2s autopkgtest [10:55:31]: starting date and time: 2024-11-13 10:55:31+0000
  3s autopkgtest [10:55:32]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky
  3s autopkgtest [10:55:32]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.w2p5jb6v/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade python-skbio --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-arm64-24.secgroup --name adt-plucky-arm64-python-skbio-20241113-105522-juju-7f2275-prod-proposed-migration-environment-15-65164092-10fe-4568-9b9f-8f7e0f337aec --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration -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/
138s autopkgtest [10:57:47]: testbed dpkg architecture: arm64
138s autopkgtest [10:57:47]: testbed apt version: 2.9.8
138s autopkgtest [10:57:47]: @@@@@@@@@@@@@@@@@@@@ test bed setup
139s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB]
139s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B]
139s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB]
139s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB]
139s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB]
139s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB]
139s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB]
139s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB]
140s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB]
140s Fetched 1794 kB in 1s (1778 kB/s)
140s Reading package lists...
142s Reading package lists...
143s Building dependency tree...
143s Reading state information...
144s Calculating upgrade...
144s The following NEW packages will be installed:
144s   python3.13-gdbm
144s The following packages will be upgraded:
144s   libpython3-stdlib python3 python3-gdbm python3-minimal
144s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
144s Need to get 101 kB of archives.
144s After this operation, 141 kB of additional disk space will be used.
144s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB]
145s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB]
145s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB]
145s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB]
145s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B]
145s Fetched 101 kB in 0s (289 kB/s)
145s (Reading database ... 
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(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 79924 files and directories currently installed.)
145s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ...
145s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ...
145s Setting up python3-minimal (3.12.7-1) ...
146s (Reading database ... 
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(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 79924 files and directories currently installed.)
146s Preparing to unpack .../python3_3.12.7-1_arm64.deb ...
146s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ...
146s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ...
146s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ...
146s Selecting previously unselected package python3.13-gdbm.
146s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ...
146s Unpacking python3.13-gdbm (3.13.0-2) ...
146s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ...
146s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ...
146s Setting up python3.13-gdbm (3.13.0-2) ...
146s Setting up libpython3-stdlib:arm64 (3.12.7-1) ...
146s Setting up python3 (3.12.7-1) ...
146s Setting up python3-gdbm:arm64 (3.12.7-1) ...
146s Processing triggers for man-db (2.12.1-3) ...
147s Reading package lists...
147s Building dependency tree...
147s Reading state information...
148s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
148s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease
148s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
149s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
149s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
150s Reading package lists...
150s Reading package lists...
150s Building dependency tree...
150s Reading state information...
151s Calculating upgrade...
151s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
151s Reading package lists...
151s Building dependency tree...
151s Reading state information...
152s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
155s autopkgtest [10:58:04]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024
155s autopkgtest [10:58:04]: @@@@@@@@@@@@@@@@@@@@ apt-source python-skbio
158s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-3 (dsc) [2897 B]
158s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-3 (tar) [2204 kB]
158s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-3 (diff) [11.1 kB]
158s gpgv: Signature made Sat Sep 28 10:29:34 2024 UTC
158s gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
158s gpgv: Can't check signature: No public key
158s dpkg-source: warning: cannot verify inline signature for ./python-skbio_0.6.2-3.dsc: no acceptable signature found
158s autopkgtest [10:58:07]: testing package python-skbio version 0.6.2-3
158s autopkgtest [10:58:07]: build not needed
159s autopkgtest [10:58:08]: test pybuild-autopkgtest: preparing testbed
162s Reading package lists...
162s Building dependency tree...
162s Reading state information...
163s Starting pkgProblemResolver with broken count: 0
163s Starting 2 pkgProblemResolver with broken count: 0
163s Done
163s The following additional packages will be installed:
163s   architecture-properties autoconf automake autopoint autotools-dev blt
163s   build-essential cpp cpp-14 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu
163s   cython3 debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism
163s   docutils-common dwz fontconfig-config fonts-dejavu-core fonts-dejavu-mono
163s   fonts-lyx fonts-mathjax fonts-open-sans g++ g++-14 g++-14-aarch64-linux-gnu
163s   g++-aarch64-linux-gnu gcc gcc-14 gcc-14-aarch64-linux-gnu
163s   gcc-aarch64-linux-gnu gettext intltool-debian libaec0 libarchive-zip-perl
163s   libasan8 libblas3 libcc1-0 libdebhelper-perl libdeflate0 libexpat1-dev
163s   libfile-stripnondeterminism-perl libfontconfig1 libgcc-14-dev libgfortran5
163s   libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1t64 libhdf5-hl-100t64
163s   libhwasan0 libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8
163s   libjs-jquery libjs-jquery-ui libjs-mathjax libjs-sphinxdoc libjs-underscore
163s   libjson-perl liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 liblzf1
163s   libmpc3 libopenjp2-7 libpython3-all-dev libpython3-dev libpython3.12-dev
163s   libpython3.13 libpython3.13-dev libpython3.13-minimal libpython3.13-stdlib
163s   libqhull-r8.0 libraqm0 libsharpyuv0 libsimde-dev libssw-dev libssw0
163s   libstdc++-14-dev libsz2 libtcl8.6 libtiff6 libtk8.6 libtool libtsan2
163s   libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxft2 libxrender1 libxslt1.1
163s   libxss1 m4 po-debconf pybuild-plugin-autopkgtest python-biom-format-doc
163s   python-matplotlib-data python-numpy-doc python-pandas-doc python-scipy-doc
163s   python-skbio-doc python3-alabaster python3-all python3-all-dev
163s   python3-appdirs python3-asttokens python3-biom-format python3-brotli
163s   python3-bs4 python3-cachecontrol python3-click python3-colorama
163s   python3-contourpy python3-cycler python3-dateutil python3-decorator
163s   python3-defusedxml python3-dev python3-doc python3-docutils
163s   python3-executing python3-fonttools python3-fs python3-h5py
163s   python3-h5py-serial python3-hdmedians python3-imagesize python3-iniconfig
163s   python3-ipython python3-jedi python3-joblib python3-kiwisolver python3-lxml
163s   python3-lz4 python3-matplotlib python3-matplotlib-inline python3-mpmath
163s   python3-msgpack python3-natsort python3-numpy python3-numpydoc
163s   python3-packaging python3-pandas python3-pandas-lib python3-parso
163s   python3-patsy python3-pexpect python3-pil python3-pil.imagetk python3-pluggy
163s   python3-prompt-toolkit python3-ptyprocess python3-pure-eval
163s   python3-pydata-sphinx-theme python3-pytest python3-roman python3-scipy
163s   python3-six python3-skbio python3-sklearn python3-sklearn-lib
163s   python3-snowballstemmer python3-soupsieve python3-sphinx
163s   python3-sphinx-copybutton python3-sphinx-design python3-stack-data
163s   python3-statsmodels python3-statsmodels-lib python3-sympy python3-tabulate
163s   python3-threadpoolctl python3-tk python3-traitlets python3-typeshed
163s   python3-tz python3-ufolib2 python3-wcwidth python3.12-dev python3.12-doc
163s   python3.12-tk python3.13 python3.13-dev python3.13-minimal python3.13-tk
163s   sgml-base sphinx-common tk8.6-blt2.5 unicode-data x11-common xml-core
163s   zlib1g-dev
163s Suggested packages:
163s   autoconf-archive gnu-standards autoconf-doc blt-demo cpp-doc gcc-14-locales
163s   cpp-14-doc cython-doc dh-make flit python3-build python3-installer
163s   python3-wheel gcc-14-doc gcc-multilib manpages-dev flex bison gdb gcc-doc
163s   gdb-aarch64-linux-gnu gettext-doc libasprintf-dev libgettextpo-dev
163s   libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix libjs-mathjax-doc
163s   liblcms2-utils libstdc++-14-doc tcl8.6 tk8.6 libtool-doc gfortran
163s   | fortran95-compiler gcj-jdk m4-doc libmail-box-perl python-imageio-doc
163s   python-pytest-doc python-skimage-doc python-cycler-doc python3-examples
163s   docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french
163s   texlive-latex-base texlive-latex-recommended python-h5py-doc
163s   python-ipython-doc python-joblib-doc python-lxml-doc cm-super-minimal dvipng
163s   ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3
163s   librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi-cairo
163s   python3-gobject python3-pyqt5 python3-sip python3-tornado
163s   texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2
163s   python-natsort-doc gfortran python-patsy-doc python-pexpect-doc
163s   python-pil-doc python3-dap python-sklearn-doc python3-stemmer dvisvgm
163s   fonts-freefont-otf imagemagick-6.q16 latexmk python3-sphinx-rtd-theme
163s   sphinx-doc tex-gyre texlive-fonts-extra texlive-fonts-recommended
163s   texlive-plain-generic python-sphinx-copybutton-doc python-statsmodels-doc
163s   python-sympy-doc tix python3-tk-dbg python-traitlets-doc python3.13-venv
163s   python3.13-doc binfmt-support sgml-base-doc
163s Recommended packages:
163s   libarchive-cpio-perl javascript-common libjson-xs-perl libltdl-dev
163s   libmail-sendmail-perl libpaper-utils python3-simplejson python3-psutil
163s   python3-cssselect python3-html5lib python3-bottleneck python3-numexpr
163s   python3-odf python3-openpyxl python3-tables python3-olefile
163s   python3-accessible-pygments python3-cvxopt isympy-common
163s The following NEW packages will be installed:
163s   architecture-properties autoconf automake autopkgtest-satdep autopoint
163s   autotools-dev blt build-essential cpp cpp-14 cpp-14-aarch64-linux-gnu
163s   cpp-aarch64-linux-gnu cython3 debhelper debugedit dh-autoreconf dh-python
163s   dh-strip-nondeterminism docutils-common dwz fontconfig-config
163s   fonts-dejavu-core fonts-dejavu-mono fonts-lyx fonts-mathjax fonts-open-sans
163s   g++ g++-14 g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14
163s   gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu gettext intltool-debian
163s   libaec0 libarchive-zip-perl libasan8 libblas3 libcc1-0 libdebhelper-perl
163s   libdeflate0 libexpat1-dev libfile-stripnondeterminism-perl libfontconfig1
163s   libgcc-14-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
163s   libhdf5-103-1t64 libhdf5-hl-100t64 libhwasan0 libimagequant0 libisl23
163s   libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui
163s   libjs-mathjax libjs-sphinxdoc libjs-underscore libjson-perl liblapack3
163s   liblbfgsb0 liblcms2-2 liblerc4 liblsan0 liblzf1 libmpc3 libopenjp2-7
163s   libpython3-all-dev libpython3-dev libpython3.12-dev libpython3.13
163s   libpython3.13-dev libpython3.13-minimal libpython3.13-stdlib libqhull-r8.0
163s   libraqm0 libsharpyuv0 libsimde-dev libssw-dev libssw0 libstdc++-14-dev
163s   libsz2 libtcl8.6 libtiff6 libtk8.6 libtool libtsan2 libubsan1 libwebp7
163s   libwebpdemux2 libwebpmux3 libxft2 libxrender1 libxslt1.1 libxss1 m4
163s   po-debconf pybuild-plugin-autopkgtest python-biom-format-doc
163s   python-matplotlib-data python-numpy-doc python-pandas-doc python-scipy-doc
163s   python-skbio-doc python3-alabaster python3-all python3-all-dev
163s   python3-appdirs python3-asttokens python3-biom-format python3-brotli
163s   python3-bs4 python3-cachecontrol python3-click python3-colorama
163s   python3-contourpy python3-cycler python3-dateutil python3-decorator
163s   python3-defusedxml python3-dev python3-doc python3-docutils
163s   python3-executing python3-fonttools python3-fs python3-h5py
163s   python3-h5py-serial python3-hdmedians python3-imagesize python3-iniconfig
163s   python3-ipython python3-jedi python3-joblib python3-kiwisolver python3-lxml
163s   python3-lz4 python3-matplotlib python3-matplotlib-inline python3-mpmath
163s   python3-msgpack python3-natsort python3-numpy python3-numpydoc
163s   python3-packaging python3-pandas python3-pandas-lib python3-parso
163s   python3-patsy python3-pexpect python3-pil python3-pil.imagetk python3-pluggy
163s   python3-prompt-toolkit python3-ptyprocess python3-pure-eval
163s   python3-pydata-sphinx-theme python3-pytest python3-roman python3-scipy
163s   python3-six python3-skbio python3-sklearn python3-sklearn-lib
163s   python3-snowballstemmer python3-soupsieve python3-sphinx
163s   python3-sphinx-copybutton python3-sphinx-design python3-stack-data
163s   python3-statsmodels python3-statsmodels-lib python3-sympy python3-tabulate
163s   python3-threadpoolctl python3-tk python3-traitlets python3-typeshed
163s   python3-tz python3-ufolib2 python3-wcwidth python3.12-dev python3.12-doc
163s   python3.12-tk python3.13 python3.13-dev python3.13-minimal python3.13-tk
163s   sgml-base sphinx-common tk8.6-blt2.5 unicode-data x11-common xml-core
163s   zlib1g-dev
163s 0 upgraded, 202 newly installed, 0 to remove and 0 not upgraded.
