer_2.2.0-4build1_all.deb ... 141s Unpacking python3-snowballstemmer (2.2.0-4build1) ... 141s Selecting previously unselected package python3-sphinx. 141s Preparing to unpack .../179-python3-sphinx_7.4.7-4_all.deb ... 141s Unpacking python3-sphinx (7.4.7-4) ... 141s Selecting previously unselected package python3-tabulate. 141s Preparing to unpack .../180-python3-tabulate_0.9.0-1_all.deb ... 141s Unpacking python3-tabulate (0.9.0-1) ... 141s Selecting previously unselected package python3-numpydoc. 141s Preparing to unpack .../181-python3-numpydoc_1.6.0-2_all.deb ... 141s Unpacking python3-numpydoc (1.6.0-2) ... 141s Selecting previously unselected package python3-patsy. 141s Preparing to unpack .../182-python3-patsy_1.0.1-1_all.deb ... 141s Unpacking python3-patsy (1.0.1-1) ... 142s Selecting previously unselected package python3-pluggy. 142s Preparing to unpack .../183-python3-pluggy_1.5.0-1_all.deb ... 142s Unpacking python3-pluggy (1.5.0-1) ... 142s Selecting previously unselected package python3-pydata-sphinx-theme. 142s Preparing to unpack .../184-python3-pydata-sphinx-theme_0.15.4+dfsg-2_all.deb ... 142s Unpacking python3-pydata-sphinx-theme (0.15.4+dfsg-2) ... 142s Selecting previously unselected package python3-pytest. 142s Preparing to unpack .../185-python3-pytest_8.3.3-1_all.deb ... 142s Unpacking python3-pytest (8.3.3-1) ... 142s Selecting previously unselected package python3-statsmodels-lib:amd64. 142s Preparing to unpack .../186-python3-statsmodels-lib_0.14.4+dfsg-1build1_amd64.deb ... 142s Unpacking python3-statsmodels-lib:amd64 (0.14.4+dfsg-1build1) ... 142s Selecting previously unselected package python3-statsmodels. 142s Preparing to unpack .../187-python3-statsmodels_0.14.4+dfsg-1build1_all.deb ... 142s Unpacking python3-statsmodels (0.14.4+dfsg-1build1) ... 142s Selecting previously unselected package python3-skbio. 142s Preparing to unpack .../188-python3-skbio_0.6.2-3_amd64.deb ... 142s Unpacking python3-skbio (0.6.2-3) ... 142s Selecting previously unselected package python3-threadpoolctl. 142s Preparing to unpack .../189-python3-threadpoolctl_3.1.0-1_all.deb ... 142s Unpacking python3-threadpoolctl (3.1.0-1) ... 142s Selecting previously unselected package python3-sklearn-lib:amd64. 142s Preparing to unpack .../190-python3-sklearn-lib_1.4.2+dfsg-6_amd64.deb ... 142s Unpacking python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... 142s Selecting previously unselected package python3-sklearn. 142s Preparing to unpack .../191-python3-sklearn_1.4.2+dfsg-6_all.deb ... 142s Unpacking python3-sklearn (1.4.2+dfsg-6) ... 142s Selecting previously unselected package python3-sphinx-copybutton. 142s Preparing to unpack .../192-python3-sphinx-copybutton_0.5.2-2_all.deb ... 142s Unpacking python3-sphinx-copybutton (0.5.2-2) ... 142s Selecting previously unselected package python3-sphinx-design. 142s Preparing to unpack .../193-python3-sphinx-design_0.6.1-1_all.deb ... 142s Unpacking python3-sphinx-design (0.6.1-1) ... 142s Selecting previously unselected package python-scipy-doc. 142s Preparing to unpack .../194-python-scipy-doc_1.13.1-5ubuntu1_all.deb ... 142s Unpacking python-scipy-doc (1.13.1-5ubuntu1) ... 143s Selecting previously unselected package autopkgtest-satdep. 143s Preparing to unpack .../195-1-autopkgtest-satdep.deb ... 143s Unpacking autopkgtest-satdep (0) ... 143s Setting up dh-python (6.20241024) ... 143s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 143s Setting up libsimde-dev (0.8.2-1) ... 143s Setting up liblcms2-2:amd64 (2.16-2) ... 143s Setting up python3-iniconfig (1.1.1-2) ... 143s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 143s Setting up python3-pure-eval (0.2.3-1) ... 143s Setting up fonts-mathjax (2.7.9+dfsg-1) ... 143s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 143s Setting up libjs-mathjax (2.7.9+dfsg-1) ... 143s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 143s Setting up python3-joblib (1.3.2-5) ... 143s Setting up python3-parso (0.8.3-1) ... 143s Setting up python3-colorama (0.4.6-4) ... 143s Setting up python3-lz4 (4.0.2+dfsg-1build4) ... 143s Setting up python3-defusedxml (0.7.1-2) ... 143s Setting up libarchive-zip-perl (1.68-1) ... 