0s autopkgtest [13:40:17]: starting date and time: 2025-03-15 13:40:17+0000 0s autopkgtest [13:40:17]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [13:40:17]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.rl8tieog/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade python-pybedtools --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-36.secgroup --name adt-plucky-arm64-python-pybedtools-20250315-134017-juju-7f2275-prod-proposed-migration-environment-2-3c272081-198b-4861-805b-8162128e5a43 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 194s autopkgtest [13:43:31]: testbed dpkg architecture: arm64 194s autopkgtest [13:43:31]: testbed apt version: 2.9.33 194s autopkgtest [13:43:31]: @@@@@@@@@@@@@@@@@@@@ test bed setup 195s autopkgtest [13:43:32]: testbed release detected to be: None 195s autopkgtest [13:43:32]: updating testbed package index (apt update) 196s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 196s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 196s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 196s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 196s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [404 kB] 197s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [101 kB] 197s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 197s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [78.2 kB] 197s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1976 B] 197s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B] 197s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [346 kB] 197s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [15.8 kB] 197s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [4948 B] 197s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 c-n-f Metadata [572 B] 198s Fetched 1094 kB in 2s (585 kB/s) 198s Reading package lists... 199s Reading package lists... 199s Building dependency tree... 199s Reading state information... 200s Calculating upgrade... 200s Calculating upgrade... 200s The following packages will be upgraded: 200s python3-jinja2 strace 201s 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 201s Need to get 608 kB of archives. 201s After this operation, 11.3 kB of additional disk space will be used. 201s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB] 201s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 202s Fetched 608 kB in 1s (622 kB/s) 202s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 117701 files and directories currently installed.) 202s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ... 202s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 202s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 202s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 202s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 203s Setting up strace (6.13+ds-1ubuntu1) ... 203s Processing triggers for man-db (2.13.0-1) ... 204s Reading package lists... 204s Building dependency tree... 204s Reading state information... 204s Solving dependencies... 205s The following packages will be REMOVED: 205s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 205s libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 205s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 205s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* 205s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded. 205s After this operation, 267 MB disk space will be freed. 205s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 117701 files and directories currently installed.) 205s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 205s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 205s Removing libpython3.12t64:arm64 (3.12.9-1) ... 205s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ... 205s Removing libnsl2:arm64 (1.3.0-3build3) ... 205s Removing libpython3.12-minimal:arm64 (3.12.9-1) ... 205s Removing libunwind8:arm64 (1.6.2-3.1) ... 205s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 206s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 207s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 208s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 208s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 208s /etc/kernel/postrm.d/initramfs-tools: 208s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 208s /etc/kernel/postrm.d/zz-flash-kernel: 208s flash-kernel: Kernel 6.11.0-8-generic has been removed. 208s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required. 208s /etc/kernel/postrm.d/zz-update-grub: 208s Sourcing file `/etc/default/grub' 208s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 208s Generating grub configuration file ... 208s Found linux image: /boot/vmlinuz-6.14.0-10-generic 208s Found initrd image: /boot/initrd.img-6.14.0-10-generic 209s Warning: os-prober will not be executed to detect other bootable partitions. 209s Systems on them will not be added to the GRUB boot configuration. 209s Check GRUB_DISABLE_OS_PROBER documentation entry. 209s Adding boot menu entry for UEFI Firmware Settings ... 209s done 209s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 209s Processing triggers for libc-bin (2.41-1ubuntu1) ... 209s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81650 files and directories currently installed.) 209s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 209s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ... 209s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 209s autopkgtest [13:43:46]: upgrading testbed (apt dist-upgrade and autopurge) 210s Reading package lists... 210s Building dependency tree... 210s Reading state information... 210s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 210s Starting 2 pkgProblemResolver with broken count: 0 210s Done 211s Entering ResolveByKeep 211s 212s Calculating upgrade... 212s The following packages will be upgraded: 212s libc-bin libc-dev-bin libc6 libc6-dev locales 212s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 212s Need to get 9530 kB of archives. 212s After this operation, 0 B of additional disk space will be used. 212s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB] 214s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB] 214s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB] 218s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB] 219s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB] 224s Preconfiguring packages ... 225s Fetched 9530 kB in 12s (816 kB/s) 225s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81647 files and directories currently installed.) 225s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ... 225s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 225s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ... 225s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 225s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ... 225s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 225s Setting up libc6:arm64 (2.41-1ubuntu2) ... 226s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81647 files and directories currently installed.) 226s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.deb ... 226s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 226s Setting up libc-bin (2.41-1ubuntu2) ... 226s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81647 files and directories currently installed.) 226s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 226s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 226s Setting up locales (2.41-1ubuntu2) ... 227s Generating locales (this might take a while)... 229s en_US.UTF-8... done 229s Generation complete. 229s Setting up libc-dev-bin (2.41-1ubuntu2) ... 229s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ... 229s Processing triggers for man-db (2.13.0-1) ... 230s Processing triggers for systemd (257.3-1ubuntu3) ... 231s Reading package lists... 231s Building dependency tree... 231s Reading state information... 231s Starting pkgProblemResolver with broken count: 0 232s Starting 2 pkgProblemResolver with broken count: 0 232s Done 232s Solving dependencies... 232s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 233s autopkgtest [13:44:10]: rebooting testbed after setup commands that affected boot 256s autopkgtest [13:44:33]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025 258s autopkgtest [13:44:35]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pybedtools 276s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pybedtools 0.10.0-4build1 (dsc) [2623 B] 276s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pybedtools 0.10.0-4build1 (tar) [12.0 MB] 276s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pybedtools 0.10.0-4build1 (diff) [33.5 kB] 276s gpgv: Signature made Tue Mar 4 16:16:18 2025 UTC 276s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 276s gpgv: Can't check signature: No public key 276s dpkg-source: warning: cannot verify inline signature for ./python-pybedtools_0.10.0-4build1.dsc: no acceptable signature found 276s autopkgtest [13:44:53]: testing package python-pybedtools version 0.10.0-4build1 277s autopkgtest [13:44:54]: build not needed 278s autopkgtest [13:44:55]: test pybuild-autopkgtest: preparing testbed 278s Reading package lists... 279s Building dependency tree... 279s Reading state information... 