163s Need to get 214 MB/214 MB of archives.
163s After this operation, 1187 MB of additional disk space will be used.
163s Get:1 /tmp/autopkgtest.V7XQ3h/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [980 B]
164s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB]
164s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB]
164s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 sgml-base all 1.31 [11.4 kB]
164s Get:5 http://ftpmaster.internal/ubuntu plucky/universe arm64 architecture-properties arm64 0.2.3 [2058 B]
164s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 m4 arm64 1.4.19-4build1 [240 kB]
164s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 autoconf all 2.72-3 [382 kB]
164s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 autotools-dev all 20220109.1 [44.9 kB]
164s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 automake all 1:1.16.5-1.3ubuntu1 [558 kB]
164s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 autopoint all 0.22.5-2 [616 kB]
164s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [987 kB]
164s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
164s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
164s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-1.1ubuntu2 [37.4 kB]
164s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-1.1ubuntu2 [142 kB]
164s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB]
164s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB]
164s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
164s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B]
164s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.15-1 [774 kB]
164s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-7build1 [618 kB]
164s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 blt arm64 2.5.3+dfsg-7build1 [4840 B]
164s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libisl23 arm64 0.27-1 [676 kB]
164s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libmpc3 arm64 1.3.1-1build2 [56.8 kB]
164s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-8ubuntu1 [10.6 MB]
165s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14 arm64 14.2.0-8ubuntu1 [1028 B]
165s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-aarch64-linux-gnu arm64 4:14.1.0-2ubuntu1 [5452 B]
165s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp arm64 4:14.1.0-2ubuntu1 [22.5 kB]
165s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 libcc1-0 arm64 14.2.0-8ubuntu1 [49.7 kB]
165s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB]
165s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libitm1 arm64 14.2.0-8ubuntu1 [27.8 kB]
165s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libasan8 arm64 14.2.0-8ubuntu1 [2893 kB]
165s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 liblsan0 arm64 14.2.0-8ubuntu1 [1283 kB]
165s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libtsan2 arm64 14.2.0-8ubuntu1 [2686 kB]
165s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libubsan1 arm64 14.2.0-8ubuntu1 [1151 kB]
165s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libhwasan0 arm64 14.2.0-8ubuntu1 [1598 kB]
165s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libgcc-14-dev arm64 14.2.0-8ubuntu1 [2594 kB]
165s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-8ubuntu1 [20.9 MB]
166s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14 arm64 14.2.0-8ubuntu1 [518 kB]
166s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-aarch64-linux-gnu arm64 4:14.1.0-2ubuntu1 [1200 B]
166s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc arm64 4:14.1.0-2ubuntu1 [4994 B]
166s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 libstdc++-14-dev arm64 14.2.0-8ubuntu1 [2476 kB]
166s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-8ubuntu1 [12.1 MB]
166s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14 arm64 14.2.0-8ubuntu1 [19.9 kB]
166s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-aarch64-linux-gnu arm64 4:14.1.0-2ubuntu1 [958 B]
166s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 g++ arm64 4:14.1.0-2ubuntu1 [1080 B]
166s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 build-essential arm64 12.10ubuntu1 [4932 B]
166s Get:48 http://ftpmaster.internal/ubuntu plucky/universe arm64 cython3 arm64 3.0.11+dfsg-1ubuntu1 [2355 kB]
166s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 libdebhelper-perl all 13.20ubuntu1 [94.2 kB]
166s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libtool all 2.4.7-7build1 [166 kB]
166s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 dh-autoreconf all 20 [16.1 kB]
166s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB]
166s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB]
166s Get:54 http://ftpmaster.internal/ubuntu plucky/main arm64 dh-strip-nondeterminism all 1.14.0-1 [5058 B]
166s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 debugedit arm64 1:5.1-1 [45.9 kB]
166s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 dwz arm64 0.15-1build6 [113 kB]
166s Get:57 http://ftpmaster.internal/ubuntu plucky/main arm64 gettext arm64 0.22.5-2 [930 kB]
166s Get:58 http://ftpmaster.internal/ubuntu plucky/main arm64 intltool-debian all 0.35.0+20060710.6 [23.2 kB]
166s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 po-debconf all 1.0.21+nmu1 [233 kB]
166s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 debhelper all 13.20ubuntu1 [893 kB]
166s Get:61 http://ftpmaster.internal/ubuntu plucky/universe arm64 dh-python all 6.20241024 [112 kB]
166s Get:62 http://ftpmaster.internal/ubuntu plucky/main arm64 xml-core all 0.19 [20.3 kB]
166s Get:63 http://ftpmaster.internal/ubuntu plucky/main arm64 docutils-common all 0.21.2+dfsg-2 [131 kB]
166s Get:64 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-lyx all 2.4.2.1-1 [171 kB]
166s Get:65 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB]
166s Get:66 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-open-sans all 1.11-2 [635 kB]
166s Get:67 http://ftpmaster.internal/ubuntu plucky/universe arm64 libaec0 arm64 1.1.3-1 [22.0 kB]
166s Get:68 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB]
166s Get:69 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.22-1 [46.2 kB]
166s Get:70 http://ftpmaster.internal/ubuntu plucky/main arm64 libexpat1-dev arm64 2.6.2-2 [128 kB]
166s Get:71 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB]
166s Get:72 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB]
166s Get:73 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.0.1-1 [487 kB]
166s Get:74 http://ftpmaster.internal/ubuntu plucky/universe arm64 libsz2 arm64 1.1.3-1 [5254 B]
166s Get:75 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhdf5-103-1t64 arm64 1.10.10+repack-4ubuntu3 [1207 kB]
166s Get:76 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhdf5-hl-100t64 arm64 1.10.10+repack-4ubuntu3 [56.9 kB]
166s Get:77 http://ftpmaster.internal/ubuntu plucky/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB]
166s Get:78 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu2 [163 kB]
167s Get:79 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
167s Get:80 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
167s Get:81 http://ftpmaster.internal/ubuntu plucky/universe arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
167s Get:82 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB]
167s Get:83 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-sphinxdoc all 7.4.7-4 [158 kB]
167s Get:84 http://ftpmaster.internal/ubuntu plucky/main arm64 libjson-perl all 4.10000-1 [81.9 kB]
167s Get:85 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB]
167s Get:86 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB]
167s Get:87 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB]
167s Get:88 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu2 [154 kB]
167s Get:89 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblzf1 arm64 3.6-4 [7426 B]
167s Get:90 http://ftpmaster.internal/ubuntu plucky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1ubuntu1 [894 kB]
167s Get:91 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.12-dev arm64 3.12.7-3 [5565 kB]
167s Get:92 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-dev arm64 3.12.7-1 [10.3 kB]
167s Get:93 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB]
167s Get:94 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13 arm64 3.13.0-2 [2262 kB]
167s Get:95 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-dev arm64 3.13.0-2 [5386 kB]
167s Get:96 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-all-dev arm64 3.12.7-1 [916 B]
167s Get:97 http://ftpmaster.internal/ubuntu plucky/universe arm64 libqhull-r8.0 arm64 2020.2-6build1 [189 kB]
167s Get:98 http://ftpmaster.internal/ubuntu plucky/main arm64 libraqm0 arm64 0.10.1-1build1 [14.7 kB]
167s Get:99 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [16.3 kB]
167s Get:100 http://ftpmaster.internal/ubuntu plucky/universe arm64 libsimde-dev all 0.8.2-1 [466 kB]
167s Get:101 http://ftpmaster.internal/ubuntu plucky/universe arm64 libssw0 arm64 1.1-15 [21.8 kB]
167s Get:102 http://ftpmaster.internal/ubuntu plucky/universe arm64 libssw-dev arm64 1.1-15 [23.6 kB]
167s Get:103 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB]
167s Get:104 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.4.0-0.1 [192 kB]
167s Get:105 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB]
168s Get:106 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpdemux2 arm64 1.4.0-0.1 [12.3 kB]
168s Get:107 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpmux3 arm64 1.4.0-0.1 [25.1 kB]
168s Get:108 http://ftpmaster.internal/ubuntu plucky/main arm64 libxslt1.1 arm64 1.1.39-0exp1ubuntu1 [167 kB]
168s Get:109 http://ftpmaster.internal/ubuntu plucky/universe arm64 pybuild-plugin-autopkgtest all 6.20241024 [1746 B]
168s Get:110 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-biom-format-doc all 2.1.16-1 [57.5 kB]
168s Get:111 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-matplotlib-data all 3.8.3-3 [2928 kB]
168s Get:112 http://ftpmaster.internal/ubuntu plucky/main arm64 python-numpy-doc all 1:1.26.4+ds-11build1 [6734 kB]
168s Get:113 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB]
168s Get:114 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-pandas-doc all 2.2.3+dfsg-5 [9117 kB]
169s Get:115 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-skbio-doc all 0.6.2-3 [2071 kB]
169s Get:116 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB]
169s Get:117 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B]
169s Get:118 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-dev arm64 3.12.7-3 [505 kB]
169s Get:119 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-dev arm64 3.12.7-1 [26.7 kB]
169s Get:120 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-dev arm64 3.13.0-2 [507 kB]
169s Get:121 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all-dev arm64 3.12.7-1 [914 B]
169s Get:122 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-appdirs all 1.4.4-4 [10.9 kB]
169s Get:123 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-asttokens all 2.4.1-2 [20.8 kB]
169s Get:124 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB]
169s Get:125 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-h5py-serial arm64 3.11.0-5ubuntu1 [1064 kB]
169s Get:126 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-h5py all 3.11.0-5ubuntu1 [7974 B]
169s Get:127 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-colorama all 0.4.6-4 [32.1 kB]
169s Get:128 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-click all 8.1.7-2 [79.5 kB]
169s Get:129 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-six all 1.16.0-7 [13.1 kB]
169s Get:130 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-dateutil all 2.9.0-2 [80.3 kB]
169s Get:131 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tz all 2024.1-2 [31.4 kB]
169s Get:132 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas-lib arm64 2.2.3+dfsg-5 [4422 kB]
169s Get:133 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas all 2.2.3+dfsg-5 [3112 kB]
169s Get:134 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB]
169s Get:135 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.13.1-5 [16.3 MB]