143s Setting up python3-asttokens (2.4.1-2) ... 144s Setting up architecture-properties:amd64 (0.2.3) ... 144s Setting up python3-alabaster (0.7.16-0.1) ... 144s Setting up fonts-lyx (2.4.2.1-1) ... 144s Setting up libdebhelper-perl (13.20ubuntu1) ... 144s Setting up python3-threadpoolctl (3.1.0-1) ... 144s Setting up x11-common (1:7.7+23ubuntu3) ... 144s Setting up libdeflate0:amd64 (1.22-1) ... 144s Setting up python3-tabulate (0.9.0-1) ... 144s Setting up m4 (1.4.19-4build1) ... 144s Setting up libqhull-r8.0:amd64 (2020.2-6build1) ... 144s Setting up python3-all (3.12.6-0ubuntu1) ... 144s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 144s Setting up python3-click (8.1.7-2) ... 144s Setting up fonts-open-sans (1.11-2) ... 144s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 144s Setting up libaec0:amd64 (1.1.3-1) ... 144s Setting up python3-tz (2024.1-2) ... 144s Setting up python3-natsort (8.0.2-2) ... 144s Setting up unicode-data (15.1.0-1) ... 144s Setting up python3-six (1.16.0-7) ... 145s Setting up python3-roman (4.2-1) ... 145s Setting up python3-decorator (5.1.1-5) ... 145s Setting up autotools-dev (20220109.1) ... 145s Setting up libblas3:amd64 (3.12.0-3build2) ... 145s 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 145s Setting up python3-packaging (24.2-1) ... 145s Setting up libexpat1-dev:amd64 (2.6.4-1) ... 145s Setting up python3-wcwidth (0.2.13+dfsg1-1) ... 145s Setting up python3-typeshed (0.0~git20231111.6764465-3) ... 145s Setting up python3-executing (2.1.0-0.1) ... 145s Setting up python3-snowballstemmer (2.2.0-4build1) ... 145s Setting up python3-brotli (1.1.0-2build3) ... 145s Setting up liblzf1:amd64 (3.6-4) ... 145s Setting up libquadmath0:amd64 (14.2.0-8ubuntu1) ... 145s Setting up python3-cycler (0.12.1-1) ... 145s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 146s Setting up fonts-dejavu-mono (2.37-8) ... 146s Setting up python3-kiwisolver (1.4.7-2build1) ... 146s Setting up libmpc3:amd64 (1.3.1-1build2) ... 146s Setting up cython3 (3.0.11+dfsg-1ubuntu2) ... 146s Setting up libtcl8.6:amd64 (8.6.15+dfsg-2) ... 146s Setting up autopoint (0.22.5-2) ... 146s Setting up fonts-dejavu-core (2.37-8) ... 146s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 146s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 146s Setting up autoconf (2.72-3) ... 146s Setting up python3-pluggy (1.5.0-1) ... 146s Setting up libwebp7:amd64 (1.4.0-0.1) ... 146s Setting up libubsan1:amd64 (14.2.0-8ubuntu1) ... 146s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 146s Setting up dwz (0.15-1build6) ... 146s Setting up libhwasan0:amd64 (14.2.0-8ubuntu1) ... 146s Setting up python3-traitlets (5.14.3+really5.14.3-1) ... 147s Setting up libasan8:amd64 (14.2.0-8ubuntu1) ... 147s Setting up libjson-perl (4.10000-1) ... 147s Setting up libxslt1.1:amd64 (1.1.39-0exp1ubuntu1) ... 147s Setting up debugedit (1:5.1-1) ... 147s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 147s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 147s Setting up python3-dateutil (2.9.0-3) ... 147s Setting up sgml-base (1.31) ... 147s Setting up python3-msgpack (1.0.3-3build3) ... 147s Setting up libxss1:amd64 (1:1.2.3-1build3) ... 147s Setting up python3-cachecontrol (0.14.1-1) ... 147s Setting up libtsan2:amd64 (14.2.0-8ubuntu1) ... 147s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 147s Setting up python3-mpmath (1.3.0-1) ... 147s Setting up libisl23:amd64 (0.27-1) ... 147s Setting up python-matplotlib-data (3.8.3-3) ... 147s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 147s Setting up python3-appdirs (1.4.4-4) ... 147s Setting up python3-stack-data (0.6.3-1) ... 147s Setting up libssw0:amd64 (1.1-15) ... 147s Setting up python3-soupsieve (2.6-1) ... 148s Setting up libcc1-0:amd64 (14.2.0-8ubuntu1) ... 148s Setting up liblsan0:amd64 (14.2.0-8ubuntu1) ... 148s Setting up libsz2:amd64 (1.1.3-1) ... 148s Setting up libitm1:amd64 (14.2.0-8ubuntu1) ... 148s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 148s Setting up python3-imagesize (1.4.1-1) ... 148s Setting up python3-ptyprocess (0.7.0-6) ... 