279s Starting pkgProblemResolver with broken count: 0 279s Starting 2 pkgProblemResolver with broken count: 0 279s Done 280s The following NEW packages will be installed: 280s autoconf automake autopoint autotools-dev bedtools blt build-essential cpp 280s cpp-14 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu cython3 debhelper 280s debugedit dh-autoreconf dh-python dh-strip-nondeterminism docutils-common 280s dwz fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 280s fonts-lyx g++ g++-14 g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc 280s gcc-14 gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu gettext 280s intltool-debian libarchive-zip-perl libasan8 libblas3 libcairo2 libcc1-0 280s libdatrie1 libdebhelper-perl libdeflate0 libexpat1-dev 280s libfile-stripnondeterminism-perl libfontconfig1 libgcc-14-dev libgfortran5 280s libgomp1 libgraphite2-3 libharfbuzz0b libhts3t64 libhtscodecs2 libhwasan0 280s libice6 libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 280s libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjson-perl 280s liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 libmpc3 libopenjp2-7 280s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 280s libpaper2 libpixman-1-0 libpython3-all-dev libpython3-dev libpython3.13-dev 280s libqhull-r8.0 libraqm0 libsharpyuv0 libsm6 libstdc++-14-dev libtcl8.6 280s libthai-data libthai0 libtiff6 libtk8.6 libtool libtsan2 libubsan1 libwebp7 280s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 280s libxslt1.1 libxss1 libxt6t64 m4 po-debconf pybedtools-bin 280s pybuild-plugin-autopkgtest pybuild-plugin-pyproject python-matplotlib-data 280s python-pybedtools-doc python3-alabaster python3-all python3-all-dev 280s python3-brotli python3-build python3-contourpy python3-cycler 280s python3-dateutil python3-decorator python3-defusedxml python3-dev 280s python3-docutils python3-fonttools python3-fs python3-imagesize 280s python3-iniconfig python3-installer python3-kiwisolver python3-lxml 280s python3-lz4 python3-matplotlib python3-mpmath python3-numpy 280s python3-numpy-dev python3-numpydoc python3-packaging python3-pandas 280s python3-pandas-lib python3-pil python3-pil.imagetk python3-platformdirs 280s python3-pluggy python3-psutil python3-pybedtools python3-pyproject-hooks 280s python3-pysam python3-pytest python3-pytz python3-roman python3-scipy 280s python3-snowballstemmer python3-sphinx python3-sympy python3-tabulate 280s python3-tk python3-toml python3-tz python3-ufolib2 python3-wheel 280s python3.12-tk python3.13-dev python3.13-tk r-base-core sgml-base 280s sphinx-common tk8.6-blt2.5 unicode-data unzip x11-common xdg-utils xml-core 280s zip zlib1g-dev 280s 0 upgraded, 174 newly installed, 0 to remove and 0 not upgraded. 280s Need to get 201 MB of archives. 280s After this operation, 707 MB of additional disk space will be used. 280s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy-dev arm64 1:2.2.3+ds-5 [146 kB] 281s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.1-2 [161 kB] 281s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 15-20250222-0ubuntu1 [444 kB] 281s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB] 284s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:2.2.3+ds-5 [3981 kB] 289s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 sgml-base all 1.31 [11.4 kB] 289s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 m4 arm64 1.4.19-7 [244 kB] 289s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 autoconf all 2.72-3ubuntu1 [383 kB] 290s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 autotools-dev all 20220109.1 [44.9 kB] 290s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 automake all 1:1.17-3ubuntu1 [572 kB] 290s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 autopoint all 0.23.1-1 [619 kB] 291s Get:12 http://ftpmaster.internal/ubuntu plucky/universe arm64 bedtools arm64 2.31.1+dfsg-2 [636 kB] 292s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [987 kB] 293s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB] 293s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB] 294s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-2ubuntu1 [37.5 kB] 294s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-2ubuntu1 [144 kB] 294s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB] 294s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB] 295s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 295s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B] 295s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.16-1 [776 kB] 296s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-8 [624 kB] 296s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 blt arm64 2.5.3+dfsg-8 [4824 B] 296s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 libisl23 arm64 0.27-1 [676 kB] 297s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libmpc3 arm64 1.3.1-1build2 [56.8 kB] 297s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [10.6 MB] 309s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14 arm64 14.2.0-17ubuntu3 [1028 B] 309s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [5558 B] 309s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp arm64 4:14.2.0-1ubuntu1 [22.4 kB] 309s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libcc1-0 arm64 15-20250222-0ubuntu1 [44.2 kB] 309s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 15-20250222-0ubuntu1 [146 kB] 309s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libitm1 arm64 15-20250222-0ubuntu1 [28.0 kB] 309s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libasan8 arm64 15-20250222-0ubuntu1 [2924 kB] 312s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 liblsan0 arm64 15-20250222-0ubuntu1 [1319 kB] 313s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libtsan2 arm64 15-20250222-0ubuntu1 [2694 kB] 317s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libubsan1 arm64 15-20250222-0ubuntu1 [1178 kB] 318s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libhwasan0 arm64 15-20250222-0ubuntu1 [1642 kB] 320s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 libgcc-14-dev arm64 14.2.0-17ubuntu3 [2593 kB] 322s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [20.9 MB] 343s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14 arm64 14.2.0-17ubuntu3 [526 kB] 344s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [1200 B] 344s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc arm64 4:14.2.0-1ubuntu1 [4998 B] 344s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libstdc++-14-dev arm64 14.2.0-17ubuntu3 [2499 kB] 347s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [12.1 MB] 359s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14 arm64 14.2.0-17ubuntu3 [21.8 kB] 359s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [956 B] 359s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 g++ arm64 4:14.2.0-1ubuntu1 [1080 B] 359s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 build-essential arm64 12.10ubuntu1 [4932 B] 359s Get:50 http://ftpmaster.internal/ubuntu plucky/universe arm64 cython3 arm64 3.0.11+dfsg-2ubuntu2 [2436 kB] 361s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 libdebhelper-perl all 13.24.1ubuntu2 [95.4 kB] 361s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 libtool all 2.5.4-4 [168 kB] 362s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 dh-autoreconf all 20 [16.1 kB] 362s Get:54 http://ftpmaster.internal/ubuntu plucky/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] 362s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [20.3 kB] 362s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 dh-strip-nondeterminism all 1.14.1-2 [5064 B] 362s Get:57 http://ftpmaster.internal/ubuntu plucky/main arm64 debugedit arm64 1:5.1-2 [46.1 kB] 362s Get:58 http://ftpmaster.internal/ubuntu plucky/main arm64 dwz arm64 0.15-1build6 [113 kB] 362s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 gettext arm64 0.23.1-1 [998 kB] 363s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 363s Get:61 http://ftpmaster.internal/ubuntu plucky/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] 363s Get:62 http://ftpmaster.internal/ubuntu plucky/main arm64 debhelper all 13.24.1ubuntu2 [895 kB] 364s Get:63 http://ftpmaster.internal/ubuntu plucky/universe arm64 dh-python all 6.20250308 [118 kB] 364s Get:64 http://ftpmaster.internal/ubuntu plucky/main arm64 xml-core all 0.19 [20.3 kB] 364s Get:65 http://ftpmaster.internal/ubuntu plucky/main arm64 docutils-common all 0.21.2+dfsg-2 [131 kB] 364s Get:66 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig arm64 2.15.0-2ubuntu1 [191 kB] 364s Get:67 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-lyx all 2.4.3-1 [171 kB] 365s Get:68 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB] 365s Get:69 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB] 365s Get:70 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B] 365s Get:71 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB] 365s Get:72 http://ftpmaster.internal/ubuntu plucky/main arm64 libdatrie1 arm64 0.2.13-3build1 [19.2 kB] 365s Get:73 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.23-1 [46.2 kB] 365s Get:74 http://ftpmaster.internal/ubuntu plucky/main arm64 libexpat1-dev arm64 2.6.4-1 [129 kB] 366s Get:75 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB] 366s Get:76 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.2.0-1 [490 kB] 366s Get:77 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhtscodecs2 arm64 1.6.1-2 [82.7 kB] 366s Get:78 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhts3t64 arm64 1.21+ds-1 [441 kB] 367s Get:79 http://ftpmaster.internal/ubuntu plucky/main arm64 libice6 arm64 2:1.1.1-1 [42.3 kB] 367s Get:80 http://ftpmaster.internal/ubuntu plucky/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB] 367s Get:81 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB] 367s Get:82 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 367s Get:83 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 367s Get:84 http://ftpmaster.internal/ubuntu plucky/universe arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 368s Get:85 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 368s Get:86 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-sphinxdoc all 8.1.3-4 [30.9 kB] 368s Get:87 http://ftpmaster.internal/ubuntu plucky/main arm64 libjson-perl all 4.10000-1 [81.9 kB] 368s Get:88 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB] 368s Get:89 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB] 368s Get:90 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB] 368s Get:91 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai-data all 0.1.29-2build1 [158 kB] 368s Get:92 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai0 arm64 0.1.29-2build1 [18.2 kB] 368s Get:93 http://ftpmaster.internal/ubuntu plucky/main arm64 libpango-1.0-0 arm64 1.56.2-1 [237 kB] 368s Get:94 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangoft2-1.0-0 arm64 1.56.2-1 [49.5 kB] 368s Get:95 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangocairo-1.0-0 arm64 1.56.2-1 [27.6 kB] 369s Get:96 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper2 arm64 2.2.5-0.3 [17.3 kB] 369s Get:97 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper-utils arm64 2.2.5-0.3 [15.4 kB] 369s Get:98 http://ftpmaster.internal/ubuntu plucky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1ubuntu1 [894 kB] 369s Get:99 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-dev arm64 3.13.2-2 [5399 kB] 375s Get:100 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3-dev arm64 3.13.2-2 [10.7 kB] 375s Get:101 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3-all-dev arm64 3.13.2-2 [910 B] 375s Get:102 http://ftpmaster.internal/ubuntu plucky/universe arm64 libqhull-r8.0 arm64 2020.2-6build1 [189 kB] 375s Get:103 http://ftpmaster.internal/ubuntu plucky/main arm64 libraqm0 arm64 0.10.2-1 [14.9 kB] 375s Get:104 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [16.9 kB] 375s Get:105 http://ftpmaster.internal/ubuntu plucky/main arm64 libsm6 arm64 2:1.2.4-1 [16.4 kB] 375s Get:106 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB] 375s Get:107 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.5.0-0.1 [194 kB] 376s Get:108 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB] 376s Get:109 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [12.5 kB] 376s Get:110 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpmux3 arm64 1.5.0-0.1 [25.4 kB] 376s Get:111 http://ftpmaster.internal/ubuntu plucky/main arm64 libxslt1.1 arm64 1.1.39-0exp1ubuntu2 [168 kB] 376s Get:112 http://ftpmaster.internal/ubuntu plucky/main arm64 libxt6t64 arm64 1:1.2.1-1.2build1 [168 kB] 376s Get:113 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pysam arm64 0.23.0+ds-1build1 [3621 kB] 380s Get:114 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pybedtools arm64 0.10.0-4build1 [12.2 MB] 391s Get:115 http://ftpmaster.internal/ubuntu plucky/universe arm64 pybedtools-bin all 0.10.0-4build1 [3226 B] 391s Get:116 http://ftpmaster.internal/ubuntu plucky/universe arm64 pybuild-plugin-autopkgtest all 6.20250308 [1744 B] 391s Get:117 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.2-1 [51.5 kB] 391s Get:118 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyproject-hooks all 1.2.0-1 [10.2 kB] 391s Get:119 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-toml all 0.10.2-1 [16.5 kB] 391s Get:120 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-wheel all 0.45.1-1 [57.7 kB] 391s Get:121 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-build all 1.2.2-1 [31.0 kB] 391s Get:122 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-installer all 0.7.0+dfsg1-3 [17.4 kB] 391s Get:123 http://ftpmaster.internal/ubuntu plucky/universe arm64 pybuild-plugin-pyproject all 6.20250308 [1726 B] 391s Get:124 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-matplotlib-data all 3.8.3-7build1 [2934 kB] 394s Get:125 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-pybedtools-doc all 0.10.0-4build1 [269 kB] 394s Get:126 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-all arm64 3.13.2-2 [886 B] 394s Get:127 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-dev arm64 3.13.2-2 [509 kB] 394s Get:128 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-dev arm64 3.13.2-2 [26.7 kB] 394s Get:129 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-all-dev arm64 3.13.2-2 [914 B] 394s Get:130 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-brotli arm64 1.1.0-2build4 [342 kB] 395s Get:131 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-contourpy arm64 1.3.1-1build1 [182 kB] 395s Get:132 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cycler all 0.12.1-1 [9716 B] 395s Get:133 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-dateutil all 2.9.0-3 [80.2 kB] 395s Get:134 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB] 395s Get:135 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-defusedxml all 0.7.1-3 [42.2 kB] 395s Get:136 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-roman all 5.0-1 [10.3 kB] 395s Get:137 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-docutils all 0.21.2+dfsg-2 [409 kB] 395s Get:138 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-platformdirs all 4.3.6-1 [16.8 kB] 395s Get:139 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fs all 2.4.16-7 [90.8 kB] 396s Get:140 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-lxml arm64 5.3.1-1build1 [1258 kB] 397s Get:141 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-lz4 arm64 4.4.0+dfsg-1build1 [27.1 kB] 397s Get:142 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.14.1-4ubuntu2 [16.7 MB] 412s Get:143 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-mpmath all 1.3.0-1 [425 kB] 412s Get:144 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sympy all 1.13.3-5 [4229 kB] 416s Get:145 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-ufolib2 all 0.17.0+dfsg1-1 [33.5 kB] 416s Get:146 http://ftpmaster.internal/ubuntu plucky/universe arm64 unicode-data all 15.1.0-1 [8878 kB] 424s Get:147 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-fonttools arm64 4.55.3-2build1 [1466 kB] 426s Get:148 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-imagesize all 1.4.1-1 [6844 B] 426s Get:149 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 426s Get:150 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-kiwisolver arm64 1.4.7-3build1 [50.7 kB] 426s Get:151 http://ftpmaster.internal/ubuntu plucky/main arm64 libopenjp2-7 arm64 2.5.3-2 [183 kB] 426s Get:152 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pil arm64 11.1.0-5build1 [463 kB] 426s Get:153 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-tk arm64 3.12.9-1 [115 kB] 426s Get:154 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-tk arm64 3.13.2-2 [106 kB] 426s Get:155 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tk arm64 3.13.1-1 [9770 B] 426s Get:156 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pil.imagetk arm64 11.1.0-5build1 [9892 B] 426s Get:157 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-matplotlib arm64 3.8.3-7build1 [17.3 MB] 444s Get:158 http://ftpmaster.internal/ubuntu plucky/main arm64 sphinx-common all 8.1.3-4 [663 kB] 444s Get:159 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-alabaster all 0.7.16-0.1 [18.5 kB] 444s Get:160 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-snowballstemmer all 2.2.0-4build1 [59.8 kB] 444s Get:161 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-sphinx all 8.1.3-4 [474 kB] 445s Get:162 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tabulate all 0.9.0-1 [45.3 kB] 445s Get:163 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-numpydoc all 1.8.0-1 [52.4 kB] 445s Get:164 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pytz all 2025.1-3 [162 kB] 445s Get:165 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-tz all 2025.1-3 [1866 B] 445s Get:166 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas-lib arm64 2.2.3+dfsg-8build1 [4586 kB] 450s Get:167 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pandas all 2.2.3+dfsg-8build1 [3112 kB] 453s Get:168 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 453s Get:169 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-psutil arm64 5.9.8-2build3 [196 kB] 453s Get:170 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.5-1 [252 kB] 453s Get:171 http://ftpmaster.internal/ubuntu plucky/main arm64 zip arm64 3.0-14ubuntu2 [173 kB] 454s Get:172 http://ftpmaster.internal/ubuntu plucky/main arm64 unzip arm64 6.0-28ubuntu6 [178 kB] 454s Get:173 http://ftpmaster.internal/ubuntu plucky/main arm64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 454s Get:174 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-base-core arm64 4.4.3-1 [28.4 MB] 485s Preconfiguring packages ... 