170s Get:136 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-biom-format arm64 2.1.16-1 [137 kB]
170s Get:137 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-brotli arm64 1.1.0-2build2 [340 kB]
170s Get:138 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-soupsieve all 2.6-1 [33.0 kB]
170s Get:139 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-bs4 all 4.12.3-3 [109 kB]
170s Get:140 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-msgpack arm64 1.0.3-3build2 [77.9 kB]
170s Get:141 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cachecontrol all 0.14.0-1 [19.0 kB]
170s Get:142 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-contourpy arm64 1.3.0-2 [179 kB]
170s Get:143 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cycler all 0.12.1-1 [9716 B]
170s Get:144 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-defusedxml all 0.7.1-2 [42.0 kB]
170s Get:145 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-doc all 3.12.7-3 [12.4 MB]
170s Get:146 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-doc all 3.12.7-1 [10.3 kB]
170s Get:147 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-roman all 4.2-1 [10.0 kB]
170s Get:148 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-docutils all 0.21.2+dfsg-2 [409 kB]
170s Get:149 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-executing all 2.1.0-0.1 [24.4 kB]
170s Get:150 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ufolib2 all 0.16.1+dfsg1-1 [33.4 kB]
170s Get:151 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mpmath all 1.3.0-1 [425 kB]
170s Get:152 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sympy all 1.13.3-1 [4228 kB]
170s Get:153 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fs all 2.4.16-4 [91.3 kB]
170s Get:154 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-lxml arm64 5.3.0-1 [1205 kB]
170s Get:155 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-lz4 arm64 4.0.2+dfsg-1build4 [26.7 kB]
170s Get:156 http://ftpmaster.internal/ubuntu plucky/universe arm64 unicode-data all 15.1.0-1 [8878 kB]
171s Get:157 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fonttools arm64 4.46.0-1build2 [1398 kB]
171s Get:158 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-hdmedians arm64 0.14.2-5.1build1 [116 kB]
171s Get:159 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-imagesize all 1.4.1-1 [6844 B]
171s Get:160 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B]
171s Get:161 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-parso all 0.8.3-1 [67.2 kB]
171s Get:162 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-typeshed all 0.0~git20231111.6764465-3 [1274 kB]
171s Get:163 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-jedi all 0.19.1+ds1-1 [693 kB]
171s Get:164 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB]
171s Get:165 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-matplotlib-inline all 0.1.6-2 [8784 B]
171s Get:166 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-ptyprocess all 0.7.0-6 [14.8 kB]
171s Get:167 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pexpect all 4.9-2 [48.1 kB]
171s Get:168 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-wcwidth all 0.2.13+dfsg1-1 [26.3 kB]
171s Get:169 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-prompt-toolkit all 3.0.48-1 [256 kB]
171s Get:170 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pure-eval all 0.2.3-1 [11.4 kB]
171s Get:171 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-stack-data all 0.6.3-1 [22.0 kB]
171s Get:172 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ipython all 8.20.0-1ubuntu1 [561 kB]
171s Get:173 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-joblib all 1.3.2-5 [206 kB]
171s Get:174 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-kiwisolver arm64 1.4.7-2 [50.4 kB]
171s Get:175 http://ftpmaster.internal/ubuntu plucky/main arm64 libopenjp2-7 arm64 2.5.0-2ubuntu1 [182 kB]
171s Get:176 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pil arm64 10.4.0-1ubuntu1 [456 kB]
171s Get:177 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-tk arm64 3.12.7-3 [115 kB]
171s Get:178 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-tk arm64 3.13.0-2 [105 kB]
171s Get:179 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-tk arm64 3.12.7-1 [9752 B]
171s Get:180 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pil.imagetk arm64 10.4.0-1ubuntu1 [9504 B]
171s Get:181 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB]
171s Get:182 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-matplotlib arm64 3.8.3-3 [4515 kB]
171s Get:183 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-natsort all 8.0.2-2 [33.8 kB]
171s Get:184 http://ftpmaster.internal/ubuntu plucky/main arm64 sphinx-common all 7.4.7-4 [775 kB]
171s Get:185 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-alabaster all 0.7.16-0.1 [18.5 kB]
171s Get:186 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-snowballstemmer all 2.2.0-4build1 [59.8 kB]
171s Get:187 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-sphinx all 7.4.7-4 [593 kB]
171s Get:188 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tabulate all 0.9.0-1 [45.3 kB]
171s Get:189 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-numpydoc all 1.6.0-2 [50.5 kB]
171s Get:190 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-patsy all 0.5.6-1 [181 kB]
171s Get:191 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB]
171s Get:192 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pydata-sphinx-theme all 0.15.4+dfsg-2 [41.5 kB]
171s Get:193 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.3-1 [251 kB]
171s Get:194 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-statsmodels-lib arm64 0.14.4+dfsg-1 [1627 kB]
171s Get:195 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-statsmodels all 0.14.4+dfsg-1 [5010 kB]
172s Get:196 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-skbio arm64 0.6.2-3 [1391 kB]
172s Get:197 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-threadpoolctl all 3.1.0-1 [21.3 kB]
172s Get:198 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sklearn-lib arm64 1.4.2+dfsg-6 [3806 kB]
172s Get:199 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sklearn all 1.4.2+dfsg-6 [2257 kB]
172s Get:200 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sphinx-copybutton all 0.5.2-2 [16.6 kB]
172s Get:201 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sphinx-design all 0.6.1-1 [894 kB]
172s Get:202 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-scipy-doc all 1.13.1-5 [31.1 kB]
173s Fetched 214 MB in 9s (24.9 MB/s)
173s Selecting previously unselected package libpython3.13-minimal:arm64.
173s (Reading database ... 
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173s Preparing to unpack .../000-libpython3.13-minimal_3.13.0-2_arm64.deb ...
173s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ...
173s Selecting previously unselected package python3.13-minimal.
173s Preparing to unpack .../001-python3.13-minimal_3.13.0-2_arm64.deb ...
173s Unpacking python3.13-minimal (3.13.0-2) ...
173s Selecting previously unselected package sgml-base.
173s Preparing to unpack .../002-sgml-base_1.31_all.deb ...
173s Unpacking sgml-base (1.31) ...
173s Selecting previously unselected package architecture-properties:arm64.
173s Preparing to unpack .../003-architecture-properties_0.2.3_arm64.deb ...
173s Unpacking architecture-properties:arm64 (0.2.3) ...
173s Selecting previously unselected package m4.
173s Preparing to unpack .../004-m4_1.4.19-4build1_arm64.deb ...
173s Unpacking m4 (1.4.19-4build1) ...
173s Selecting previously unselected package autoconf.
173s Preparing to unpack .../005-autoconf_2.72-3_all.deb ...
173s Unpacking autoconf (2.72-3) ...
173s Selecting previously unselected package autotools-dev.
173s Preparing to unpack .../006-autotools-dev_20220109.1_all.deb ...
173s Unpacking autotools-dev (20220109.1) ...
173s Selecting previously unselected package automake.
173s Preparing to unpack .../007-automake_1%3a1.16.5-1.3ubuntu1_all.deb ...
173s Unpacking automake (1:1.16.5-1.3ubuntu1) ...
173s Selecting previously unselected package autopoint.
173s Preparing to unpack .../008-autopoint_0.22.5-2_all.deb ...
173s Unpacking autopoint (0.22.5-2) ...
173s Selecting previously unselected package libtcl8.6:arm64.
173s Preparing to unpack .../009-libtcl8.6_8.6.15+dfsg-2_arm64.deb ...
173s Unpacking libtcl8.6:arm64 (8.6.15+dfsg-2) ...
173s Selecting previously unselected package fonts-dejavu-mono.
173s Preparing to unpack .../010-fonts-dejavu-mono_2.37-8_all.deb ...
173s Unpacking fonts-dejavu-mono (2.37-8) ...
173s Selecting previously unselected package fonts-dejavu-core.
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173s Selecting previously unselected package fontconfig-config.
173s Preparing to unpack .../012-fontconfig-config_2.15.0-1.1ubuntu2_arm64.deb ...
174s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ...
174s Selecting previously unselected package libfontconfig1:arm64.
174s Preparing to unpack .../013-libfontconfig1_2.15.0-1.1ubuntu2_arm64.deb ...
174s Unpacking libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ...
174s Selecting previously unselected package libxrender1:arm64.
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174s Selecting previously unselected package libxft2:arm64.
174s Preparing to unpack .../015-libxft2_2.3.6-1build1_arm64.deb ...
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174s Selecting previously unselected package x11-common.
174s Preparing to unpack .../016-x11-common_1%3a7.7+23ubuntu3_all.deb ...
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174s Selecting previously unselected package libxss1:arm64.
174s Preparing to unpack .../017-libxss1_1%3a1.2.3-1build3_arm64.deb ...
174s Unpacking libxss1:arm64 (1:1.2.3-1build3) ...
174s Selecting previously unselected package libtk8.6:arm64.
174s Preparing to unpack .../018-libtk8.6_8.6.15-1_arm64.deb ...
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174s Selecting previously unselected package tk8.6-blt2.5.
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174s Selecting previously unselected package blt.
174s Preparing to unpack .../020-blt_2.5.3+dfsg-7build1_arm64.deb ...
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174s Selecting previously unselected package libisl23:arm64.
174s Preparing to unpack .../021-libisl23_0.27-1_arm64.deb ...
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174s Selecting previously unselected package libmpc3:arm64.
174s Preparing to unpack .../022-libmpc3_1.3.1-1build2_arm64.deb ...
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174s Selecting previously unselected package cpp-14-aarch64-linux-gnu.
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174s Selecting previously unselected package cpp-aarch64-linux-gnu.
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174s Preparing to unpack .../026-cpp_4%3a14.1.0-2ubuntu1_arm64.deb ...
174s Unpacking cpp (4:14.1.0-2ubuntu1) ...
174s Selecting previously unselected package libcc1-0:arm64.
174s Preparing to unpack .../027-libcc1-0_14.2.0-8ubuntu1_arm64.deb ...
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174s Selecting previously unselected package libgomp1:arm64.
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174s Selecting previously unselected package libitm1:arm64.
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174s Selecting previously unselected package libasan8:arm64.
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175s Selecting previously unselected package liblsan0:arm64.
175s Preparing to unpack .../031-liblsan0_14.2.0-8ubuntu1_arm64.deb ...
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175s Selecting previously unselected package libtsan2:arm64.
175s Preparing to unpack .../032-libtsan2_14.2.0-8ubuntu1_arm64.deb ...
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175s Selecting previously unselected package libubsan1:arm64.
175s Preparing to unpack .../033-libubsan1_14.2.0-8ubuntu1_arm64.deb ...
175s Unpacking libubsan1:arm64 (14.2.0-8ubuntu1) ...