148s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 148s Setting up automake (1:1.16.5-1.3ubuntu1) ... 148s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 148s Setting up python3-prompt-toolkit (3.0.48-1) ... 148s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 148s Setting up python3-sympy (1.13.3-1) ... 153s Setting up liblapack3:amd64 (3.12.0-3build2) ... 153s 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 153s Setting up gettext (0.22.5-2) ... 153s Setting up python3-jedi (0.19.1+ds1-1) ... 153s Setting up libssw-dev:amd64 (1.1-15) ... 153s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 153s Setting up python3-pytest (8.3.3-1) ... 154s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 154s Setting up libpython3.12-dev:amd64 (3.12.7-3) ... 154s Setting up python3-bs4 (4.12.3-3) ... 154s Setting up intltool-debian (0.35.0+20060710.6) ... 154s Setting up python3-matplotlib-inline (0.1.6-2) ... 154s Setting up python3-fs (2.4.16-4) ... 154s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 154s Setting up python3-pexpect (4.9-2) ... 154s Setting up libraqm0:amd64 (0.10.1-1build1) ... 154s Setting up python-scipy-doc (1.13.1-5ubuntu1) ... 154s Setting up python3.12-dev (3.12.7-3) ... 154s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 154s Setting up python3-numpy (1:1.26.4+ds-11ubuntu1) ... 156s Setting up libjs-sphinxdoc (7.4.7-4) ... 156s Setting up cpp-14 (14.2.0-8ubuntu1) ... 156s Setting up dh-strip-nondeterminism (1.14.0-1) ... 156s Setting up python3-hdmedians (0.14.2-5.1build2) ... 156s Setting up python3-lxml:amd64 (5.3.0-1build1) ... 156s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 156s Setting up xml-core (0.19) ... 156s Setting up python3-contourpy (1.3.0-2build1) ... 156s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 156s Setting up libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 156s Setting up python3.12-doc (3.12.7-3) ... 156s Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ... 156s Setting up libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 156s Setting up python3-statsmodels-lib:amd64 (0.14.4+dfsg-1build1) ... 156s Setting up python3-doc (3.12.6-0ubuntu1) ... 156s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 156s Setting up cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 156s Setting up python-numpy-doc (1:1.26.4+ds-11ubuntu1) ... 156s Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4ubuntu3) ... 156s Setting up libxft2:amd64 (2.3.6-1build1) ... 156s Setting up python3-scipy (1.13.1-5ubuntu1) ... 159s Setting up libpython3-dev:amd64 (3.12.6-0ubuntu1) ... 159s Setting up python-pandas-doc (2.2.3+dfsg-5ubuntu1) ... 159s Setting up po-debconf (1.0.21+nmu1) ... 159s Setting up libtk8.6:amd64 (8.6.15-1) ... 159s Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-5ubuntu1) ... 159s Setting up python3.12-tk (3.12.7-3) ... 159s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... 159s Setting up python3-h5py-serial (3.11.0-8ubuntu1) ... 159s Setting up python3.13-tk (3.13.0-2) ... 159s Setting up python-biom-format-doc (2.1.16-1) ... 159s Setting up python3-patsy (1.0.1-1) ... 159s Setting up python-skbio-doc (0.6.2-3) ... 159s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 159s Setting up python3-pandas (2.2.3+dfsg-5ubuntu1) ... 163s Setting up libpython3-all-dev:amd64 (3.12.6-0ubuntu1) ... 163s Setting up python3-ipython (8.29.0-1) ... 163s Setting up sphinx-common (7.4.7-4) ... 163s Setting up python3-dev (3.12.6-0ubuntu1) ... 163s Setting up python3-h5py (3.11.0-8ubuntu1) ... 163s Setting up python3-sklearn (1.4.2+dfsg-6) ... 165s Setting up python3-statsmodels (0.14.4+dfsg-1build1) ... 167s Setting up cpp (4:14.1.0-2ubuntu1) ... 167s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 167s Setting up python3-all-dev (3.12.6-0ubuntu1) ... 167s Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... 167s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 167s Setting up blt (2.5.3+dfsg-7build1) ... 167s Setting up python3-tk:amd64 (3.12.7-1) ... 167s Setting up gcc-14 (14.2.0-8ubuntu1) ... 167s Setting up python3-biom-format (2.1.16-1) ... 167s Setting up python3-pil.imagetk:amd64 (10.4.0-1ubuntu1) ... 167s Setting up python3-skbio (0.6.2-3) ... 