485s Fetched 201 MB in 3min 25s (983 kB/s) 485s Selecting previously unselected package python3-numpy-dev:arm64. 486s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81647 files and directories currently installed.) 486s Preparing to unpack .../000-python3-numpy-dev_1%3a2.2.3+ds-5_arm64.deb ... 486s Unpacking python3-numpy-dev:arm64 (1:2.2.3+ds-5) ... 486s Selecting previously unselected package libblas3:arm64. 486s Preparing to unpack .../001-libblas3_3.12.1-2_arm64.deb ... 486s Unpacking libblas3:arm64 (3.12.1-2) ... 486s Selecting previously unselected package libgfortran5:arm64. 486s Preparing to unpack .../002-libgfortran5_15-20250222-0ubuntu1_arm64.deb ... 486s Unpacking libgfortran5:arm64 (15-20250222-0ubuntu1) ... 486s Selecting previously unselected package liblapack3:arm64. 486s Preparing to unpack .../003-liblapack3_3.12.1-2_arm64.deb ... 486s Unpacking liblapack3:arm64 (3.12.1-2) ... 486s Selecting previously unselected package python3-numpy. 486s Preparing to unpack .../004-python3-numpy_1%3a2.2.3+ds-5_arm64.deb ... 486s Unpacking python3-numpy (1:2.2.3+ds-5) ... 486s Selecting previously unselected package sgml-base. 486s Preparing to unpack .../005-sgml-base_1.31_all.deb ... 486s Unpacking sgml-base (1.31) ... 486s Selecting previously unselected package m4. 486s Preparing to unpack .../006-m4_1.4.19-7_arm64.deb ... 486s Unpacking m4 (1.4.19-7) ... 486s Selecting previously unselected package autoconf. 486s Preparing to unpack .../007-autoconf_2.72-3ubuntu1_all.deb ... 486s Unpacking autoconf (2.72-3ubuntu1) ... 486s Selecting previously unselected package autotools-dev. 486s Preparing to unpack .../008-autotools-dev_20220109.1_all.deb ... 486s Unpacking autotools-dev (20220109.1) ... 486s Selecting previously unselected package automake. 486s Preparing to unpack .../009-automake_1%3a1.17-3ubuntu1_all.deb ... 486s Unpacking automake (1:1.17-3ubuntu1) ... 486s Selecting previously unselected package autopoint. 486s Preparing to unpack .../010-autopoint_0.23.1-1_all.deb ... 486s Unpacking autopoint (0.23.1-1) ... 486s Selecting previously unselected package bedtools. 486s Preparing to unpack .../011-bedtools_2.31.1+dfsg-2_arm64.deb ... 486s Unpacking bedtools (2.31.1+dfsg-2) ... 486s Selecting previously unselected package libtcl8.6:arm64. 486s Preparing to unpack .../012-libtcl8.6_8.6.16+dfsg-1_arm64.deb ... 486s Unpacking libtcl8.6:arm64 (8.6.16+dfsg-1) ... 486s Selecting previously unselected package fonts-dejavu-mono. 486s Preparing to unpack .../013-fonts-dejavu-mono_2.37-8_all.deb ... 486s Unpacking fonts-dejavu-mono (2.37-8) ... 486s Selecting previously unselected package fonts-dejavu-core. 486s Preparing to unpack .../014-fonts-dejavu-core_2.37-8_all.deb ... 486s Unpacking fonts-dejavu-core (2.37-8) ... 486s Selecting previously unselected package fontconfig-config. 486s Preparing to unpack .../015-fontconfig-config_2.15.0-2ubuntu1_arm64.deb ... 487s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 487s Selecting previously unselected package libfontconfig1:arm64. 487s Preparing to unpack .../016-libfontconfig1_2.15.0-2ubuntu1_arm64.deb ... 487s Unpacking libfontconfig1:arm64 (2.15.0-2ubuntu1) ... 487s Selecting previously unselected package libxrender1:arm64. 487s Preparing to unpack .../017-libxrender1_1%3a0.9.10-1.1build1_arm64.deb ... 487s Unpacking libxrender1:arm64 (1:0.9.10-1.1build1) ... 487s Selecting previously unselected package libxft2:arm64. 487s Preparing to unpack .../018-libxft2_2.3.6-1build1_arm64.deb ... 487s Unpacking libxft2:arm64 (2.3.6-1build1) ... 487s Selecting previously unselected package x11-common. 487s Preparing to unpack .../019-x11-common_1%3a7.7+23ubuntu3_all.deb ... 487s Unpacking x11-common (1:7.7+23ubuntu3) ... 487s Selecting previously unselected package libxss1:arm64. 487s Preparing to unpack .../020-libxss1_1%3a1.2.3-1build3_arm64.deb ... 487s Unpacking libxss1:arm64 (1:1.2.3-1build3) ... 487s Selecting previously unselected package libtk8.6:arm64. 487s Preparing to unpack .../021-libtk8.6_8.6.16-1_arm64.deb ... 487s Unpacking libtk8.6:arm64 (8.6.16-1) ... 487s Selecting previously unselected package tk8.6-blt2.5. 487s Preparing to unpack .../022-tk8.6-blt2.5_2.5.3+dfsg-8_arm64.deb ... 487s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-8) ... 487s Selecting previously unselected package blt. 487s Preparing to unpack .../023-blt_2.5.3+dfsg-8_arm64.deb ... 487s Unpacking blt (2.5.3+dfsg-8) ... 487s Selecting previously unselected package libisl23:arm64. 487s Preparing to unpack .../024-libisl23_0.27-1_arm64.deb ... 487s Unpacking libisl23:arm64 (0.27-1) ... 487s Selecting previously unselected package libmpc3:arm64. 487s Preparing to unpack .../025-libmpc3_1.3.1-1build2_arm64.deb ... 487s Unpacking libmpc3:arm64 (1.3.1-1build2) ... 487s Selecting previously unselected package cpp-14-aarch64-linux-gnu. 487s Preparing to unpack .../026-cpp-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 487s Unpacking cpp-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 487s Selecting previously unselected package cpp-14. 487s Preparing to unpack .../027-cpp-14_14.2.0-17ubuntu3_arm64.deb ... 487s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 487s Selecting previously unselected package cpp-aarch64-linux-gnu. 487s Preparing to unpack .../028-cpp-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 487s Unpacking cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 487s Selecting previously unselected package cpp. 487s Preparing to unpack .../029-cpp_4%3a14.2.0-1ubuntu1_arm64.deb ... 487s Unpacking cpp (4:14.2.0-1ubuntu1) ... 487s Selecting previously unselected package libcc1-0:arm64. 487s Preparing to unpack .../030-libcc1-0_15-20250222-0ubuntu1_arm64.deb ... 487s Unpacking libcc1-0:arm64 (15-20250222-0ubuntu1) ... 487s Selecting previously unselected package libgomp1:arm64. 487s Preparing to unpack .../031-libgomp1_15-20250222-0ubuntu1_arm64.deb ... 487s Unpacking libgomp1:arm64 (15-20250222-0ubuntu1) ... 488s Selecting previously unselected package libitm1:arm64. 488s Preparing to unpack .../032-libitm1_15-20250222-0ubuntu1_arm64.deb ... 488s Unpacking libitm1:arm64 (15-20250222-0ubuntu1) ... 488s Selecting previously unselected package libasan8:arm64. 488s Preparing to unpack .../033-libasan8_15-20250222-0ubuntu1_arm64.deb ... 488s Unpacking libasan8:arm64 (15-20250222-0ubuntu1) ... 488s Selecting previously unselected package liblsan0:arm64. 488s Preparing to unpack .../034-liblsan0_15-20250222-0ubuntu1_arm64.deb ... 488s Unpacking liblsan0:arm64 (15-20250222-0ubuntu1) ... 488s Selecting previously unselected package libtsan2:arm64. 488s 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gcc-14. 488s Preparing to unpack .../040-gcc-14_14.2.0-17ubuntu3_arm64.deb ... 488s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 488s Selecting previously unselected package gcc-aarch64-linux-gnu. 489s Preparing to unpack .../041-gcc-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 489s Unpacking gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 489s Selecting previously unselected package gcc. 489s Preparing to unpack .../042-gcc_4%3a14.2.0-1ubuntu1_arm64.deb ... 489s Unpacking gcc (4:14.2.0-1ubuntu1) ... 489s Selecting previously unselected package libstdc++-14-dev:arm64. 489s Preparing to unpack .../043-libstdc++-14-dev_14.2.0-17ubuntu3_arm64.deb ... 489s Unpacking libstdc++-14-dev:arm64 (14.2.0-17ubuntu3) ... 489s Selecting previously unselected package g++-14-aarch64-linux-gnu. 489s Preparing to unpack .../044-g++-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 489s Unpacking g++-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 489s Selecting previously unselected package g++-14. 489s 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Selecting previously unselected package debugedit. 489s Preparing to unpack .../056-debugedit_1%3a5.1-2_arm64.deb ... 489s Unpacking debugedit (1:5.1-2) ... 490s Selecting previously unselected package dwz. 490s Preparing to unpack .../057-dwz_0.15-1build6_arm64.deb ... 490s Unpacking dwz (0.15-1build6) ... 490s Selecting previously unselected package gettext. 490s Preparing to unpack .../058-gettext_0.23.1-1_arm64.deb ... 490s Unpacking gettext (0.23.1-1) ... 490s Selecting previously unselected package intltool-debian. 490s Preparing to unpack .../059-intltool-debian_0.35.0+20060710.6_all.deb ... 490s Unpacking intltool-debian (0.35.0+20060710.6) ... 490s Selecting previously unselected package po-debconf. 490s Preparing to unpack .../060-po-debconf_1.0.21+nmu1_all.deb ... 490s Unpacking po-debconf (1.0.21+nmu1) ... 490s Selecting previously unselected package debhelper. 490s Preparing to unpack .../061-debhelper_13.24.1ubuntu2_all.deb ... 490s Unpacking debhelper (13.24.1ubuntu2) 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libpixman-1-0:arm64 (0.44.0-3) ... 490s Selecting previously unselected package libxcb-render0:arm64. 490s Preparing to unpack .../068-libxcb-render0_1.17.0-2_arm64.deb ... 490s Unpacking libxcb-render0:arm64 (1.17.0-2) ... 490s Selecting previously unselected package libxcb-shm0:arm64. 490s Preparing to unpack .../069-libxcb-shm0_1.17.0-2_arm64.deb ... 