175s Selecting previously unselected package libhwasan0:arm64.
175s Preparing to unpack .../034-libhwasan0_14.2.0-8ubuntu1_arm64.deb ...
175s Unpacking libhwasan0:arm64 (14.2.0-8ubuntu1) ...
175s Selecting previously unselected package libgcc-14-dev:arm64.
175s Preparing to unpack .../035-libgcc-14-dev_14.2.0-8ubuntu1_arm64.deb ...
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175s Selecting previously unselected package gcc-14-aarch64-linux-gnu.
175s Preparing to unpack .../036-gcc-14-aarch64-linux-gnu_14.2.0-8ubuntu1_arm64.deb ...
175s Unpacking gcc-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ...
175s Selecting previously unselected package gcc-14.
175s Preparing to unpack .../037-gcc-14_14.2.0-8ubuntu1_arm64.deb ...
175s Unpacking gcc-14 (14.2.0-8ubuntu1) ...
175s Selecting previously unselected package gcc-aarch64-linux-gnu.
175s Preparing to unpack .../038-gcc-aarch64-linux-gnu_4%3a14.1.0-2ubuntu1_arm64.deb ...
175s Unpacking gcc-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ...
175s Selecting previously unselected package gcc.
175s Preparing to unpack .../039-gcc_4%3a14.1.0-2ubuntu1_arm64.deb ...
175s Unpacking gcc (4:14.1.0-2ubuntu1) ...
175s Selecting previously unselected package libstdc++-14-dev:arm64.
176s Preparing to unpack .../040-libstdc++-14-dev_14.2.0-8ubuntu1_arm64.deb ...
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176s Selecting previously unselected package g++-14-aarch64-linux-gnu.
176s Preparing to unpack .../041-g++-14-aarch64-linux-gnu_14.2.0-8ubuntu1_arm64.deb ...
176s Unpacking g++-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ...
176s Selecting previously unselected package g++-14.
176s Preparing to unpack .../042-g++-14_14.2.0-8ubuntu1_arm64.deb ...
176s Unpacking g++-14 (14.2.0-8ubuntu1) ...
176s Selecting previously unselected package g++-aarch64-linux-gnu.
176s Preparing to unpack .../043-g++-aarch64-linux-gnu_4%3a14.1.0-2ubuntu1_arm64.deb ...
176s Unpacking g++-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ...
176s Selecting previously unselected package g++.
176s Preparing to unpack .../044-g++_4%3a14.1.0-2ubuntu1_arm64.deb ...
176s Unpacking g++ (4:14.1.0-2ubuntu1) ...
176s Selecting previously unselected package build-essential.
176s Preparing to unpack .../045-build-essential_12.10ubuntu1_arm64.deb ...
176s Unpacking build-essential (12.10ubuntu1) ...
176s Selecting previously unselected package cython3.
176s Preparing to unpack .../046-cython3_3.0.11+dfsg-1ubuntu1_arm64.deb ...
176s Unpacking cython3 (3.0.11+dfsg-1ubuntu1) ...
176s Selecting previously unselected package libdebhelper-perl.
176s Preparing to unpack .../047-libdebhelper-perl_13.20ubuntu1_all.deb ...
176s Unpacking libdebhelper-perl (13.20ubuntu1) ...
176s Selecting previously unselected package libtool.
176s Preparing to unpack .../048-libtool_2.4.7-7build1_all.deb ...
176s Unpacking libtool (2.4.7-7build1) ...
176s Selecting previously unselected package dh-autoreconf.
176s Preparing to unpack .../049-dh-autoreconf_20_all.deb ...
176s Unpacking dh-autoreconf (20) ...
176s Selecting previously unselected package libarchive-zip-perl.
176s Preparing to unpack .../050-libarchive-zip-perl_1.68-1_all.deb ...
176s Unpacking libarchive-zip-perl (1.68-1) ...
176s Selecting previously unselected package libfile-stripnondeterminism-perl.
176s Preparing to unpack .../051-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ...
176s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ...
176s Selecting previously unselected package dh-strip-nondeterminism.
176s Preparing to unpack .../052-dh-strip-nondeterminism_1.14.0-1_all.deb ...
176s Unpacking dh-strip-nondeterminism (1.14.0-1) ...
176s Selecting previously unselected package debugedit.
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177s Unpacking debugedit (1:5.1-1) ...
177s Selecting previously unselected package dwz.
177s Preparing to unpack .../054-dwz_0.15-1build6_arm64.deb ...
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177s Selecting previously unselected package gettext.
177s Preparing to unpack .../055-gettext_0.22.5-2_arm64.deb ...
177s Unpacking gettext (0.22.5-2) ...
177s Selecting previously unselected package intltool-debian.
177s Preparing to unpack .../056-intltool-debian_0.35.0+20060710.6_all.deb ...
177s Unpacking intltool-debian (0.35.0+20060710.6) ...
177s Selecting previously unselected package po-debconf.
177s Preparing to unpack .../057-po-debconf_1.0.21+nmu1_all.deb ...
177s Unpacking po-debconf (1.0.21+nmu1) ...
177s Selecting previously unselected package debhelper.
177s Preparing to unpack .../058-debhelper_13.20ubuntu1_all.deb ...
177s Unpacking debhelper (13.20ubuntu1) ...
177s Selecting previously unselected package dh-python.
177s Preparing to unpack .../059-dh-python_6.20241024_all.deb ...
177s Unpacking dh-python (6.20241024) ...
177s Selecting previously unselected package xml-core.
177s Preparing to unpack .../060-xml-core_0.19_all.deb ...
177s Unpacking xml-core (0.19) ...
177s Selecting previously unselected package docutils-common.
177s Preparing to unpack .../061-docutils-common_0.21.2+dfsg-2_all.deb ...
177s Unpacking docutils-common (0.21.2+dfsg-2) ...
177s Selecting previously unselected package fonts-lyx.
177s Preparing to unpack .../062-fonts-lyx_2.4.2.1-1_all.deb ...
177s Unpacking fonts-lyx (2.4.2.1-1) ...
177s Selecting previously unselected package fonts-mathjax.
177s Preparing to unpack .../063-fonts-mathjax_2.7.9+dfsg-1_all.deb ...
177s Unpacking fonts-mathjax (2.7.9+dfsg-1) ...
177s Selecting previously unselected package fonts-open-sans.
177s Preparing to unpack .../064-fonts-open-sans_1.11-2_all.deb ...
177s Unpacking fonts-open-sans (1.11-2) ...
177s Selecting previously unselected package libaec0:arm64.
177s Preparing to unpack .../065-libaec0_1.1.3-1_arm64.deb ...
177s Unpacking libaec0:arm64 (1.1.3-1) ...
177s Selecting previously unselected package libblas3:arm64.
177s Preparing to unpack .../066-libblas3_3.12.0-3build2_arm64.deb ...
177s Unpacking libblas3:arm64 (3.12.0-3build2) ...
177s Selecting previously unselected package libdeflate0:arm64.
177s Preparing to unpack .../067-libdeflate0_1.22-1_arm64.deb ...
177s Unpacking libdeflate0:arm64 (1.22-1) ...
177s Selecting previously unselected package libexpat1-dev:arm64.
177s Preparing to unpack .../068-libexpat1-dev_2.6.2-2_arm64.deb ...
177s Unpacking libexpat1-dev:arm64 (2.6.2-2) ...
177s Selecting previously unselected package libgfortran5:arm64.
177s Preparing to unpack .../069-libgfortran5_14.2.0-8ubuntu1_arm64.deb ...
177s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ...
177s Selecting previously unselected package libgraphite2-3:arm64.
177s Preparing to unpack .../070-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ...
177s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
177s Selecting previously unselected package libharfbuzz0b:arm64.
178s Preparing to unpack .../071-libharfbuzz0b_10.0.1-1_arm64.deb ...
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178s Selecting previously unselected package libsz2:arm64.
178s Preparing to unpack .../072-libsz2_1.1.3-1_arm64.deb ...
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178s Selecting previously unselected package libhdf5-103-1t64:arm64.
178s Preparing to unpack .../073-libhdf5-103-1t64_1.10.10+repack-4ubuntu3_arm64.deb ...
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178s Selecting previously unselected package libhdf5-hl-100t64:arm64.
178s Preparing to unpack .../074-libhdf5-hl-100t64_1.10.10+repack-4ubuntu3_arm64.deb ...
178s Unpacking libhdf5-hl-100t64:arm64 (1.10.10+repack-4ubuntu3) ...
178s Selecting previously unselected package libimagequant0:arm64.
178s Preparing to unpack .../075-libimagequant0_2.18.0-1build1_arm64.deb ...
178s Unpacking libimagequant0:arm64 (2.18.0-1build1) ...
178s Selecting previously unselected package libjpeg-turbo8:arm64.
178s Preparing to unpack .../076-libjpeg-turbo8_2.1.5-2ubuntu2_arm64.deb ...
178s Unpacking libjpeg-turbo8:arm64 (2.1.5-2ubuntu2) ...
178s Selecting previously unselected package libjpeg8:arm64.
178s Preparing to unpack .../077-libjpeg8_8c-2ubuntu11_arm64.deb ...
178s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ...
178s Selecting previously unselected package libjs-jquery.
178s Preparing to unpack .../078-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ...
178s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
178s Selecting previously unselected package libjs-jquery-ui.
178s Preparing to unpack .../079-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ...
178s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ...
178s Selecting previously unselected package libjs-underscore.
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178s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ...
178s Selecting previously unselected package libjs-sphinxdoc.
178s Preparing to unpack .../081-libjs-sphinxdoc_7.4.7-4_all.deb ...
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178s Selecting previously unselected package libjson-perl.
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178s Selecting previously unselected package liblapack3:arm64.
178s Preparing to unpack .../083-liblapack3_3.12.0-3build2_arm64.deb ...
178s Unpacking liblapack3:arm64 (3.12.0-3build2) ...
178s Selecting previously unselected package liblbfgsb0:arm64.
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178s Selecting previously unselected package liblcms2-2:arm64.
178s Preparing to unpack .../085-liblcms2-2_2.16-2_arm64.deb ...
178s Unpacking liblcms2-2:arm64 (2.16-2) ...
178s Selecting previously unselected package liblerc4:arm64.
178s Preparing to unpack .../086-liblerc4_4.0.0+ds-4ubuntu2_arm64.deb ...
178s Unpacking liblerc4:arm64 (4.0.0+ds-4ubuntu2) ...
178s Selecting previously unselected package liblzf1:arm64.
178s Preparing to unpack .../087-liblzf1_3.6-4_arm64.deb ...
178s Unpacking liblzf1:arm64 (3.6-4) ...
178s Selecting previously unselected package zlib1g-dev:arm64.
178s Preparing to unpack .../088-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_arm64.deb ...
178s Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ...
178s Selecting previously unselected package libpython3.12-dev:arm64.
178s Preparing to unpack .../089-libpython3.12-dev_3.12.7-3_arm64.deb ...
178s Unpacking libpython3.12-dev:arm64 (3.12.7-3) ...
179s Selecting previously unselected package libpython3-dev:arm64.
179s Preparing to unpack .../090-libpython3-dev_3.12.7-1_arm64.deb ...
179s Unpacking libpython3-dev:arm64 (3.12.7-1) ...
179s Selecting previously unselected package libpython3.13-stdlib:arm64.
179s Preparing to unpack .../091-libpython3.13-stdlib_3.13.0-2_arm64.deb ...