168s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 168s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 168s Setting up g++-14 (14.2.0-8ubuntu1) ... 168s Setting up libtool (2.4.7-8) ... 168s Setting up gcc (4:14.1.0-2ubuntu1) ... 168s Setting up dh-autoreconf (20) ... 168s Setting up g++ (4:14.1.0-2ubuntu1) ... 168s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 168s Setting up build-essential (12.10ubuntu1) ... 168s Setting up debhelper (13.20ubuntu1) ... 168s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 168s Setting up python3-ufolib2 (0.16.1+dfsg1-1) ... 168s Setting up python3-fonttools (4.54.1-4ubuntu1) ... 169s Setting up python3-matplotlib (3.8.3-3) ... 170s Processing triggers for libc-bin (2.40-1ubuntu3) ... 170s Processing triggers for man-db (2.13.0-1) ... 171s Processing triggers for install-info (7.1.1-1) ... 171s Processing triggers for sgml-base (1.31) ... 171s Setting up docutils-common (0.21.2+dfsg-2) ... 171s Processing triggers for sgml-base (1.31) ... 171s Setting up python3-docutils (0.21.2+dfsg-2) ... 172s Setting up python3-sphinx (7.4.7-4) ... 172s Setting up python3-sphinx-copybutton (0.5.2-2) ... 172s Setting up python3-sphinx-design (0.6.1-1) ... 172s Setting up python3-numpydoc (1.6.0-2) ... 173s Setting up python3-pydata-sphinx-theme (0.15.4+dfsg-2) ... 173s Setting up autopkgtest-satdep (0) ... 177s (Reading database ... 118572 files and directories currently installed.) 177s Removing autopkgtest-satdep (0) ... 178s autopkgtest [19:22:35]: test pybuild-autopkgtest: pybuild-autopkgtest 178s autopkgtest [19:22:35]: test pybuild-autopkgtest: [----------------------- 178s pybuild-autopkgtest 178s I: pybuild base:311: cd /tmp/autopkgtest.gPKQ6A/autopkgtest_tmp/build; python3.12 -m pytest --pyargs skbio 181s ============================= test session starts ============================== 181s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 181s rootdir: /tmp/autopkgtest.gPKQ6A/autopkgtest_tmp/build 181s configfile: pyproject.toml 181s plugins: typeguard-4.4.1 181s collected 2793 items 181s 181s alignment/tests/test_pairwise.py ......................... [ 0%] 181s alignment/tests/test_path.py ................. [ 1%] 181s alignment/tests/test_ssw.py ........................... [ 2%] 181s alignment/tests/test_tabular_msa.py .................................... [ 3%] 181s ........................................................................ [ 6%] 182s ........................................................................ [ 8%] 183s ........................................................................ [ 11%] 183s ........................................................................ [ 14%] 183s ........................................................................ [ 16%] 183s ..... [ 16%] 183s diversity/alpha/tests/test_ace.py .. [ 16%] 185s diversity/alpha/tests/test_base.py ............................... [ 18%] 185s diversity/alpha/tests/test_chao1.py ... [ 18%] 185s diversity/alpha/tests/test_gini.py .... [ 18%] 188s diversity/alpha/tests/test_lladser.py ............ [ 18%] 188s diversity/alpha/tests/test_pd.py ................ [ 19%] 188s diversity/beta/tests/test_unifrac.py ............................ [ 20%] 188s diversity/tests/test_block.py ........... [ 20%] 188s diversity/tests/test_driver.py ..................................... [ 21%] 188s diversity/tests/test_util.py ................ [ 22%] 188s embedding/tests/test_embedding.py ................... [ 23%] 189s embedding/tests/test_protein.py .............. [ 23%] 189s io/format/tests/test_base.py ................................ [ 24%] 189s io/format/tests/test_binary_dm.py ......... [ 25%] 189s io/format/tests/test_biom.py ... [ 25%] 189s io/format/tests/test_blast6.py ........... [ 25%] 189s io/format/tests/test_blast7.py .............. [ 26%] 189s io/format/tests/test_clustal.py ............. [ 26%] 189s io/format/tests/test_embed.py ........ [ 26%] 190s io/format/tests/test_embl.py ............................... [ 28%] 190s io/format/tests/test_emptyfile.py .. [ 28%] 194s io/format/tests/test_fasta.py ................ [ 28%] 197s io/format/tests/test_fastq.py ............... [ 29%] 198s io/format/tests/test_genbank.py ..................... [ 30%] 198s io/format/tests/test_gff3.py ........................ [ 30%] 198s io/format/tests/test_lsmat.py ....... [ 31%] 198s io/format/tests/test_newick.py ....... [ 31%] 198s io/format/tests/test_ordination.py ..... [ 31%] 199s io/format/tests/test_phylip.py ....... [ 31%] 199s io/format/tests/test_qseq.py ...... [ 32%] 199s io/format/tests/test_sample_metadata.py .... [ 32%] 199s io/format/tests/test_sequence_feature_vocabulary.py .... [ 32%] 200s io/format/tests/test_stockholm.py ...................................... [ 33%] 200s ..................................... [ 34%] 200s io/format/tests/test_taxdump.py ...... [ 35%] 200s io/tests/test_iosources.py .......... [ 35%] 200s io/tests/test_registry.py .............................................. [ 37%] 200s ................................................ [ 38%] 202s io/tests/test_util.py .........................................sssssssss [ 40%] 204s sssssssssssssssssssss................................................... [ 43%] 207s ........................................................................ [ 45%] 208s .......................... [ 46%] 209s metadata/tests/test_enan.py ... [ 46%] 210s metadata/tests/test_intersection.py ............... [ 47%] 210s metadata/tests/test_interval.py ........................................ [ 48%] 210s ............................... [ 49%] 210s metadata/tests/test_io.py .............................................. [ 51%] 211s ............................................................ [ 53%] 211s metadata/tests/test_metadata.py ........................................ [ 55%] 211s .................... [ 55%] 211s metadata/tests/test_metadata_column.py ................................. [ 57%] 211s ........................................ [ 58%] 211s metadata/tests/test_missing.py ................ [ 59%] 211s metadata/tests/test_mixin.py ........................................... [ 60%] 211s ....................................................... [ 62%] 211s sequence/tests/test_alphabet.py ..... [ 62%] 211s sequence/tests/test_distance.py .......................... [ 63%] 211s sequence/tests/test_dna.py ... [ 63%] 211s sequence/tests/test_genetic_code.py .......................... [ 64%] 211s sequence/tests/test_grammared_sequence.py .............................. [ 65%] 211s ................... [ 66%] 211s sequence/tests/test_nucleotide_sequences.py ............................ [ 67%] 211s . [ 67%] 211s sequence/tests/test_protein.py ........... [ 67%] 211s sequence/tests/test_rna.py ... [ 68%] 211s sequence/tests/test_sequence.py ........................................ [ 69%] 211s ........................................................................ [ 72%] 212s ........................................................................ [ 74%] 212s ........................................................................ [ 77%] 212s ....... [ 77%] 212s sequence/tests/test_substitution.py ........ [ 77%] 212s stats/distance/tests/test_anosim.py .... [ 77%] 212s stats/distance/tests/test_base.py ...................................... [ 79%] 212s .......................................................... [ 81%] 224s stats/distance/tests/test_bioenv.py ................. [ 81%] 226s stats/distance/tests/test_mantel.py .................................... [ 83%] 226s ........ [ 83%] 226s stats/distance/tests/test_permanova.py ..... [ 83%] 236s stats/distance/tests/test_permdisp.py .............. [ 84%] 236s stats/evolve/tests/test_hommola.py ............ [ 84%] 236s stats/ordination/tests/test_canonical_correspondence_analysis.py ...... [ 84%] 236s stats/ordination/tests/test_correspondence_analysis.py ........ [ 85%] 236s stats/ordination/tests/test_ordination_results.py ............. [ 85%] 236s stats/ordination/tests/test_principal_coordinate_analysis.py ........... [ 86%] 236s . [ 86%] 237s stats/ordination/tests/test_redundancy_analysis.py .... [ 86%] 237s stats/ordination/tests/test_util.py .......... [ 86%] 237s stats/tests/test_composition.py ........................................ [ 87%] 251s .......................................... [ 89%] 251s stats/tests/test_gradient.py .......................... [ 90%] 251s stats/tests/test_misc.py ... [ 90%] 253s stats/tests/test_power.py ........................................... [ 92%] 254s stats/tests/test_subsample.py ............ [ 92%] 254s table/tests/test_base.py . [ 92%] 254s tests/test_base.py ..... [ 92%] 254s tests/test_workflow.py ................. [ 93%] 254s tree/tests/test_majority_rule.py ...... [ 93%] 255s tree/tests/test_nj.py ............................ [ 94%] 255s tree/tests/test_tree.py ................................................ [ 96%] 255s ........................................................ [ 98%] 255s util/tests/test_decorator.py ........ [ 98%] 255s util/tests/test_misc.py .................... [ 99%] 255s util/tests/test_plotting.py ...... [ 99%] 255s util/tests/test_testing.py ............... [100%] 255s 255s =============================== warnings summary =============================== 255s alignment/tests/test_pairwise.py::PairwiseAlignmentTests::test_compute_score_and_traceback_matrices 255s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: make_identity_substitution_matrix is deprecated as of 0.4.0. It has been replaced by the SubstitutionMatrix class. Additional details at https://github.com/scikit-bio/scikit-bio/pull/1913. 255s warn( 255s 255s alignment/tests/test_ssw.py::TestAlignStripedSmithWaterman::test_invalid_type 255s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: local_pairwise_align_ssw is deprecated as of 0.5.8. It will be removed in favor of more general purpose and performant aligners. Additional details at https://github.com/scikit-bio/scikit-bio/issues/1814. 255s warn( 255s 255s alignment/tests/test_tabular_msa.py::TestGapFrequencies::test_no_positions_relative 255s /usr/lib/python3/dist-packages/skbio/alignment/_tabular_msa.py:1648: RuntimeWarning: invalid value encountered in divide 255s gap_freqs /= length 255s 255s diversity/tests/test_block.py::ParallelBetaDiversity::test_block_beta_diversity 255s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: partial_beta_diversity is deprecated as of 0.5.0. The return type is unstable. Developer caution is advised. The resulting DistanceMatrix object will include zeros when distance has not been calculated, and therefore can be misleading. 255s warn( 255s 255s metadata/tests/test_io.py: 10 warnings 255s /usr/lib/python3/dist-packages/skbio/metadata/io.py:411: FutureWarning: Downcasting behavior in `replace` is deprecated and will be removed in a future version. To retain the old behavior, explicitly call `result.infer_objects(copy=False)`. To opt-in to the future behavior, set `pd.set_option('future.no_silent_downcasting', True)` 255s series = series.replace("", np.nan) 255s 255s metadata/tests/test_io.py::TestSave::test_numeric_metadata_column_insdc_missing 255s metadata/tests/test_metadata_column.py::TestToSeries::test_encode_missing_true 255s metadata/tests/test_metadata_column.py::TestToDataframe::test_encode_missing_true 255s /usr/lib/python3/dist-packages/skbio/metadata/_metadata.py:1102: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise an error in a future version of pandas. Value '['missing']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first. 255s series[missing.index] = missing 255s 255s metadata/tests/test_missing.py::TestISNDC::test_roundtrip_all_missing_object 255s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_all_missing_object 255s /usr/lib/python3/dist-packages/skbio/metadata/tests/test_missing.py:53: FutureWarning: Mismatched null-like values nan and None found. In a future version, pandas equality-testing functions (e.g. assert_frame_equal) will consider these not-matching and raise. 255s pdt.assert_series_equal(missing, series.astype(object)) 255s 255s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_bool 255s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_string 255s /usr/lib/python3/dist-packages/skbio/metadata/tests/test_missing.py:31: FutureWarning: Mismatched null-like values nan and None found. In a future version, pandas equality-testing functions (e.g. assert_frame_equal) will consider these not-matching and raise. 