490s Unpacking libxcb-shm0:arm64 (1.17.0-2) ... 490s Selecting previously unselected package libcairo2:arm64. 490s Preparing to unpack .../070-libcairo2_1.18.2-2_arm64.deb ... 490s Unpacking libcairo2:arm64 (1.18.2-2) ... 490s Selecting previously unselected package libdatrie1:arm64. 490s Preparing to unpack .../071-libdatrie1_0.2.13-3build1_arm64.deb ... 490s Unpacking libdatrie1:arm64 (0.2.13-3build1) ... 490s Selecting previously unselected package libdeflate0:arm64. 490s Preparing to unpack .../072-libdeflate0_1.23-1_arm64.deb ... 490s Unpacking libdeflate0:arm64 (1.23-1) ... 490s Selecting previously unselected package 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491s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 491s Selecting previously unselected package libjs-underscore. 491s Preparing to unpack .../084-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 491s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 491s Selecting previously unselected package libjs-sphinxdoc. 491s Preparing to unpack .../085-libjs-sphinxdoc_8.1.3-4_all.deb ... 491s Unpacking libjs-sphinxdoc (8.1.3-4) ... 491s Selecting previously unselected package libjson-perl. 491s Preparing to unpack .../086-libjson-perl_4.10000-1_all.deb ... 491s Unpacking libjson-perl (4.10000-1) ... 491s Selecting previously unselected package liblbfgsb0:arm64. 491s Preparing to unpack .../087-liblbfgsb0_3.0+dfsg.4-1build1_arm64.deb ... 491s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 491s Selecting previously unselected package liblcms2-2:arm64. 491s Preparing to unpack .../088-liblcms2-2_2.16-2_arm64.deb ... 491s Unpacking liblcms2-2:arm64 (2.16-2) ... 491s Selecting previously unselected package liblerc4:arm64. 491s Preparing to unpack .../089-liblerc4_4.0.0+ds-5ubuntu1_arm64.deb ... 491s Unpacking liblerc4:arm64 (4.0.0+ds-5ubuntu1) ... 491s Selecting previously unselected package libthai-data. 491s Preparing to unpack .../090-libthai-data_0.1.29-2build1_all.deb ... 491s Unpacking libthai-data (0.1.29-2build1) ... 491s Selecting previously unselected package libthai0:arm64. 491s Preparing to unpack .../091-libthai0_0.1.29-2build1_arm64.deb ... 491s Unpacking libthai0:arm64 (0.1.29-2build1) ... 491s Selecting previously unselected package libpango-1.0-0:arm64. 491s Preparing to unpack .../092-libpango-1.0-0_1.56.2-1_arm64.deb ... 491s Unpacking libpango-1.0-0:arm64 (1.56.2-1) ... 491s Selecting previously unselected package libpangoft2-1.0-0:arm64. 491s Preparing to unpack .../093-libpangoft2-1.0-0_1.56.2-1_arm64.deb ... 491s Unpacking libpangoft2-1.0-0:arm64 (1.56.2-1) ... 491s Selecting previously unselected package libpangocairo-1.0-0:arm64. 491s Preparing to unpack .../094-libpangocairo-1.0-0_1.56.2-1_arm64.deb ... 491s Unpacking libpangocairo-1.0-0:arm64 (1.56.2-1) ... 491s Selecting previously unselected package libpaper2:arm64. 491s Preparing to unpack .../095-libpaper2_2.2.5-0.3_arm64.deb ... 491s Unpacking libpaper2:arm64 (2.2.5-0.3) ... 491s Selecting previously unselected package libpaper-utils. 491s Preparing to unpack .../096-libpaper-utils_2.2.5-0.3_arm64.deb ... 491s Unpacking libpaper-utils (2.2.5-0.3) ... 491s Selecting previously unselected package zlib1g-dev:arm64. 491s Preparing to unpack .../097-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_arm64.deb ... 491s Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 491s Selecting previously unselected package libpython3.13-dev:arm64. 491s Preparing to unpack .../098-libpython3.13-dev_3.13.2-2_arm64.deb ... 491s Unpacking libpython3.13-dev:arm64 (3.13.2-2) ... 491s Selecting previously unselected package libpython3-dev:arm64. 491s Preparing to unpack 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libsm6:arm64 (2:1.2.4-1) ... 492s Selecting previously unselected package libjbig0:arm64. 492s Preparing to unpack .../105-libjbig0_2.1-6.1ubuntu2_arm64.deb ... 492s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ... 492s Selecting previously unselected package libwebp7:arm64. 492s Preparing to unpack .../106-libwebp7_1.5.0-0.1_arm64.deb ... 492s Unpacking libwebp7:arm64 (1.5.0-0.1) ... 492s Selecting previously unselected package libtiff6:arm64. 492s Preparing to unpack .../107-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ... 492s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 492s Selecting previously unselected package libwebpdemux2:arm64. 492s Preparing to unpack .../108-libwebpdemux2_1.5.0-0.1_arm64.deb ... 492s Unpacking libwebpdemux2:arm64 (1.5.0-0.1) ... 492s Selecting previously unselected package libwebpmux3:arm64. 492s Preparing to unpack .../109-libwebpmux3_1.5.0-0.1_arm64.deb ... 492s Unpacking libwebpmux3:arm64 (1.5.0-0.1) ... 492s Selecting previously unselected package libxslt1.1:arm64. 492s Preparing to unpack .../110-libxslt1.1_1.1.39-0exp1ubuntu2_arm64.deb ... 492s Unpacking libxslt1.1:arm64 (1.1.39-0exp1ubuntu2) ... 492s Selecting previously unselected package libxt6t64:arm64. 492s Preparing to unpack .../111-libxt6t64_1%3a1.2.1-1.2build1_arm64.deb ... 492s Unpacking libxt6t64:arm64 (1:1.2.1-1.2build1) ... 492s Selecting previously unselected package python3-pysam. 492s Preparing to unpack .../112-python3-pysam_0.23.0+ds-1build1_arm64.deb ... 492s Unpacking python3-pysam (0.23.0+ds-1build1) ... 492s Selecting previously unselected package python3-pybedtools. 492s Preparing to unpack .../113-python3-pybedtools_0.10.0-4build1_arm64.deb ... 492s Unpacking python3-pybedtools (0.10.0-4build1) ... 492s Selecting previously unselected package pybedtools-bin. 492s Preparing to unpack .../114-pybedtools-bin_0.10.0-4build1_all.deb ... 492s Unpacking pybedtools-bin (0.10.0-4build1) ... 492s Selecting previously unselected package pybuild-plugin-autopkgtest. 492s Preparing to unpack .../115-pybuild-plugin-autopkgtest_6.20250308_all.deb ... 492s Unpacking pybuild-plugin-autopkgtest (6.20250308) ... 492s Selecting previously unselected package python3-packaging. 492s Preparing to unpack .../116-python3-packaging_24.2-1_all.deb ... 492s Unpacking python3-packaging (24.2-1) ... 492s Selecting previously unselected package python3-pyproject-hooks. 492s Preparing to unpack .../117-python3-pyproject-hooks_1.2.0-1_all.deb ... 492s Unpacking python3-pyproject-hooks (1.2.0-1) ... 492s Selecting previously unselected package python3-toml. 492s Preparing to unpack .../118-python3-toml_0.10.2-1_all.deb ... 492s Unpacking python3-toml (0.10.2-1) ... 492s Selecting previously unselected package python3-wheel. 492s Preparing to unpack .../119-python3-wheel_0.45.1-1_all.deb ... 492s Unpacking python3-wheel (0.45.1-1) ... 492s Selecting previously unselected package python3-build. 492s Preparing to unpack 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.../125-python3-all_3.13.2-2_arm64.deb ... 493s Unpacking python3-all (3.13.2-2) ... 493s Selecting previously unselected package python3.13-dev. 493s Preparing to unpack .../126-python3.13-dev_3.13.2-2_arm64.deb ... 493s Unpacking python3.13-dev (3.13.2-2) ... 493s Selecting previously unselected package python3-dev. 493s Preparing to unpack .../127-python3-dev_3.13.2-2_arm64.deb ... 493s Unpacking python3-dev (3.13.2-2) ... 493s Selecting previously unselected package python3-all-dev. 493s Preparing to unpack .../128-python3-all-dev_3.13.2-2_arm64.deb ... 493s Unpacking python3-all-dev (3.13.2-2) ... 493s Selecting previously unselected package python3-brotli. 493s Preparing to unpack .../129-python3-brotli_1.1.0-2build4_arm64.deb ... 493s Unpacking python3-brotli (1.1.0-2build4) ... 493s Selecting previously unselected package python3-contourpy. 493s Preparing to unpack .../130-python3-contourpy_1.3.1-1build1_arm64.deb ... 493s Unpacking python3-contourpy (1.3.1-1build1) ... 493s Selecting previously unselected package python3-cycler. 493s Preparing to unpack .../131-python3-cycler_0.12.1-1_all.deb ... 493s Unpacking python3-cycler (0.12.1-1) ... 493s Selecting previously unselected package python3-dateutil. 493s Preparing to unpack .../132-python3-dateutil_2.9.0-3_all.deb ... 493s Unpacking python3-dateutil (2.9.0-3) ... 493s Selecting previously unselected package python3-decorator. 493s Preparing to unpack .../133-python3-decorator_5.1.1-5_all.deb ... 493s Unpacking python3-decorator (5.1.1-5) ... 493s Selecting previously unselected package python3-defusedxml. 493s Preparing to unpack .../134-python3-defusedxml_0.7.1-3_all.deb ... 493s Unpacking python3-defusedxml (0.7.1-3) ... 493s Selecting previously unselected package python3-roman. 493s Preparing to unpack .../135-python3-roman_5.0-1_all.deb ... 493s Unpacking python3-roman (5.0-1) ... 493s Selecting previously unselected package python3-docutils. 493s Preparing to unpack .../136-python3-docutils_0.21.2+dfsg-2_all.deb ... 493s Unpacking python3-docutils (0.21.2+dfsg-2) ... 493s Selecting previously unselected package python3-platformdirs. 493s Preparing to unpack .../137-python3-platformdirs_4.3.6-1_all.deb ... 493s Unpacking python3-platformdirs (4.3.6-1) ... 493s Selecting previously unselected package python3-fs. 493s Preparing to unpack .../138-python3-fs_2.4.16-7_all.deb ... 493s Unpacking python3-fs (2.4.16-7) ... 493s Selecting previously unselected package python3-lxml:arm64. 493s Preparing to unpack .../139-python3-lxml_5.3.1-1build1_arm64.deb ... 