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179s Selecting previously unselected package libpython3.13:arm64.
179s Preparing to unpack .../092-libpython3.13_3.13.0-2_arm64.deb ...
179s Unpacking libpython3.13:arm64 (3.13.0-2) ...
179s Selecting previously unselected package libpython3.13-dev:arm64.
179s Preparing to unpack .../093-libpython3.13-dev_3.13.0-2_arm64.deb ...
179s Unpacking libpython3.13-dev:arm64 (3.13.0-2) ...
179s Selecting previously unselected package libpython3-all-dev:arm64.
179s Preparing to unpack .../094-libpython3-all-dev_3.12.7-1_arm64.deb ...
179s Unpacking libpython3-all-dev:arm64 (3.12.7-1) ...
179s Selecting previously unselected package libqhull-r8.0:arm64.
179s Preparing to unpack .../095-libqhull-r8.0_2020.2-6build1_arm64.deb ...
179s Unpacking libqhull-r8.0:arm64 (2020.2-6build1) ...
179s Selecting previously unselected package libraqm0:arm64.
179s Preparing to unpack .../096-libraqm0_0.10.1-1build1_arm64.deb ...
179s Unpacking libraqm0:arm64 (0.10.1-1build1) ...
179s Selecting previously unselected package libsharpyuv0:arm64.
179s Preparing to unpack .../097-libsharpyuv0_1.4.0-0.1_arm64.deb ...
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179s Selecting previously unselected package libsimde-dev.
179s Preparing to unpack .../098-libsimde-dev_0.8.2-1_all.deb ...
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179s Selecting previously unselected package libssw0:arm64.
179s Preparing to unpack .../099-libssw0_1.1-15_arm64.deb ...
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179s Selecting previously unselected package libssw-dev:arm64.
179s Preparing to unpack .../100-libssw-dev_1.1-15_arm64.deb ...
179s Unpacking libssw-dev:arm64 (1.1-15) ...
179s Selecting previously unselected package libjbig0:arm64.
179s Preparing to unpack .../101-libjbig0_2.1-6.1ubuntu2_arm64.deb ...
179s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ...
179s Selecting previously unselected package libwebp7:arm64.
179s Preparing to unpack .../102-libwebp7_1.4.0-0.1_arm64.deb ...
179s Unpacking libwebp7:arm64 (1.4.0-0.1) ...
179s Selecting previously unselected package libtiff6:arm64.
179s Preparing to unpack .../103-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ...
179s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ...
179s Selecting previously unselected package libwebpdemux2:arm64.
179s Preparing to unpack .../104-libwebpdemux2_1.4.0-0.1_arm64.deb ...
179s Unpacking libwebpdemux2:arm64 (1.4.0-0.1) ...
180s Selecting previously unselected package libwebpmux3:arm64.
180s Preparing to unpack .../105-libwebpmux3_1.4.0-0.1_arm64.deb ...
180s Unpacking libwebpmux3:arm64 (1.4.0-0.1) ...
180s Selecting previously unselected package libxslt1.1:arm64.
180s Preparing to unpack .../106-libxslt1.1_1.1.39-0exp1ubuntu1_arm64.deb ...
180s Unpacking libxslt1.1:arm64 (1.1.39-0exp1ubuntu1) ...
180s Selecting previously unselected package pybuild-plugin-autopkgtest.
180s Preparing to unpack .../107-pybuild-plugin-autopkgtest_6.20241024_all.deb ...
180s Unpacking pybuild-plugin-autopkgtest (6.20241024) ...
180s Selecting previously unselected package python-biom-format-doc.
180s Preparing to unpack .../108-python-biom-format-doc_2.1.16-1_all.deb ...
180s Unpacking python-biom-format-doc (2.1.16-1) ...
180s Selecting previously unselected package python-matplotlib-data.
180s Preparing to unpack .../109-python-matplotlib-data_3.8.3-3_all.deb ...
180s Unpacking python-matplotlib-data (3.8.3-3) ...
180s Selecting previously unselected package python-numpy-doc.
180s Preparing to unpack .../110-python-numpy-doc_1%3a1.26.4+ds-11build1_all.deb ...
180s Unpacking python-numpy-doc (1:1.26.4+ds-11build1) ...
180s Selecting previously unselected package libjs-mathjax.
180s Preparing to unpack .../111-libjs-mathjax_2.7.9+dfsg-1_all.deb ...
180s Unpacking libjs-mathjax (2.7.9+dfsg-1) ...
181s Selecting previously unselected package python-pandas-doc.
181s Preparing to unpack .../112-python-pandas-doc_2.2.3+dfsg-5_all.deb ...
181s Unpacking python-pandas-doc (2.2.3+dfsg-5) ...
182s Selecting previously unselected package python-skbio-doc.
182s Preparing to unpack .../113-python-skbio-doc_0.6.2-3_all.deb ...
182s Unpacking python-skbio-doc (0.6.2-3) ...
183s Selecting previously unselected package python3.13.
183s Preparing to unpack .../114-python3.13_3.13.0-2_arm64.deb ...
183s Unpacking python3.13 (3.13.0-2) ...
183s Selecting previously unselected package python3-all.
183s Preparing to unpack .../115-python3-all_3.12.7-1_arm64.deb ...
183s Unpacking python3-all (3.12.7-1) ...
183s Selecting previously unselected package python3.12-dev.
183s Preparing to unpack .../116-python3.12-dev_3.12.7-3_arm64.deb ...
183s Unpacking python3.12-dev (3.12.7-3) ...
183s Selecting previously unselected package python3-dev.
183s Preparing to unpack .../117-python3-dev_3.12.7-1_arm64.deb ...
183s Unpacking python3-dev (3.12.7-1) ...
183s Selecting previously unselected package python3.13-dev.
183s Preparing to unpack .../118-python3.13-dev_3.13.0-2_arm64.deb ...
183s Unpacking python3.13-dev (3.13.0-2) ...
183s Selecting previously unselected package python3-all-dev.
183s Preparing to unpack .../119-python3-all-dev_3.12.7-1_arm64.deb ...
183s Unpacking python3-all-dev (3.12.7-1) ...
183s Selecting previously unselected package python3-appdirs.
183s Preparing to unpack .../120-python3-appdirs_1.4.4-4_all.deb ...
183s Unpacking python3-appdirs (1.4.4-4) ...
183s Selecting previously unselected package python3-asttokens.
183s Preparing to unpack .../121-python3-asttokens_2.4.1-2_all.deb ...
183s Unpacking python3-asttokens (2.4.1-2) ...
183s Selecting previously unselected package python3-numpy.
183s Preparing to unpack .../122-python3-numpy_1%3a1.26.4+ds-11build1_arm64.deb ...
183s Unpacking python3-numpy (1:1.26.4+ds-11build1) ...
183s Selecting previously unselected package python3-h5py-serial.
183s Preparing to unpack .../123-python3-h5py-serial_3.11.0-5ubuntu1_arm64.deb ...
183s Unpacking python3-h5py-serial (3.11.0-5ubuntu1) ...
183s Selecting previously unselected package python3-h5py.
183s Preparing to unpack .../124-python3-h5py_3.11.0-5ubuntu1_all.deb ...
183s Unpacking python3-h5py (3.11.0-5ubuntu1) ...
183s Selecting previously unselected package python3-colorama.
183s Preparing to unpack .../125-python3-colorama_0.4.6-4_all.deb ...
183s Unpacking python3-colorama (0.4.6-4) ...
184s Selecting previously unselected package python3-click.
184s Preparing to unpack .../126-python3-click_8.1.7-2_all.deb ...
184s Unpacking python3-click (8.1.7-2) ...
184s Selecting previously unselected package python3-six.
184s Preparing to unpack .../127-python3-six_1.16.0-7_all.deb ...
184s Unpacking python3-six (1.16.0-7) ...
184s Selecting previously unselected package python3-dateutil.
184s Preparing to unpack .../128-python3-dateutil_2.9.0-2_all.deb ...
184s Unpacking python3-dateutil (2.9.0-2) ...
184s Selecting previously unselected package python3-tz.
184s Preparing to unpack .../129-python3-tz_2024.1-2_all.deb ...
184s Unpacking python3-tz (2024.1-2) ...
184s Selecting previously unselected package python3-pandas-lib:arm64.
184s Preparing to unpack .../130-python3-pandas-lib_2.2.3+dfsg-5_arm64.deb ...
184s Unpacking python3-pandas-lib:arm64 (2.2.3+dfsg-5) ...
184s Selecting previously unselected package python3-pandas.
184s Preparing to unpack .../131-python3-pandas_2.2.3+dfsg-5_all.deb ...
184s Unpacking python3-pandas (2.2.3+dfsg-5) ...
184s Selecting previously unselected package python3-decorator.
184s Preparing to unpack .../132-python3-decorator_5.1.1-5_all.deb ...
184s Unpacking python3-decorator (5.1.1-5) ...
184s Selecting previously unselected package python3-scipy.
184s Preparing to unpack .../133-python3-scipy_1.13.1-5_arm64.deb ...
184s Unpacking python3-scipy (1.13.1-5) ...
185s Selecting previously unselected package python3-biom-format.
185s Preparing to unpack .../134-python3-biom-format_2.1.16-1_arm64.deb ...
185s Unpacking python3-biom-format (2.1.16-1) ...
185s Selecting previously unselected package python3-brotli.
185s Preparing to unpack .../135-python3-brotli_1.1.0-2build2_arm64.deb ...
185s Unpacking python3-brotli (1.1.0-2build2) ...
185s Selecting previously unselected package python3-soupsieve.
185s Preparing to unpack .../136-python3-soupsieve_2.6-1_all.deb ...
185s Unpacking python3-soupsieve (2.6-1) ...
185s Selecting previously unselected package python3-bs4.
185s Preparing to unpack .../137-python3-bs4_4.12.3-3_all.deb ...
185s Unpacking python3-bs4 (4.12.3-3) ...
185s Selecting previously unselected package python3-msgpack.
185s Preparing to unpack .../138-python3-msgpack_1.0.3-3build2_arm64.deb ...
185s Unpacking python3-msgpack (1.0.3-3build2) ...
185s Selecting previously unselected package python3-cachecontrol.
185s Preparing to unpack .../139-python3-cachecontrol_0.14.0-1_all.deb ...
185s Unpacking python3-cachecontrol (0.14.0-1) ...
185s Selecting previously unselected package python3-contourpy.
185s Preparing to unpack .../140-python3-contourpy_1.3.0-2_arm64.deb ...
185s Unpacking python3-contourpy (1.3.0-2) ...
185s Selecting previously unselected package python3-cycler.
185s Preparing to unpack .../141-python3-cycler_0.12.1-1_all.deb ...
185s Unpacking python3-cycler (0.12.1-1) ...
185s Selecting previously unselected package python3-defusedxml.
185s Preparing to unpack .../142-python3-defusedxml_0.7.1-2_all.deb ...
185s Unpacking python3-defusedxml (0.7.1-2) ...
185s Selecting previously unselected package python3.12-doc.
185s Preparing to unpack .../143-python3.12-doc_3.12.7-3_all.deb ...
185s Unpacking python3.12-doc (3.12.7-3) ...
186s Selecting previously unselected package python3-doc.
186s Preparing to unpack .../144-python3-doc_3.12.7-1_all.deb ...
186s Unpacking python3-doc (3.12.7-1) ...