255s pdt.assert_series_equal(missing, series[1:].astype(object)) 255s 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 255s /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:639: DeprecationWarning: has_nondegenerates is deprecated as of 0.5.0 255s warn("has_nondegenerates is deprecated as of 0.5.0", DeprecationWarning) 255s 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars 255s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 255s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 255s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 255s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 255s sequence/tests/test_protein.py::TestProtein::test_nondegenerate_chars 255s sequence/tests/test_protein.py::TestProtein::test_nondegenerate_chars 255s /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:313: DeprecationWarning: nondegenerate_chars is deprecated as of 0.5.0 255s warn("nondegenerate_chars is deprecated as of 0.5.0", DeprecationWarning) 255s 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 255s /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:572: DeprecationWarning: nondenengerates is deprecated as of 0.5.0. 255s warn("nondenengerates is deprecated as of 0.5.0.", DeprecationWarning) 255s 255s sequence/tests/test_sequence.py::TestSequence::test_frequencies_empty_sequence 255s /usr/lib/python3/dist-packages/skbio/sequence/_sequence.py:1824: RuntimeWarning: invalid value encountered in divide 255s obs_counts = obs_counts / len(self) 255s 255s stats/distance/tests/test_mantel.py::MantelTests::test_no_variation_pearson 255s /usr/lib/python3/dist-packages/skbio/stats/distance/_mantel.py:364: ConstantInputWarning: All values in data are exactly equal; results may not be reliable. 255s warnings.warn(ConstantInputWarning()) 255s 255s stats/distance/tests/test_mantel.py::MantelTests::test_no_variation_spearman 255s /usr/lib/python3/dist-packages/skbio/stats/distance/_mantel.py:483: ConstantInputWarning: All values in data are exactly equal; results may not be reliable. 255s warnings.warn(ConstantInputWarning()) 255s 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_call_via_series 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_call_via_series 255s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -0.006573677549550485 and the largest is 0.17668321589384078. 255s warn( 255s 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_eq_groups 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_no_permuations 255s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -13.54184654426961 and the largest is 16.5872013747859. 255s warn( 255s 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_mixedgroups 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_uneq_groups 255s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -15.629533932395208 and the largest is 20.90315427793891. 255s warn( 255s 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_null 255s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:190: RuntimeWarning: invalid value encountered in divide 255s proportion_explained = eigvals / sum_eigenvalues 255s 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_null 255s /usr/lib/python3/dist-packages/scipy/stats/_axis_nan_policy.py:563: ConstantInputWarning: Each of the input arrays is constant; the F statistic is not defined or infinite 255s res = hypotest_fun_out(*samples, axis=axis, **kwds) 255s 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_confirm_betadispr_results 255s stats/distance/tests/test_permdisp.py::testPERMDISP::test_confirm_betadispr_results 255s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -0.007758325147780521 and the largest is 2.7077929489469237. 255s warn( 255s 255s stats/ordination/tests/test_redundancy_analysis.py::TestRDAErrors::test_shape 255s /usr/lib/python3.12/unittest/case.py:690: DeprecationWarning: It is deprecated to return a value that is not None from a test case (>) 255s return self.run(*args, **kwds) 255s 255s stats/tests/test_composition.py::CompositionTests::test_multiplicative_replacement 255s /usr/lib/python3/dist-packages/skbio/util/_warning.py:60: UserWarning: multiplicative_replacement is deprecated as of 0.6.0. 