493s Unpacking python3-lxml:arm64 (5.3.1-1build1) ... 493s Selecting previously unselected package python3-lz4. 493s Preparing to unpack .../140-python3-lz4_4.4.0+dfsg-1build1_arm64.deb ... 493s Unpacking python3-lz4 (4.4.0+dfsg-1build1) ... 493s Selecting previously unselected package python3-scipy. 493s Preparing to unpack .../141-python3-scipy_1.14.1-4ubuntu2_arm64.deb ... 493s Unpacking python3-scipy (1.14.1-4ubuntu2) ... 494s Selecting previously unselected package python3-mpmath. 494s Preparing to unpack .../142-python3-mpmath_1.3.0-1_all.deb ... 494s Unpacking python3-mpmath (1.3.0-1) ... 494s Selecting previously unselected package python3-sympy. 494s Preparing to unpack .../143-python3-sympy_1.13.3-5_all.deb ... 494s Unpacking python3-sympy (1.13.3-5) ... 494s Selecting previously unselected package python3-ufolib2. 494s Preparing to unpack .../144-python3-ufolib2_0.17.0+dfsg1-1_all.deb ... 494s Unpacking python3-ufolib2 (0.17.0+dfsg1-1) ... 494s Selecting previously unselected package unicode-data. 494s Preparing to unpack .../145-unicode-data_15.1.0-1_all.deb ... 494s Unpacking unicode-data (15.1.0-1) ... 495s Selecting previously unselected package python3-fonttools. 495s Preparing to unpack .../146-python3-fonttools_4.55.3-2build1_arm64.deb ... 495s Unpacking python3-fonttools (4.55.3-2build1) ... 495s Selecting previously unselected package python3-imagesize. 495s Preparing to unpack .../147-python3-imagesize_1.4.1-1_all.deb ... 495s Unpacking python3-imagesize (1.4.1-1) ... 495s Selecting previously unselected package python3-iniconfig. 495s Preparing to unpack .../148-python3-iniconfig_1.1.1-2_all.deb ... 495s Unpacking python3-iniconfig (1.1.1-2) ... 495s Selecting previously unselected package python3-kiwisolver. 495s Preparing to unpack .../149-python3-kiwisolver_1.4.7-3build1_arm64.deb ... 495s Unpacking python3-kiwisolver (1.4.7-3build1) ... 495s Selecting previously unselected package libopenjp2-7:arm64. 495s Preparing to unpack .../150-libopenjp2-7_2.5.3-2_arm64.deb ... 495s Unpacking libopenjp2-7:arm64 (2.5.3-2) ... 495s Selecting previously unselected package python3-pil:arm64. 495s Preparing to unpack .../151-python3-pil_11.1.0-5build1_arm64.deb ... 495s Unpacking python3-pil:arm64 (11.1.0-5build1) ... 495s Selecting previously unselected package python3.12-tk. 495s Preparing to unpack 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sphinx-common (8.1.3-4) ... 496s Selecting previously unselected package python3-alabaster. 496s Preparing to unpack .../158-python3-alabaster_0.7.16-0.1_all.deb ... 496s Unpacking python3-alabaster (0.7.16-0.1) ... 496s Selecting previously unselected package python3-snowballstemmer. 496s Preparing to unpack .../159-python3-snowballstemmer_2.2.0-4build1_all.deb ... 496s Unpacking python3-snowballstemmer (2.2.0-4build1) ... 496s Selecting previously unselected package python3-sphinx. 496s Preparing to unpack .../160-python3-sphinx_8.1.3-4_all.deb ... 496s Unpacking python3-sphinx (8.1.3-4) ... 496s Selecting previously unselected package python3-tabulate. 496s Preparing to unpack .../161-python3-tabulate_0.9.0-1_all.deb ... 496s Unpacking python3-tabulate (0.9.0-1) ... 496s Selecting previously unselected package python3-numpydoc. 496s Preparing to unpack .../162-python3-numpydoc_1.8.0-1_all.deb ... 496s Unpacking python3-numpydoc (1.8.0-1) ... 496s Selecting previously unselected package python3-pytz. 496s Preparing to unpack .../163-python3-pytz_2025.1-3_all.deb ... 496s Unpacking python3-pytz (2025.1-3) ... 496s Selecting previously unselected package python3-tz. 496s Preparing to unpack .../164-python3-tz_2025.1-3_all.deb ... 496s Unpacking python3-tz (2025.1-3) ... 496s Selecting previously unselected package python3-pandas-lib:arm64. 496s Preparing to unpack .../165-python3-pandas-lib_2.2.3+dfsg-8build1_arm64.deb ... 496s Unpacking python3-pandas-lib:arm64 (2.2.3+dfsg-8build1) ... 496s Selecting previously unselected package python3-pandas. 496s Preparing to unpack .../166-python3-pandas_2.2.3+dfsg-8build1_all.deb ... 496s Unpacking python3-pandas (2.2.3+dfsg-8build1) ... 496s Selecting previously unselected package python3-pluggy. 496s Preparing to unpack .../167-python3-pluggy_1.5.0-1_all.deb ... 496s Unpacking python3-pluggy (1.5.0-1) ... 496s Selecting previously unselected package python3-psutil. 497s Preparing to unpack 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dh-python (6.20250308) ... 497s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 497s Setting up liblcms2-2:arm64 (2.16-2) ... 497s Setting up python3-iniconfig (1.1.1-2) ... 497s Setting up libpixman-1-0:arm64 (0.44.0-3) ... 497s Setting up libsharpyuv0:arm64 (1.5.0-0.1) ... 497s Setting up liblerc4:arm64 (4.0.0+ds-5ubuntu1) ... 497s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ... 497s Setting up libdatrie1:arm64 (0.2.13-3build1) ... 497s Setting up python3-lz4 (4.4.0+dfsg-1build1) ... 498s Setting up libxcb-render0:arm64 (1.17.0-2) ... 498s Setting up python3-defusedxml (0.7.1-3) ... 498s Setting up libarchive-zip-perl (1.68-1) ... 498s Setting up python3-alabaster (0.7.16-0.1) ... 498s Setting up fonts-lyx (2.4.3-1) ... 498s Setting up unzip (6.0-28ubuntu6) ... 498s Setting up libdebhelper-perl (13.24.1ubuntu2) ... 498s Setting up x11-common (1:7.7+23ubuntu3) ... 498s Setting up libdeflate0:arm64 (1.23-1) ... 498s Setting up python3-tabulate (0.9.0-1) ... 498s Setting up m4 (1.4.19-7) ... 498s Setting up libqhull-r8.0:arm64 (2020.2-6build1) ... 498s Setting up python3-all (3.13.2-2) ... 498s Setting up python3-pytz (2025.1-3) ... 498s Setting up libxcb-shm0:arm64 (1.17.0-2) ... 498s Setting up libgomp1:arm64 (15-20250222-0ubuntu1) ... 498s Setting up python3-wheel (0.45.1-1) ... 499s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ... 499s Setting up python3-platformdirs (4.3.6-1) ... 499s Setting up python3-psutil (5.9.8-2build3) ... 499s Setting up python3-tz (2025.1-3) ... 499s Setting up python3-fs (2.4.16-7) ... 499s Setting up unicode-data (15.1.0-1) ... 499s Setting up python3-roman (5.0-1) ... 499s Setting up python3-decorator (5.1.1-5) ... 499s Setting up zip (3.0-14ubuntu2) ... 499s Setting up autotools-dev (20220109.1) ... 499s Setting up libblas3:arm64 (3.12.1-2) ... 499s 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 499s Setting up python3-packaging (24.2-1) ... 500s Setting up libexpat1-dev:arm64 (2.6.4-1) ... 500s Setting up python3-pyproject-hooks (1.2.0-1) ... 500s Setting up python3-snowballstemmer (2.2.0-4build1) ... 500s Setting up python3-brotli (1.1.0-2build4) ... 500s Setting up python3-cycler (0.12.1-1) ... 500s Setting up libimagequant0:arm64 (2.18.0-1build1) ... 500s Setting up fonts-dejavu-mono (2.37-8) ... 500s Setting up python3-kiwisolver (1.4.7-3build1) ... 500s Setting up libmpc3:arm64 (1.3.1-1build2) ... 500s Setting up python3-numpy-dev:arm64 (1:2.2.3+ds-5) ... 500s Setting up cython3 (3.0.11+dfsg-2ubuntu2) ... 501s Setting up libtcl8.6:arm64 (8.6.16+dfsg-1) ... 501s Setting up autopoint (0.23.1-1) ... 501s Setting up fonts-dejavu-core (2.37-8) ... 501s Setting up libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ... 501s Setting up python3-toml (0.10.2-1) ... 501s Setting up python3-installer (0.7.0+dfsg1-3) ... 501s Setting up libgfortran5:arm64 (15-20250222-0ubuntu1) ... 501s Setting up autoconf (2.72-3ubuntu1) ... 501s Setting up python3-pluggy (1.5.0-1) ... 502s Setting up libwebp7:arm64 (1.5.0-0.1) ... 502s Setting up libubsan1:arm64 (15-20250222-0ubuntu1) ... 502s Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 502s Setting up dwz (0.15-1build6) ... 502s Setting up libhwasan0:arm64 (15-20250222-0ubuntu1) ... 502s Setting up libasan8:arm64 (15-20250222-0ubuntu1) ... 502s Setting up libjson-perl (4.10000-1) ... 502s Setting up libxslt1.1:arm64 (1.1.39-0exp1ubuntu2) ... 502s Setting up debugedit (1:5.1-2) ... 502s Setting up libhts3t64:arm64 (1.21+ds-1) ... 502s Setting up libopenjp2-7:arm64 (2.5.3-2) ... 502s Setting up libharfbuzz0b:arm64 (10.2.0-1) ... 502s Setting up libthai-data (0.1.29-2build1) ... 502s Setting up python3-dateutil (2.9.0-3) ... 502s Setting up sgml-base (1.31) ... 502s Setting up libxss1:arm64 (1:1.2.3-1build3) ... 502s Setting up libpaper2:arm64 (2.2.5-0.3) ... 502s Setting up libtsan2:arm64 (15-20250222-0ubuntu1) ... 502s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 502s Setting up python3-mpmath (1.3.0-1) ... 502s Setting up libisl23:arm64 (0.27-1) ... 502s Setting up python3-build (1.2.2-1) ... 502s Setting up python-matplotlib-data (3.8.3-7build1) ... 502s Setting up libwebpmux3:arm64 (1.5.0-0.1) ... 502s Setting up xdg-utils (1.2.1-2ubuntu1) ... 502s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 502s Setting up bedtools (2.31.1+dfsg-2) ... 502s Setting up libcc1-0:arm64 (15-20250222-0ubuntu1) ... 503s Setting up liblsan0:arm64 (15-20250222-0ubuntu1) ... 503s Setting up libitm1:arm64 (15-20250222-0ubuntu1) ... 503s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 503s Setting up python3-imagesize (1.4.1-1) ... 503s Setting up libjpeg8:arm64 (8c-2ubuntu11) ... 503s Setting up automake (1:1.17-3ubuntu1) ... 503s update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode 503s Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... 503s Setting up python3-sympy (1.13.3-5) ... 