186s Selecting previously unselected package python3-roman.
186s Preparing to unpack .../145-python3-roman_4.2-1_all.deb ...
186s Unpacking python3-roman (4.2-1) ...
186s Selecting previously unselected package python3-docutils.
186s Preparing to unpack .../146-python3-docutils_0.21.2+dfsg-2_all.deb ...
186s Unpacking python3-docutils (0.21.2+dfsg-2) ...
186s Selecting previously unselected package python3-executing.
186s Preparing to unpack .../147-python3-executing_2.1.0-0.1_all.deb ...
186s Unpacking python3-executing (2.1.0-0.1) ...
186s Selecting previously unselected package python3-ufolib2.
186s Preparing to unpack .../148-python3-ufolib2_0.16.1+dfsg1-1_all.deb ...
186s Unpacking python3-ufolib2 (0.16.1+dfsg1-1) ...
186s Selecting previously unselected package python3-mpmath.
186s Preparing to unpack .../149-python3-mpmath_1.3.0-1_all.deb ...
186s Unpacking python3-mpmath (1.3.0-1) ...
186s Selecting previously unselected package python3-sympy.
186s Preparing to unpack .../150-python3-sympy_1.13.3-1_all.deb ...
186s Unpacking python3-sympy (1.13.3-1) ...
186s Selecting previously unselected package python3-fs.
186s Preparing to unpack .../151-python3-fs_2.4.16-4_all.deb ...
186s Unpacking python3-fs (2.4.16-4) ...
186s Selecting previously unselected package python3-lxml:arm64.
186s Preparing to unpack .../152-python3-lxml_5.3.0-1_arm64.deb ...
186s Unpacking python3-lxml:arm64 (5.3.0-1) ...
186s Selecting previously unselected package python3-lz4.
186s Preparing to unpack .../153-python3-lz4_4.0.2+dfsg-1build4_arm64.deb ...
186s Unpacking python3-lz4 (4.0.2+dfsg-1build4) ...
187s Selecting previously unselected package unicode-data.
187s Preparing to unpack .../154-unicode-data_15.1.0-1_all.deb ...
187s Unpacking unicode-data (15.1.0-1) ...
187s Selecting previously unselected package python3-fonttools.
187s Preparing to unpack .../155-python3-fonttools_4.46.0-1build2_arm64.deb ...
187s Unpacking python3-fonttools (4.46.0-1build2) ...
187s Selecting previously unselected package python3-hdmedians.
187s Preparing to unpack .../156-python3-hdmedians_0.14.2-5.1build1_arm64.deb ...
187s Unpacking python3-hdmedians (0.14.2-5.1build1) ...
187s Selecting previously unselected package python3-imagesize.
187s Preparing to unpack .../157-python3-imagesize_1.4.1-1_all.deb ...
187s Unpacking python3-imagesize (1.4.1-1) ...
187s Selecting previously unselected package python3-iniconfig.
187s Preparing to unpack .../158-python3-iniconfig_1.1.1-2_all.deb ...
187s Unpacking python3-iniconfig (1.1.1-2) ...
187s Selecting previously unselected package python3-parso.
187s Preparing to unpack .../159-python3-parso_0.8.3-1_all.deb ...
187s Unpacking python3-parso (0.8.3-1) ...
187s Selecting previously unselected package python3-typeshed.
187s Preparing to unpack .../160-python3-typeshed_0.0~git20231111.6764465-3_all.deb ...
187s Unpacking python3-typeshed (0.0~git20231111.6764465-3) ...
188s Selecting previously unselected package python3-jedi.
188s Preparing to unpack .../161-python3-jedi_0.19.1+ds1-1_all.deb ...
188s Unpacking python3-jedi (0.19.1+ds1-1) ...
188s Selecting previously unselected package python3-traitlets.
188s Preparing to unpack .../162-python3-traitlets_5.14.3+really5.14.3-1_all.deb ...
188s Unpacking python3-traitlets (5.14.3+really5.14.3-1) ...
188s Selecting previously unselected package python3-matplotlib-inline.
188s Preparing to unpack .../163-python3-matplotlib-inline_0.1.6-2_all.deb ...
188s Unpacking python3-matplotlib-inline (0.1.6-2) ...
188s Selecting previously unselected package python3-ptyprocess.
188s Preparing to unpack .../164-python3-ptyprocess_0.7.0-6_all.deb ...
188s Unpacking python3-ptyprocess (0.7.0-6) ...
188s Selecting previously unselected package python3-pexpect.
188s Preparing to unpack .../165-python3-pexpect_4.9-2_all.deb ...
188s Unpacking python3-pexpect (4.9-2) ...
188s Selecting previously unselected package python3-wcwidth.
188s Preparing to unpack .../166-python3-wcwidth_0.2.13+dfsg1-1_all.deb ...
188s Unpacking python3-wcwidth (0.2.13+dfsg1-1) ...
188s Selecting previously unselected package python3-prompt-toolkit.
188s Preparing to unpack .../167-python3-prompt-toolkit_3.0.48-1_all.deb ...
188s Unpacking python3-prompt-toolkit (3.0.48-1) ...
188s Selecting previously unselected package python3-pure-eval.
188s Preparing to unpack .../168-python3-pure-eval_0.2.3-1_all.deb ...
188s Unpacking python3-pure-eval (0.2.3-1) ...
188s Selecting previously unselected package python3-stack-data.
188s Preparing to unpack .../169-python3-stack-data_0.6.3-1_all.deb ...
188s Unpacking python3-stack-data (0.6.3-1) ...
188s Selecting previously unselected package python3-ipython.
188s Preparing to unpack .../170-python3-ipython_8.20.0-1ubuntu1_all.deb ...
188s Unpacking python3-ipython (8.20.0-1ubuntu1) ...
188s Selecting previously unselected package python3-joblib.
188s Preparing to unpack .../171-python3-joblib_1.3.2-5_all.deb ...
188s Unpacking python3-joblib (1.3.2-5) ...
188s Selecting previously unselected package python3-kiwisolver.
188s Preparing to unpack .../172-python3-kiwisolver_1.4.7-2_arm64.deb ...
188s Unpacking python3-kiwisolver (1.4.7-2) ...
188s Selecting previously unselected package libopenjp2-7:arm64.
188s Preparing to unpack .../173-libopenjp2-7_2.5.0-2ubuntu1_arm64.deb ...
188s Unpacking libopenjp2-7:arm64 (2.5.0-2ubuntu1) ...
188s Selecting previously unselected package python3-pil:arm64.
188s Preparing to unpack .../174-python3-pil_10.4.0-1ubuntu1_arm64.deb ...
188s Unpacking python3-pil:arm64 (10.4.0-1ubuntu1) ...
188s Selecting previously unselected package python3.12-tk.
188s Preparing to unpack .../175-python3.12-tk_3.12.7-3_arm64.deb ...
188s Unpacking python3.12-tk (3.12.7-3) ...
189s Selecting previously unselected package python3.13-tk.
189s Preparing to unpack .../176-python3.13-tk_3.13.0-2_arm64.deb ...
189s Unpacking python3.13-tk (3.13.0-2) ...
189s Selecting previously unselected package python3-tk:arm64.
189s Preparing to unpack .../177-python3-tk_3.12.7-1_arm64.deb ...
189s Unpacking python3-tk:arm64 (3.12.7-1) ...
189s Selecting previously unselected package python3-pil.imagetk:arm64.
189s Preparing to unpack .../178-python3-pil.imagetk_10.4.0-1ubuntu1_arm64.deb ...
189s Unpacking python3-pil.imagetk:arm64 (10.4.0-1ubuntu1) ...
189s Selecting previously unselected package python3-packaging.
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189s Unpacking python3-packaging (24.1-1) ...
189s Selecting previously unselected package python3-matplotlib.
189s Preparing to unpack .../180-python3-matplotlib_3.8.3-3_arm64.deb ...
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189s Selecting previously unselected package python3-natsort.
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189s Unpacking python3-natsort (8.0.2-2) ...
189s Selecting previously unselected package sphinx-common.
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189s Unpacking sphinx-common (7.4.7-4) ...
189s Selecting previously unselected package python3-alabaster.
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189s Unpacking python3-alabaster (0.7.16-0.1) ...
189s Selecting previously unselected package python3-snowballstemmer.
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189s Selecting previously unselected package python3-sphinx.
189s Preparing to unpack .../185-python3-sphinx_7.4.7-4_all.deb ...
189s Unpacking python3-sphinx (7.4.7-4) ...
189s Selecting previously unselected package python3-tabulate.
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189s Unpacking python3-tabulate (0.9.0-1) ...
189s Selecting previously unselected package python3-numpydoc.
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189s Selecting previously unselected package python3-patsy.
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189s Selecting previously unselected package python3-pluggy.
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190s Selecting previously unselected package python3-pydata-sphinx-theme.
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190s Unpacking python3-pydata-sphinx-theme (0.15.4+dfsg-2) ...
190s Selecting previously unselected package python3-pytest.
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190s Selecting previously unselected package python3-statsmodels-lib:arm64.
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190s Selecting previously unselected package python3-statsmodels.
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190s Selecting previously unselected package python3-skbio.
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190s Selecting previously unselected package python3-threadpoolctl.
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190s Selecting previously unselected package python3-sklearn-lib:arm64.
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191s Selecting previously unselected package python3-sphinx-copybutton.
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191s Selecting previously unselected package python3-sphinx-design.
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191s Selecting previously unselected package python-scipy-doc.
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191s Selecting previously unselected package autopkgtest-satdep.
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191s Setting up dh-python (6.20241024) ...
191s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
191s Setting up libsimde-dev (0.8.2-1) ...
191s Setting up liblcms2-2:arm64 (2.16-2) ...
191s Setting up python3-iniconfig (1.1.1-2) ...
191s Setting up libsharpyuv0:arm64 (1.4.0-0.1) ...
191s Setting up python3-pure-eval (0.2.3-1) ...
192s Setting up fonts-mathjax (2.7.9+dfsg-1) ...
192s Setting up liblerc4:arm64 (4.0.0+ds-4ubuntu2) ...
192s Setting up libjs-mathjax (2.7.9+dfsg-1) ...
192s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ...
192s Setting up python3-joblib (1.3.2-5) ...
192s Setting up python3-parso (0.8.3-1) ...
192s Setting up python3-colorama (0.4.6-4) ...
193s Setting up python3-lz4 (4.0.2+dfsg-1build4) ...
193s Setting up python3-defusedxml (0.7.1-2) ...
193s Setting up libarchive-zip-perl (1.68-1) ...
193s Setting up python3-asttokens (2.4.1-2) ...
193s Setting up architecture-properties:arm64 (0.2.3) ...
193s Setting up python3-alabaster (0.7.16-0.1) ...
193s Setting up fonts-lyx (2.4.2.1-1) ...
193s Setting up libdebhelper-perl (13.20ubuntu1) ...
193s Setting up python3-threadpoolctl (3.1.0-1) ...
194s Setting up x11-common (1:7.7+23ubuntu3) ...
194s Setting up libdeflate0:arm64 (1.22-1) ...
194s Setting up python3-tabulate (0.9.0-1) ...
194s Setting up m4 (1.4.19-4build1) ...
194s Setting up libqhull-r8.0:arm64 (2020.2-6build1) ...
194s Setting up libgomp1:arm64 (14.2.0-8ubuntu1) ...
194s Setting up python3-click (8.1.7-2) ...