255s warn(f"{func.__name__} is deprecated as of {ver}.") 255s 255s stats/tests/test_composition.py::AncomTests::test_ancom_alternative_test 255s /usr/lib/python3/dist-packages/scipy/stats/_axis_nan_policy.py:531: RuntimeWarning: Precision loss occurred in moment calculation due to catastrophic cancellation. This occurs when the data are nearly identical. Results may be unreliable. 255s res = hypotest_fun_out(*samples, **kwds) 255s 255s stats/tests/test_composition.py::AncomTests::test_ancom_multiple_comparisons_deprecated 255s /usr/lib/python3/dist-packages/skbio/util/_warning.py:60: UserWarning: ancom is deprecated as of 0.6.0. 255s warn(f"{func.__name__} is deprecated as of {ver}.") 255s 255s stats/tests/test_composition.py::AncomTests::test_ancom_no_signal 255s /usr/lib/python3/dist-packages/scipy/stats/_axis_nan_policy.py:531: ConstantInputWarning: Each of the input arrays is constant; the F statistic is not defined or infinite 255s res = hypotest_fun_out(*samples, **kwds) 255s 255s stats/tests/test_composition.py::VLRTests::test_pairwise_vlr 255s /usr/lib/python3/dist-packages/skbio/stats/composition.py:947: RuntimeWarning: divide by zero encountered in log 255s X_log = np.log(mat) 255s 255s stats/tests/test_composition.py::VLRTests::test_pairwise_vlr 255s /usr/lib/python3/dist-packages/numpy/lib/function_base.py:2742: RuntimeWarning: invalid value encountered in subtract 255s X -= avg[:, None] 255s 255s stats/tests/test_composition.py::VLRTests::test_vlr 255s /usr/lib/python3/dist-packages/skbio/stats/composition.py:831: RuntimeWarning: divide by zero encountered in log 255s x = np.log(x) 255s 255s stats/tests/test_composition.py::VLRTests::test_vlr 255s /usr/lib/python3/dist-packages/numpy/core/_methods.py:173: RuntimeWarning: invalid value encountered in subtract 255s x = asanyarray(arr - arrmean) 255s 255s stats/tests/test_gradient.py::GradientTests::test_weight_by_vector 255s /usr/lib/python3/dist-packages/skbio/stats/gradient.py:167: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise an error in a future version of pandas. Value '6.357142857142857' has dtype incompatible with int64, please explicitly cast to a compatible dtype first. 255s trajectories.loc[idx] = ( 255s 255s tree/tests/test_tree.py::TreeTests::test_root_at 255s /usr/lib/python3/dist-packages/skbio/tree/_tree.py:1327: FutureWarning: The default behavior of `root_at` is subject to change in 0.7.0. The new default behavior can be achieved by specifying `reset=True, branch_attrs=[], root_name=None`. 255s warn( 255s 255s tree/tests/test_tree.py::TreeTests::test_root_at 255s /usr/lib/python3/dist-packages/skbio/tree/_tree.py:776: FutureWarning: The default behavior of `unrooted_copy` is subject to change in 0.7.0. The new default behavior can be achieved by specifying `branch_attrs={"length", "support"}, root_name=None`. 255s warn( 255s 255s tree/tests/test_tree.py::TreeTests::test_root_at_midpoint 255s /usr/lib/python3/dist-packages/skbio/tree/_tree.py:1472: FutureWarning: The default behavior of `root_at_midpoint` is subject to change in 0.7.0. The new default behavior can be achieved by specifying `reset=True, branch_attrs=[], root_name=None`. 255s warn( 255s 255s tree/tests/test_tree.py::TreeTests::test_unrooted_deepcopy 255s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: unrooted_deepcopy is deprecated as of 0.6.2. Use unrooted_copy instead. 255s warn( 255s 255s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 255s =========== 2763 passed, 30 skipped, 70 warnings in 75.98s (0:01:15) =========== 256s autopkgtest [19:23:53]: test pybuild-autopkgtest: -----------------------] 257s pybuild-autopkgtest PASS 257s autopkgtest [19:23:54]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 257s autopkgtest [19:23:54]: @@@@@@@@@@@@@@@@@@@@ summary 257s pybuild-autopkgtest PASS 268s nova [W] Skipping flock for amd64 268s Creating nova instance adt-plucky-amd64-python-skbio-20241118-191937-juju-7f2275-prod-proposed-migration-environment-20-780807a3-41b7-49fc-a0ae-eece22b31358 from image adt/ubuntu-plucky-amd64-server-20241117.img (UUID 63768d6e-10e4-41f6-a5bf-8295c4d8ad4b)...