509s Setting up libice6:arm64 (2:1.1.1-1) ... 509s Setting up liblapack3:arm64 (3.12.1-2) ... 509s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 509s Setting up gettext (0.23.1-1) ... 509s Setting up python3-pysam (0.23.0+ds-1build1) ... 509s Setting up pybuild-plugin-pyproject (6.20250308) ... 509s Setting up fontconfig-config (2.15.0-2ubuntu1) ... 509s Setting up python3-pytest (8.3.5-1) ... 510s Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... 510s Setting up libpaper-utils (2.2.5-0.3) ... 510s Setting up intltool-debian (0.35.0+20060710.6) ... 510s Setting up libthai0:arm64 (0.1.29-2build1) ... 510s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 510s Setting up libraqm0:arm64 (0.10.2-1) ... 510s Setting up libpython3.13-dev:arm64 (3.13.2-2) ... 510s Setting up python3-numpy (1:2.2.3+ds-5) ... 512s Setting up libjs-sphinxdoc (8.1.3-4) ... 512s Setting up dh-strip-nondeterminism (1.14.1-2) ... 512s Setting up cpp-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 512s Setting up python3-lxml:arm64 (5.3.1-1build1) ... 512s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 512s Setting up xml-core (0.19) ... 512s Setting up python3-contourpy (1.3.1-1build1) ... 512s Setting up libfontconfig1:arm64 (2.15.0-2ubuntu1) ... 512s Setting up libgcc-14-dev:arm64 (14.2.0-17ubuntu3) ... 512s Setting up libstdc++-14-dev:arm64 (14.2.0-17ubuntu3) ... 512s Setting up libsm6:arm64 (2:1.2.4-1) ... 512s Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 512s Setting up fontconfig (2.15.0-2ubuntu1) ... 514s Regenerating fonts cache... done. 514s Setting up python3-pybedtools (0.10.0-4build1) ... 514s Setting up libxft2:arm64 (2.3.6-1build1) ... 514s Setting up python3-scipy (1.14.1-4ubuntu2) ... 518s Setting up libpython3-dev:arm64 (3.13.2-2) ... 518s Setting up python-pybedtools-doc (0.10.0-4build1) ... 518s Setting up python3.13-dev (3.13.2-2) ... 518s Setting up po-debconf (1.0.21+nmu1) ... 518s Setting up libtk8.6:arm64 (8.6.16-1) ... 518s Setting up python3-pandas-lib:arm64 (2.2.3+dfsg-8build1) ... 518s Setting up libpango-1.0-0:arm64 (1.56.2-1) ... 518s Setting up python3.12-tk (3.12.9-1) ... 518s Setting up pybedtools-bin (0.10.0-4build1) ... 518s Setting up libcairo2:arm64 (1.18.2-2) ... 518s Setting up python3.13-tk (3.13.2-2) ... 518s Setting up python3-pil:arm64 (11.1.0-5build1) ... 518s Setting up cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 518s Setting up python3-pandas (2.2.3+dfsg-8build1) ... 523s Setting up libpython3-all-dev:arm64 (3.13.2-2) ... 523s Setting up sphinx-common (8.1.3-4) ... 523s Setting up python3-dev (3.13.2-2) ... 523s Setting up libxt6t64:arm64 (1:1.2.1-1.2build1) ... 523s Setting up cpp-14 (14.2.0-17ubuntu3) ... 523s Setting up cpp (4:14.2.0-1ubuntu1) ... 523s Setting up gcc-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 523s Setting up libpangoft2-1.0-0:arm64 (1.56.2-1) ... 523s Setting up libpangocairo-1.0-0:arm64 (1.56.2-1) ... 523s Setting up python3-all-dev (3.13.2-2) ... 523s Setting up gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 523s Setting up tk8.6-blt2.5 (2.5.3+dfsg-8) ... 523s Setting up g++-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 523s Setting up blt (2.5.3+dfsg-8) ... 523s Setting up python3-tk:arm64 (3.13.1-1) ... 523s Setting up gcc-14 (14.2.0-17ubuntu3) ... 523s Setting up python3-pil.imagetk:arm64 (11.1.0-5build1) ... 523s Setting up r-base-core (4.4.3-1) ... 523s Creating config file /etc/R/Renviron with new version 523s Setting up g++-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 523s Setting up g++-14 (14.2.0-17ubuntu3) ... 523s Setting up libtool (2.5.4-4) ... 523s Setting up gcc (4:14.2.0-1ubuntu1) ... 523s Setting up dh-autoreconf (20) ... 523s Setting up g++ (4:14.2.0-1ubuntu1) ... 523s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 523s Setting up build-essential (12.10ubuntu1) ... 523s Setting up debhelper (13.24.1ubuntu2) ... 524s Setting up pybuild-plugin-autopkgtest (6.20250308) ... 524s Setting up python3-ufolib2 (0.17.0+dfsg1-1) ... 524s Setting up python3-fonttools (4.55.3-2build1) ... 525s Setting up python3-matplotlib (3.8.3-7build1) ... 526s Processing triggers for libc-bin (2.41-1ubuntu2) ... 526s Processing triggers for man-db (2.13.0-1) ... 528s Processing triggers for install-info (7.1.1-1) ... 528s Processing triggers for sgml-base (1.31) ... 528s Setting up docutils-common (0.21.2+dfsg-2) ... 528s Processing triggers for sgml-base (1.31) ... 528s Setting up python3-docutils (0.21.2+dfsg-2) ... 528s Setting up python3-sphinx (8.1.3-4) ... 529s Setting up python3-numpydoc (1.8.0-1) ... 531s autopkgtest [13:49:08]: test pybuild-autopkgtest: pybuild-autopkgtest 531s autopkgtest [13:49:08]: test pybuild-autopkgtest: [----------------------- 532s pybuild-autopkgtest 532s I: pybuild base:311: cd /tmp/autopkgtest.BxHrG6/autopkgtest_tmp/build; python3.13 -m pytest -k "not test_chromsizes" --pyargs pybedtools 533s ============================= test session starts ============================== 533s platform linux -- Python 3.13.2, pytest-8.3.5, pluggy-1.5.0 533s rootdir: /tmp/autopkgtest.BxHrG6/autopkgtest_tmp/build 533s configfile: pyproject.toml 533s plugins: typeguard-4.4.2 533s collected 511 items / 2 deselected / 509 selected 533s 538s test/test_1.py ......................................................... [ 11%] 539s ............x..x.x...... [ 15%] 539s test/test_cbedtools.py ....................................... [ 23%] 539s test/test_contrib.py .. [ 23%] 539s test/test_gzip_support.py ........ [ 25%] 540s test/test_helpers.py ...... [ 26%] 542s test/test_issues.py ........................................... [ 35%] 542s test/test_iter.py ...................................................... [ 45%] 542s ........................................................................ [ 59%] 546s ........................................................................ [ 74%] 547s ........................................................................ [ 88%] 547s ......................................................... [ 99%] 547s test/test_pathlib.py ... [100%] 547s 547s ================ 506 passed, 2 deselected, 3 xfailed in 14.83s ================= 547s I: pybuild pybuild:334: cd /tmp/autopkgtest.BxHrG6/build.uQx/src/docs ; PYTHONPATH=/tmp/autopkgtest.BxHrG6/autopkgtest_tmp/build python3.13 -m sphinx -b doctest -d build/doctrees source build/doctest 548s Running Sphinx v8.1.3 548s loading translations [en]... done 548s making output directory... done 548s Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. 548s [autosummary] generating autosummary for: 3-brief-examples.rst, FAQs.rst, autodoc_source.rst, autodocs/pybedtools.contrib.plotting.Track.rst, changes.rst, create-a-bedtool-tutorial.rst, default-arguments.rst, each.rst, filtering.rst, flow-of-commands.rst, ..., topical-create-a-bedtool.rst, topical-design-principles.rst, topical-documentation-contents.rst, topical-genome.rst, topical-iterators.rst, topical-low-level-ops.rst, topical-random.rst, topical-saving.rst, topical-wrapping.rst, tutorial-contents.rst 550s [autosummary] generating autosummary for: /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.absolute_distance.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.all_hits.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.annotate.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.any_hits.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.as_intervalfile.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.at.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_bed.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_fastq.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bed6.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bedpe_to_bam.rst, ..., /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.helpers.set_tempdir.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/autodocs/pybedtools.parallel.parallel_apply.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.add_color.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.bedgraph_scale.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.extend_fields.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.five_prime.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.greater_than.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.less_than.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.normalized_to_length.rst, /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.three_prime.rst 550s building [mo]: targets for 0 po files that are out of date 550s writing output... 550s building [doctest]: targets for 49 source files that are out of date 550s updating environment: [new config] 157 added, 0 changed, 0 removed 550s reading sources... [ 1%] 3-brief-examples 550s reading sources... [ 1%] FAQs 550s reading sources... [ 2%] autodoc_source 550s /usr/lib/python3/dist-packages/numpydoc/docscrape.py:421: UserWarning: Unknown section Example in the docstring of decorated in /usr/lib/python3/dist-packages/pybedtools/bedtool.py. 550s self[section] = content 551s /usr/lib/python3/dist-packages/numpydoc/docscrape.py:421: UserWarning: Unknown section Example in the docstring of tag_bedpe in /usr/lib/python3/dist-packages/pybedtools/contrib/long_range_interaction.py. 551s self[section] = content 551s reading sources... [ 3%] autodocs/pybedtools.bedtool.BedTool 552s /usr/lib/python3/dist-packages/numpydoc/docscrape.py:421: UserWarning: Unknown section Example in the docstring of decorated in /usr/lib/python3/dist-packages/pybedtools/bedtool.py. 552s self[section] = content 553s reading sources... [ 3%] autodocs/pybedtools.bedtool.BedTool.absolute_distance 553s reading sources... 