195s Setting up fonts-open-sans (1.11-2) ...
195s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ...
195s Setting up libaec0:arm64 (1.1.3-1) ...
195s Setting up python3-tz (2024.1-2) ...
195s Setting up python3-natsort (8.0.2-2) ...
195s Setting up unicode-data (15.1.0-1) ...
195s Setting up python3-six (1.16.0-7) ...
195s Setting up libpython3.13-minimal:arm64 (3.13.0-2) ...
195s Setting up python3-roman (4.2-1) ...
195s Setting up python3-decorator (5.1.1-5) ...
196s Setting up autotools-dev (20220109.1) ...
196s Setting up libblas3:arm64 (3.12.0-3build2) ...
196s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode
196s Setting up python3-packaging (24.1-1) ...
196s Setting up libexpat1-dev:arm64 (2.6.2-2) ...
196s Setting up python3-wcwidth (0.2.13+dfsg1-1) ...
196s Setting up python3-typeshed (0.0~git20231111.6764465-3) ...
196s Setting up python3-executing (2.1.0-0.1) ...
197s Setting up python3-snowballstemmer (2.2.0-4build1) ...
197s Setting up python3-brotli (1.1.0-2build2) ...
197s Setting up liblzf1:arm64 (3.6-4) ...
197s Setting up python3-cycler (0.12.1-1) ...
198s Setting up libimagequant0:arm64 (2.18.0-1build1) ...
198s Setting up fonts-dejavu-mono (2.37-8) ...
198s Setting up python3-kiwisolver (1.4.7-2) ...
198s Setting up libmpc3:arm64 (1.3.1-1build2) ...
198s Setting up cython3 (3.0.11+dfsg-1ubuntu1) ...
199s Setting up libtcl8.6:arm64 (8.6.15+dfsg-2) ...
199s Setting up autopoint (0.22.5-2) ...
199s Setting up fonts-dejavu-core (2.37-8) ...
199s Setting up libjpeg-turbo8:arm64 (2.1.5-2ubuntu2) ...
199s Setting up libgfortran5:arm64 (14.2.0-8ubuntu1) ...
200s Setting up autoconf (2.72-3) ...
200s Setting up python3-pluggy (1.5.0-1) ...
200s Setting up libwebp7:arm64 (1.4.0-0.1) ...
200s Setting up libubsan1:arm64 (14.2.0-8ubuntu1) ...
200s Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ...
200s Setting up dwz (0.15-1build6) ...
200s Setting up libhwasan0:arm64 (14.2.0-8ubuntu1) ...
200s Setting up python3-traitlets (5.14.3+really5.14.3-1) ...
200s Setting up libasan8:arm64 (14.2.0-8ubuntu1) ...
200s Setting up libjson-perl (4.10000-1) ...
200s Setting up libxslt1.1:arm64 (1.1.39-0exp1ubuntu1) ...
200s Setting up debugedit (1:5.1-1) ...
200s Setting up libopenjp2-7:arm64 (2.5.0-2ubuntu1) ...
200s Setting up python3.13-minimal (3.13.0-2) ...
201s Setting up libharfbuzz0b:arm64 (10.0.1-1) ...
201s Setting up python3-dateutil (2.9.0-2) ...
201s Setting up sgml-base (1.31) ...
201s Setting up python3-msgpack (1.0.3-3build2) ...
202s Setting up libxss1:arm64 (1:1.2.3-1build3) ...
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271s Setting up autopkgtest-satdep (0) ...
286s (Reading database ... 123554 files and directories currently installed.)
286s Removing autopkgtest-satdep (0) ...
289s autopkgtest [11:00:18]: test pybuild-autopkgtest: pybuild-autopkgtest
289s autopkgtest [11:00:18]: test pybuild-autopkgtest: [-----------------------
290s pybuild-autopkgtest
290s I: pybuild base:311: cd /tmp/autopkgtest.V7XQ3h/autopkgtest_tmp/build; python3.13 -m pytest --pyargs skbio
291s ERROR: while parsing the following warning configuration:
291s 
291s   ignore::skbio.util.SkbioWarning
291s 
291s This error occurred:
291s 
291s Traceback (most recent call last):
291s   File "/usr/lib/python3/dist-packages/h5py/__init__.py", line 24, in <module>
291s     from . import _debian_h5py_serial as _h5py
291s   File "/usr/lib/python3/dist-packages/h5py/_debian_h5py_serial/__init__.py", line 25, in <module>
291s     from . import _errors
291s ImportError: cannot import name '_errors' from partially initialized module 'h5py._debian_h5py_serial' (most likely due to a circular import) (/usr/lib/python3/dist-packages/h5py/_debian_h5py_serial/__init__.py)
291s 
291s During handling of the above exception, another exception occurred:
291s 
291s Traceback (most recent call last):
291s   File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 1917, in parse_warning_filter
291s     category: type[Warning] = _resolve_warning_category(category_)
291s                               ~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^
291s   File "/usr/lib/python3/dist-packages/_pytest/config/__init__.py", line 1955, in _resolve_warning_category
291s     m = __import__(module, None, None, [klass])
291s   File "/usr/lib/python3/dist-packages/skbio/__init__.py", line 12, in <module>
291s     import skbio.io  # noqa
291s     ^^^^^^^^^^^^^^^
291s   File "/usr/lib/python3/dist-packages/skbio/io/__init__.py", line 251, in <module>
291s     from .registry import write, read, sniff, create_format, io_registry
291s   File "/usr/lib/python3/dist-packages/skbio/io/registry.py", line 181, in <module>
291s     from .util import _resolve_file, open_file, open_files, _d as _open_kwargs
291s   File "/usr/lib/python3/dist-packages/skbio/io/util.py", line 32, in <module>
291s     from skbio.io._iosources import get_io_sources, get_compression_handler
291s   File "/usr/lib/python3/dist-packages/skbio/io/_iosources.py", line 18, in <module>
291s     from ._fileobject import (
291s     ...<3 lines>...
291s     )
291s   File "/usr/lib/python3/dist-packages/skbio/io/_fileobject.py", line 10, in <module>
291s     import h5py
291s   File "/usr/lib/python3/dist-packages/h5py/__init__.py", line 26, in <module>
291s     from . import _debian_h5py_mpi as _h5py
291s ImportError: cannot import name '_debian_h5py_mpi' from partially initialized module 'h5py' (most likely due to a circular import) (/usr/lib/python3/dist-packages/h5py/__init__.py)
291s 
291s 
291s E: pybuild pybuild:389: test: plugin distutils failed with: exit code=4: cd /tmp/autopkgtest.V7XQ3h/autopkgtest_tmp/build; python3.13 -m pytest --pyargs skbio
291s I: pybuild base:311: cd /tmp/autopkgtest.V7XQ3h/autopkgtest_tmp/build; python3.12 -m pytest --pyargs skbio
294s ============================= test session starts ==============================
294s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0
294s rootdir: /tmp/autopkgtest.V7XQ3h/autopkgtest_tmp/build
294s configfile: pyproject.toml
294s plugins: typeguard-4.4.1
294s collected 2793 items
294s 
295s alignment/tests/test_pairwise.py .........................               [  0%]
295s alignment/tests/test_path.py .................                           [  1%]
295s alignment/tests/test_ssw.py ...........................                  [  2%]
295s alignment/tests/test_tabular_msa.py .................................... [  3%]
295s ........................................................................ [  6%]
296s ........................................................................ [  8%]
297s ........................................................................ [ 11%]
297s ........................................................................ [ 14%]
298s ........................................................................ [ 16%]
298s .....                                                                    [ 16%]
298s diversity/alpha/tests/test_ace.py ..                                     [ 16%]
300s diversity/alpha/tests/test_base.py ...............................       [ 18%]
300s diversity/alpha/tests/test_chao1.py ...                                  [ 18%]
300s diversity/alpha/tests/test_gini.py ....                                  [ 18%]
305s diversity/alpha/tests/test_lladser.py ............                       [ 18%]
305s diversity/alpha/tests/test_pd.py ................                        [ 19%]
305s diversity/beta/tests/test_unifrac.py ............................        [ 20%]
305s diversity/tests/test_block.py ...........                                [ 20%]
305s diversity/tests/test_driver.py .....................................     [ 21%]
305s diversity/tests/test_util.py ................                            [ 22%]
305s embedding/tests/test_embedding.py ...................                    [ 23%]
305s embedding/tests/test_protein.py ..............                           [ 23%]
305s io/format/tests/test_base.py ................................            [ 24%]
305s io/format/tests/test_binary_dm.py .........                              [ 25%]
305s io/format/tests/test_biom.py ...                                         [ 25%]
305s io/format/tests/test_blast6.py ...........                               [ 25%]
306s io/format/tests/test_blast7.py ..............                            [ 26%]
306s io/format/tests/test_clustal.py .............                            [ 26%]
306s io/format/tests/test_embed.py ........                                   [ 26%]
308s io/format/tests/test_embl.py ...............................             [ 28%]
308s io/format/tests/test_emptyfile.py ..                                     [ 28%]
315s io/format/tests/test_fasta.py ................                           [ 28%]
326s io/format/tests/test_fastq.py ...............                            [ 29%]
326s io/format/tests/test_genbank.py .....................                    [ 30%]
326s io/format/tests/test_gff3.py ........................                    [ 30%]
326s io/format/tests/test_lsmat.py .......                                    [ 31%]
326s io/format/tests/test_newick.py .......                                   [ 31%]
326s io/format/tests/test_ordination.py .....                                 [ 31%]
326s io/format/tests/test_phylip.py .......                                   [ 31%]
326s io/format/tests/test_qseq.py ......                                      [ 32%]
326s io/format/tests/test_sample_metadata.py ....                             [ 32%]
326s io/format/tests/test_sequence_feature_vocabulary.py ....                 [ 32%]
326s io/format/tests/test_stockholm.py ...................................... [ 33%]
326s .....................................                                    [ 34%]
326s io/format/tests/test_taxdump.py ......                                   [ 35%]
326s io/tests/test_iosources.py ..........                                    [ 35%]
326s io/tests/test_registry.py .............................................. [ 37%]
326s ................................................                         [ 38%]
329s io/tests/test_util.py .........................................sssssssss [ 40%]
333s sssssssssssssssssssss................................................... [ 43%]
339s ........................................................................ [ 45%]
341s ..........................                                               [ 46%]
341s metadata/tests/test_enan.py ...                                          [ 46%]
343s metadata/tests/test_intersection.py ...............                      [ 47%]
343s metadata/tests/test_interval.py ........................................ [ 48%]
343s ...............................                                          [ 49%]
344s metadata/tests/test_io.py .............................................. [ 51%]
345s ............................................................             [ 53%]
345s metadata/tests/test_metadata.py ........................................ [ 55%]
345s ....................                                                     [ 55%]
345s metadata/tests/test_metadata_column.py ................................. [ 57%]
345s ........................................                                 [ 58%]
345s metadata/tests/test_missing.py ................                          [ 59%]
345s metadata/tests/test_mixin.py ........................................... [ 60%]
345s .......................................................                  [ 62%]
345s sequence/tests/test_alphabet.py .....                                    [ 62%]
345s sequence/tests/test_distance.py ..........................               [ 63%]
345s sequence/tests/test_dna.py ...                                           [ 63%]
345s sequence/tests/test_genetic_code.py ..........................           [ 64%]
345s sequence/tests/test_grammared_sequence.py .............................. [ 65%]
345s ...................                                                      [ 66%]
345s sequence/tests/test_nucleotide_sequences.py ............................ [ 67%]
345s .                                                                        [ 67%]
345s sequence/tests/test_protein.py ...........                               [ 67%]
345s sequence/tests/test_rna.py ...                                           [ 68%]
345s sequence/tests/test_sequence.py ........................................ [ 69%]
345s ........................................................................ [ 72%]
346s ........................................................................ [ 74%]
346s ........................................................................ [ 77%]
346s .......                                                                  [ 77%]
346s sequence/tests/test_substitution.py ........                             [ 77%]
346s stats/distance/tests/test_anosim.py ....                                 [ 77%]
346s stats/distance/tests/test_base.py ...................................... [ 79%]
346s ..........................................................               [ 81%]
361s stats/distance/tests/test_bioenv.py .................                    [ 81%]
364s stats/distance/tests/test_mantel.py .................................... [ 83%]
364s ........                                                                 [ 83%]
364s stats/distance/tests/test_permanova.py .....                             [ 83%]
377s stats/distance/tests/test_permdisp.py ..............                     [ 84%]
377s stats/evolve/tests/test_hommola.py ............                          [ 84%]
378s stats/ordination/tests/test_canonical_correspondence_analysis.py ......  [ 84%]
379s stats/ordination/tests/test_correspondence_analysis.py ........          [ 85%]
379s stats/ordination/tests/test_ordination_results.py .............          [ 85%]
379s stats/ordination/tests/test_principal_coordinate_analysis.py ........... [ 86%]
379s .                                                                        [ 86%]
379s stats/ordination/tests/test_redundancy_analysis.py ....                  [ 86%]
379s stats/ordination/tests/test_util.py ..........                           [ 86%]
380s stats/tests/test_composition.py ........................................ [ 87%]
400s ..........................................                               [ 89%]
400s stats/tests/test_gradient.py ..........................                  [ 90%]
400s stats/tests/test_misc.py ...                                             [ 90%]
402s stats/tests/test_power.py ...........................................    [ 92%]
403s stats/tests/test_subsample.py ............                               [ 92%]
403s table/tests/test_base.py .                                               [ 92%]
403s tests/test_base.py .....                                                 [ 92%]
403s tests/test_workflow.py .................                                 [ 93%]
403s tree/tests/test_majority_rule.py ......                                  [ 93%]
404s tree/tests/test_nj.py ............................                       [ 94%]
404s tree/tests/test_tree.py ................................................ [ 96%]
404s ........................................................                 [ 98%]
404s util/tests/test_decorator.py ........                                    [ 98%]
404s util/tests/test_misc.py ....................                             [ 99%]
404s util/tests/test_plotting.py ......                                       [ 99%]
405s util/tests/test_testing.py ...............                               [100%]
405s 
405s =============================== warnings summary ===============================
405s alignment/tests/test_pairwise.py::PairwiseAlignmentTests::test_compute_score_and_traceback_matrices
405s   /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.
