Sat Jan 6 16:18:22 UTC 2024 I: starting to build python-pbcore/bookworm/i386 on jenkins on '2024-01-06 16:18' Sat Jan 6 16:18:22 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_7/13805/console.log Sat Jan 6 16:18:22 UTC 2024 I: Downloading source for bookworm/python-pbcore=2.1.2+dfsg-5 --2024-01-06 16:18:22-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/python-pbcore/python-pbcore_2.1.2%2bdfsg-5.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2761 (2.7K) [text/prs.lines.tag] Saving to: ‘python-pbcore_2.1.2+dfsg-5.dsc’ 0K .. 100% 7.08M=0s 2024-01-06 16:18:22 (7.08 MB/s) - ‘python-pbcore_2.1.2+dfsg-5.dsc’ saved [2761/2761] Sat Jan 6 16:18:22 UTC 2024 I: python-pbcore_2.1.2+dfsg-5.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-pbcore Binary: python3-pbcore, python-pbcore-doc Architecture: all Version: 2.1.2+dfsg-5 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/PacificBiosciences/pbcore Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/python-pbcore Vcs-Git: https://salsa.debian.org/med-team/python-pbcore.git Testsuite: autopkgtest Testsuite-Triggers: python3-pytest, python3-pytest-cov, python3-pytest-runner, python3-pytest-xdist Build-Depends: debhelper-compat (= 13), dh-python, python3-sphinx , python3-all, python3-setuptools, python3-h5py, python3-numpy, python3-pysam, python3-pytest , python3-uritools , python3-pytest-runner , python3-pytest-xdist , python3-pytest-cov , python3-biopython (>= 1.74) , python3-xmlschema , pylint, python3-coverage Package-List: python-pbcore-doc deb doc optional arch=all python3-pbcore deb python optional arch=all Checksums-Sha1: cb0a0ae779a39cbdbf1a75292ce2655dcbb65a9a 2918008 python-pbcore_2.1.2+dfsg.orig.tar.xz 1f81dd55291e883d1618dcc7a43ac383129c8640 59964 python-pbcore_2.1.2+dfsg-5.debian.tar.xz Checksums-Sha256: a31283a37b20aa7b327de78a533254c5892c5519fb8214fd3c1a978855351326 2918008 python-pbcore_2.1.2+dfsg.orig.tar.xz 8f07b0ff3a6f00577344a803822713786f057ef8953a85d4da1b973faf03253b 59964 python-pbcore_2.1.2+dfsg-5.debian.tar.xz Files: b58bb3c6ad20be9ea36bf8a7548bdd84 2918008 python-pbcore_2.1.2+dfsg.orig.tar.xz 823e2c98333770e27cb1b742efb7c4e9 59964 python-pbcore_2.1.2+dfsg-5.debian.tar.xz Dgit: 250b4aab1e0ecd4db1f36846dbc8a49579faca12 debian archive/debian/2.1.2+dfsg-5 https://git.dgit.debian.org/python-pbcore -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmO5lvsUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrY6w/8DX3UIsgc870uz6DAqSi+ZjZdWKyy /AjNQPQk74sUKwwB4fybZtEQZSW+1SB3vM5186EovOFr1NRLVAZbude63au/4U4t Sy9SbLWFxrpxjj1g8Njldxf9TbJhx7mEXJeprSX5WgrmpgNimerU3G7vF37WIZ4x +rwyc839doP06o0kZ14wr2SywS1Wt0MBgdiwlb0qSrMMjB3fC+Tnd4v/VlbOJmri G0BCLZm/0H6R0/PPbc3ZsvLgrv/BrLEcWjBcr/xiDkGw9if/cX9VR086s8kmROXD 8z6V3MwAa6y9g1+VLn0otdvufTXrZOKfN5/bv/GV9dyXAauDS56xydfymam8SAQg yRRZ7OcdUA4k88x0gkw5Klbdft/nhS3aKMdD6MnX/5r1k7NMHt0FBdOYnBO1r1bL SenlXgq70u7+RCzpDAN4Lh/bwqfJ1ye335dUi0QFMvCqgcph5826FCgrevWjKMx9 zUNM3iBCLbEpERXsOFHBH7uWKAnH+hJTzQqJKenDVd9vsFx5lb0h3LN8UKA5l62u f/VnqdxncEaanSWSKQ7ZYXJUNqtIGna0eMOC0npuXviopkJqCHJyB13ki/qBK4ew EFc0glpfGXiOyTXZX1DIT8/V8m+KkIL3UIITSO6wnZZrwBEKa16rG83ZaD+OiiqE YIhcHFTxMwZiS/U= =uyug -----END PGP SIGNATURE----- Sat Jan 6 16:18:22 UTC 2024 I: Checking whether the package is not for us Sat Jan 6 16:18:22 UTC 2024 I: Starting 1st build on remote node ionos12-i386.debian.net. Sat Jan 6 16:18:22 UTC 2024 I: Preparing to do remote build '1' on ionos12-i386.debian.net. Sat Jan 6 16:20:57 UTC 2024 I: Deleting $TMPDIR on ionos12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Jan 6 04:18:26 -12 2024 I: pbuilder-time-stamp: 1704557906 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [python-pbcore_2.1.2+dfsg-5.dsc] I: copying [./python-pbcore_2.1.2+dfsg.orig.tar.xz] I: copying [./python-pbcore_2.1.2+dfsg-5.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Jan 7 15:59:55 2023 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./python-pbcore_2.1.2+dfsg-5.dsc: no acceptable signature found dpkg-source: info: extracting python-pbcore in python-pbcore-2.1.2+dfsg dpkg-source: info: unpacking python-pbcore_2.1.2+dfsg.orig.tar.xz dpkg-source: info: unpacking python-pbcore_2.1.2+dfsg-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying doc-theme.patch dpkg-source: info: applying exclude_test_missing_data.patch dpkg-source: info: applying b24746790c7105212e45dc2f40115d231bd8baae.patch dpkg-source: info: applying seek-curdir-for-xml.patch dpkg-source: info: applying numpy_1.24.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/18593/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='62aefad00ae74646841b6b13cb441bb5' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='18593' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RfO1UPLB/pbuilderrc_5Wcg --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RfO1UPLB/b1 --logfile b1/build.log python-pbcore_2.1.2+dfsg-5.