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[ 93%] topical-bam-semantics 557s reading sources... [ 94%] topical-comparisons 557s reading sources... [ 94%] topical-create-a-bedtool 557s reading sources... [ 95%] topical-design-principles 557s reading sources... [ 96%] topical-documentation-contents 557s reading sources... [ 96%] topical-genome 557s reading sources... [ 97%] topical-iterators 557s reading sources... [ 97%] topical-low-level-ops 557s reading sources... [ 98%] topical-random 557s reading sources... [ 99%] topical-saving 558s reading sources... [ 99%] topical-wrapping 558s reading sources... [100%] tutorial-contents 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool' with 'bedtool.BedTool'. [autosummary.import_cycle] 558s 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.intersect' with 'bedtool.BedTool.intersect'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.window' with 'bedtool.BedTool.window'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.closest' with 'bedtool.BedTool.closest'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.coverage' with 'bedtool.BedTool.coverage'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.map' with 'bedtool.BedTool.map'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.genome_coverage' with 'bedtool.BedTool.genome_coverage'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.merge' with 'bedtool.BedTool.merge'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.cluster' with 'bedtool.BedTool.cluster'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.complement' with 'bedtool.BedTool.complement'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.subtract' with 'bedtool.BedTool.subtract'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.slop' with 'bedtool.BedTool.slop'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.flank' with 'bedtool.BedTool.flank'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.sort' with 'bedtool.BedTool.sort'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.random' with 'bedtool.BedTool.random'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.shuffle' with 'bedtool.BedTool.shuffle'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.annotate' with 'bedtool.BedTool.annotate'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.multi_intersect' with 'bedtool.BedTool.multi_intersect'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.union_bedgraphs' with 'bedtool.BedTool.union_bedgraphs'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.pair_to_bed' with 'bedtool.BedTool.pair_to_bed'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.pair_to_pair' with 'bedtool.BedTool.pair_to_pair'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.bam_to_bed' with 'bedtool.BedTool.bam_to_bed'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.to_bam' with 'bedtool.BedTool.to_bam'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.bedpe_to_bam' with 'bedtool.BedTool.bedpe_to_bam'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.bed6' with 'bedtool.BedTool.bed6'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.bam_to_fastq' with 'bedtool.BedTool.bam_to_fastq'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.sequence' with 'bedtool.BedTool.sequence'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.mask_fasta' with 'bedtool.BedTool.mask_fasta'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.nucleotide_content' with 'bedtool.BedTool.nucleotide_content'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.multi_bam_coverage' with 'bedtool.BedTool.multi_bam_coverage'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.tag_bam' with 'bedtool.BedTool.tag_bam'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.jaccard' with 'bedtool.BedTool.jaccard'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.reldist' with 'bedtool.BedTool.reldist'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. Replace 'pybedtools.bedtool.BedTool.overlap' with 'bedtool.BedTool.overlap'. [autosummary.import_cycle] 558s WARNING: Summarised items should not include the current module. 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[autosummary.import_cycle] 558s /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/topical-genome.rst:55: ERROR: Unknown target name: "genomepy". [docutils] 558s looking for now-outdated files... none found 558s pickling environment... done 558s checking consistency... /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.normalized_to_length.rst: document is referenced in multiple toctrees: ['autodoc_source', 'autodoc_source'], selecting: autodoc_source <- pybedtools.featurefuncs.normalized_to_length 558s /tmp/autopkgtest.BxHrG6/build.uQx/src/docs/source/pybedtools.featurefuncs.rename.rst: document is referenced in multiple toctrees: ['autodoc_source', 'autodoc_source'], selecting: autodoc_source <- pybedtools.featurefuncs.rename 558s done 558s preparing documents... done 558s copying assets... 558s copying assets: done 558s running tests... 558s 558s Document: autodocs/pybedtools.bedtool.BedTool.annotate 558s ------------------------------------------------------ 558s 1 item passed all tests: 558s 3 tests in default 558s 3 tests in 1 item. 558s 3 passed. 558s Test passed. 558s 558s Document: 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passed all tests: 560s 13 tests in default 560s 13 tests in 1 item. 560s 13 passed. 560s Test passed. 560s 560s Document: each 560s -------------- 560s 1 item passed all tests: 560s 6 tests in default 560s 6 tests in 1 item. 560s 6 passed. 560s Test passed. 560s 560s Document: filtering 560s ------------------- 560s 1 item passed all tests: 560s 8 tests in default 560s 8 tests in 1 item. 560s 8 passed. 560s Test passed. 561s 561s Document: history 561s ----------------- 561s 1 item passed all tests: 561s 10 tests in default 561s 10 tests in 1 item. 561s 10 passed. 561s Test passed. 561s 561s Document: intersections 561s ----------------------- 561s 1 item passed all tests: 561s 8 tests in default 561s 8 tests in 1 item. 561s 8 passed. 561s Test passed. 561s 561s Document: intervals 561s ------------------- 561s 1 item passed all tests: 561s 50 tests in default 561s 50 tests in 1 item. 561s 50 passed. 561s Test passed. 561s 561s Document: piping 561s ---------------- 561s 1 item passed all tests: 561s 17 tests in default 561s 17 tests in 1 item. 561s 17 passed. 561s Test passed. 561s 561s Document: save-results 561s ---------------------- 561s 1 item passed all tests: 561s 8 tests in default 561s 8 tests in 1 item. 561s 8 passed. 561s Test passed. 561s 561s Document: topical-bam 561s --------------------- 562s 1 item passed all tests: 562s 15 tests in default 562s 15 tests in 1 item. 562s 15 passed. 562s Test passed. 562s 562s Document: topical-create-a-bedtool 562s ---------------------------------- 562s 1 item passed all tests: 562s 10 tests in default 562s 10 tests in 1 item. 562s 10 passed. 562s Test passed. 562s 562s Document: topical-design-principles 562s ----------------------------------- 562s 1 item passed all tests: 562s 15 tests in default 562s 15 tests in 1 item. 562s 15 passed. 562s Test passed. 562s 562s Document: topical-genome 562s ------------------------ 562s 1 item passed all tests: 562s 13 tests in default 562s 13 tests in 1 item. 562s 13 passed. 562s Test passed. 562s 562s Document: topical-iterators 562s --------------------------- 562s 1 item passed all tests: 562s 20 tests in default 562s 20 tests in 1 item. 562s 20 passed. 562s Test passed. 562s 562s Document: topical-low-level-ops 562s ------------------------------- 562s 1 item passed all tests: 562s 6 tests in default 562s 6 tests in 1 item. 562s 6 passed. 562s Test passed. 562s 562s Document: topical-random 562s ------------------------ 563s 1 item passed all tests: 563s 10 tests in default 563s 10 tests in 1 item. 563s 10 passed. 563s Test passed. 563s 563s Document: topical-saving 563s ------------------------ 563s 1 item passed all tests: 563s 14 tests in default 563s 14 tests in 1 item. 563s 14 passed. 563s Test passed. 563s 563s Doctest summary 563s =============== 563s 387 tests 563s 0 failures in tests 563s 0 failures in setup code 563s 0 failures in cleanup code 563s build succeeded, 126 warnings. 563s 563s Testing of doctests in the sources finished, look at the results in build/doctest/output.txt. 565s autopkgtest [13:49:42]: test pybuild-autopkgtest: -----------------------] 565s pybuild-autopkgtest PASS 565s autopkgtest [13:49:42]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 566s autopkgtest [13:49:43]: @@@@@@@@@@@@@@@@@@@@ summary 566s pybuild-autopkgtest PASS 583s nova [W] Using flock in prodstack6-arm64 583s Creating nova instance adt-plucky-arm64-python-pybedtools-20250315-134017-juju-7f2275-prod-proposed-migration-environment-2-3c272081-198b-4861-805b-8162128e5a43 from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)... 583s nova [W] Timed out waiting for 10465711-3902-48a4-9ed8-217bd1dfe2b0 to get deleted.