405s     warn(
405s 
405s alignment/tests/test_ssw.py::TestAlignStripedSmithWaterman::test_invalid_type
405s   /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.
405s     warn(
405s 
405s alignment/tests/test_tabular_msa.py::TestGapFrequencies::test_no_positions_relative
405s   /usr/lib/python3/dist-packages/skbio/alignment/_tabular_msa.py:1648: RuntimeWarning: invalid value encountered in divide
405s     gap_freqs /= length
405s 
405s diversity/tests/test_block.py::ParallelBetaDiversity::test_block_beta_diversity
405s   /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.
405s     warn(
405s 
405s metadata/tests/test_io.py: 10 warnings
405s   /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)`
405s     series = series.replace("", np.nan)
405s 
405s metadata/tests/test_io.py::TestSave::test_numeric_metadata_column_insdc_missing
405s metadata/tests/test_metadata_column.py::TestToSeries::test_encode_missing_true
405s metadata/tests/test_metadata_column.py::TestToDataframe::test_encode_missing_true
405s   /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.
405s     series[missing.index] = missing
405s 
405s metadata/tests/test_missing.py::TestISNDC::test_roundtrip_all_missing_object
405s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_all_missing_object
405s   /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.
405s     pdt.assert_series_equal(missing, series.astype(object))
405s 
405s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_bool
405s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_string
405s   /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.
405s     pdt.assert_series_equal(missing, series[1:].astype(object))
405s 
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates
405s   /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:639: DeprecationWarning: has_nondegenerates is deprecated as of 0.5.0
405s     warn("has_nondegenerates is deprecated as of 0.5.0", DeprecationWarning)
405s 
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars
405s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars
405s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars
405s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars
405s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars
405s sequence/tests/test_protein.py::TestProtein::test_nondegenerate_chars
405s sequence/tests/test_protein.py::TestProtein::test_nondegenerate_chars
405s   /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:313: DeprecationWarning: nondegenerate_chars is deprecated as of 0.5.0
405s     warn("nondegenerate_chars is deprecated as of 0.5.0", DeprecationWarning)
405s 
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates
405s   /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:572: DeprecationWarning: nondenengerates is deprecated as of 0.5.0.
405s     warn("nondenengerates is deprecated as of 0.5.0.", DeprecationWarning)
405s 
405s sequence/tests/test_sequence.py::TestSequence::test_frequencies_empty_sequence
405s   /usr/lib/python3/dist-packages/skbio/sequence/_sequence.py:1824: RuntimeWarning: invalid value encountered in divide
405s     obs_counts = obs_counts / len(self)
405s 
405s stats/distance/tests/test_mantel.py::MantelTests::test_no_variation_pearson
405s   /usr/lib/python3/dist-packages/skbio/stats/distance/_mantel.py:364: ConstantInputWarning: All values in data are exactly equal; results may not be reliable.
405s     warnings.warn(ConstantInputWarning())
405s 
405s stats/distance/tests/test_mantel.py::MantelTests::test_no_variation_spearman
405s   /usr/lib/python3/dist-packages/skbio/stats/distance/_mantel.py:483: ConstantInputWarning: All values in data are exactly equal; results may not be reliable.
405s     warnings.warn(ConstantInputWarning())
405s 
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_call_via_series
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_call_via_series
405s   /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 -0.00657367754955049 and the largest is 0.17668321589384078.
405s     warn(
405s 
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_eq_groups
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_no_permuations
405s   /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 -13.541846544269621 and the largest is 16.587201374785895.
405s     warn(
405s 
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_mixedgroups
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_uneq_groups
405s   /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 -15.629533932395201 and the largest is 20.903154277938906.
405s     warn(
405s 
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_null
405s   /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:190: RuntimeWarning: invalid value encountered in divide
405s     proportion_explained = eigvals / sum_eigenvalues
405s 
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_null
405s   /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
405s     res = hypotest_fun_out(*samples, axis=axis, **kwds)
405s 
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_confirm_betadispr_results
405s stats/distance/tests/test_permdisp.py::testPERMDISP::test_confirm_betadispr_results
405s   /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 -0.007758325147780542 and the largest is 2.7077929489469237.
405s     warn(
405s 
405s stats/ordination/tests/test_redundancy_analysis.py::TestRDAErrors::test_shape
405s   /usr/lib/python3.12/unittest/case.py:690: DeprecationWarning: It is deprecated to return a value that is not None from a test case (<bound method TestRDAErrors.test_shape of <skbio.stats.ordination.tests.test_redundancy_analysis.TestRDAErrors testMethod=test_shape>>)
405s     return self.run(*args, **kwds)
405s 
405s stats/tests/test_composition.py::CompositionTests::test_multiplicative_replacement
405s   /usr/lib/python3/dist-packages/skbio/util/_warning.py:60: UserWarning: multiplicative_replacement is deprecated as of 0.6.0.
405s     warn(f"{func.__name__} is deprecated as of {ver}.")
405s 
405s stats/tests/test_composition.py::AncomTests::test_ancom_alternative_test
405s   /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.
405s     res = hypotest_fun_out(*samples, **kwds)
405s 
405s stats/tests/test_composition.py::AncomTests::test_ancom_multiple_comparisons_deprecated
405s   /usr/lib/python3/dist-packages/skbio/util/_warning.py:60: UserWarning: ancom is deprecated as of 0.6.0.
405s     warn(f"{func.__name__} is deprecated as of {ver}.")
405s 
405s stats/tests/test_composition.py::AncomTests::test_ancom_no_signal
405s   /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
405s     res = hypotest_fun_out(*samples, **kwds)
405s 
405s stats/tests/test_composition.py::VLRTests::test_pairwise_vlr
405s   /usr/lib/python3/dist-packages/skbio/stats/composition.py:947: RuntimeWarning: divide by zero encountered in log
405s     X_log = np.log(mat)
405s 
405s stats/tests/test_composition.py::VLRTests::test_pairwise_vlr
405s   /usr/lib/python3/dist-packages/numpy/lib/function_base.py:2742: RuntimeWarning: invalid value encountered in subtract
405s     X -= avg[:, None]
405s 
405s stats/tests/test_composition.py::VLRTests::test_vlr
405s   /usr/lib/python3/dist-packages/skbio/stats/composition.py:831: RuntimeWarning: divide by zero encountered in log
405s     x = np.log(x)
405s 
405s stats/tests/test_composition.py::VLRTests::test_vlr
405s   /usr/lib/python3/dist-packages/numpy/core/_methods.py:173: RuntimeWarning: invalid value encountered in subtract
405s     x = asanyarray(arr - arrmean)
405s 
405s stats/tests/test_gradient.py::GradientTests::test_weight_by_vector
405s   /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.
405s     trajectories.loc[idx] = (
405s 
405s tree/tests/test_tree.py::TreeTests::test_root_at
405s   /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`.
405s     warn(
405s 
405s tree/tests/test_tree.py::TreeTests::test_root_at
405s   /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`.
405s     warn(
405s 
405s tree/tests/test_tree.py::TreeTests::test_root_at_midpoint
405s   /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`.
405s     warn(
405s 
405s tree/tests/test_tree.py::TreeTests::test_unrooted_deepcopy
405s   /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: unrooted_deepcopy is deprecated as of 0.6.2. Use unrooted_copy instead.
405s     warn(
405s 
405s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
405s ========== 2763 passed, 30 skipped, 70 warnings in 112.29s (0:01:52) ===========
405s pybuild-autopkgtest: error: pybuild --autopkgtest --test-pytest -i python{version} -p "3.13 3.12" returned exit code 13
405s make: *** [/tmp/YKnVarWOGq/run:4: pybuild-autopkgtest] Error 25
405s pybuild-autopkgtest: error: /tmp/YKnVarWOGq/run pybuild-autopkgtest returned exit code 2
406s autopkgtest [11:02:15]: test pybuild-autopkgtest: -----------------------]
407s autopkgtest [11:02:16]: test pybuild-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
407s pybuild-autopkgtest  FAIL non-zero exit status 25
410s autopkgtest [11:02:19]: @@@@@@@@@@@@@@@@@@@@ summary
410s pybuild-autopkgtest  FAIL non-zero exit status 25
442s nova [W] Skipping flock in bos03-arm64
442s Creating nova instance adt-plucky-arm64-python-skbio-20241113-105522-juju-7f2275-prod-proposed-migration-environment-15-65164092-10fe-4568-9b9f-8f7e0f337aec from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)...