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos12-i386 6.1.0-17-686-pae #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) i686 GNU/Linux I: ls -l /bin total 6036 -rwxr-xr-x 1 root root 1408088 Apr 23 2023 bash -rwxr-xr-x 3 root root 38404 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 38404 Sep 19 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep -rwxr-xr-x 3 root root 38404 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 17892 Sep 19 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore -rwxr-xr-x 1 root root 42920 Sep 20 2022 cat -rwxr-xr-x 1 root root 79816 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 79816 Sep 20 2022 chown -rwxr-xr-x 1 root root 162024 Sep 20 2022 cp -rwxr-xr-x 1 root root 136916 Jan 5 2023 dash -rwxr-xr-x 1 root root 137160 Sep 20 2022 date -rwxr-xr-x 1 root root 100364 Sep 20 2022 dd -rwxr-xr-x 1 root root 108940 Sep 20 2022 df -rwxr-xr-x 1 root root 162152 Sep 20 2022 dir -rwxr-xr-x 1 root root 87760 Mar 23 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 38760 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 34664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 84272 Mar 23 2023 findmnt -rwsr-xr-x 1 root root 30240 Mar 23 2023 fusermount -rwxr-xr-x 1 root root 218680 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 10 2022 gzip -rwxr-xr-x 1 root root 21916 Dec 19 2022 hostname -rwxr-xr-x 1 root root 75756 Sep 20 2022 ln -rwxr-xr-x 1 root root 55600 Mar 23 2023 login -rwxr-xr-x 1 root root 162152 Sep 20 2022 ls -rwxr-xr-x 1 root root 214568 Mar 23 2023 lsblk -rwxr-xr-x 1 root root 96328 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 84008 Sep 20 2022 mknod -rwxr-xr-x 1 root root 38792 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 63016 Mar 23 2023 more -rwsr-xr-x 1 root root 58912 Mar 23 2023 mount -rwxr-xr-x 1 root root 13856 Mar 23 2023 mountpoint -rwxr-xr-x 1 root root 157932 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38792 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 51080 Sep 20 2022 readlink -rwxr-xr-x 1 root root 75720 Sep 20 2022 rm -rwxr-xr-x 1 root root 51080 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 22308 Jul 28 23:46 run-parts -rwxr-xr-x 1 root root 133224 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 38760 Sep 20 2022 sleep -rwxr-xr-x 1 root root 87976 Sep 20 2022 stty -rwsr-xr-x 1 root root 83492 Mar 23 2023 su -rwxr-xr-x 1 root root 38792 Sep 20 2022 sync -rwxr-xr-x 1 root root 598456 Apr 6 2023 tar -rwxr-xr-x 1 root root 13860 Jul 28 23:46 tempfile -rwxr-xr-x 1 root root 120776 Sep 20 2022 touch -rwxr-xr-x 1 root root 34664 Sep 20 2022 true -rwxr-xr-x 1 root root 17892 Mar 23 2023 ulockmgr_server -rwsr-xr-x 1 root root 30236 Mar 23 2023 umount -rwxr-xr-x 1 root root 38760 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 162152 Sep 20 2022 vdir -rwxr-xr-x 1 root root 71216 Mar 23 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/18593/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-python, python3-sphinx, python3-all, python3-setuptools, python3-h5py, python3-numpy, python3-pysam, python3-pytest, python3-uritools, python3-pytest-runner, python3-pytest-xdist, python3-pytest-cov, python3-biopython (>= 1.74), python3-xmlschema, pylint, python3-coverage dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 18156 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-h5py; however: Package python3-h5py is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-uritools; however: Package python3-uritools is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-runner; however: Package python3-pytest-runner is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-xdist; however: Package python3-pytest-xdist is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest-cov; however: Package python3-pytest-cov is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython (>= 1.74); however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-xmlschema; however: Package python3-xmlschema is not installed. pbuilder-satisfydepends-dummy depends on pylint; however: Package pylint is not installed. pbuilder-satisfydepends-dummy depends on python3-coverage; however: Package python3-coverage is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libaec0{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcurl3-gnutls{a} libcurl4{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhdf5-103-1{a} libhdf5-hl-100{a} libhts3{a} libhtscodecs2{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-hotkeys{a} libjs-jquery-isonscreen{a} libjs-jquery-metadata{a} libjs-jquery-tablesorter{a} libjs-jquery-throttle-debounce{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} liblapack3{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} liblzf1{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopenjp2-7{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libraqm0{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libsz2{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} openssl{a} po-debconf{a} pylint{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-astroid{a} python3-attr{a} python3-babel{a} python3-biopython{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-coverage{a} python3-dill{a} python3-distutils{a} python3-docutils{a} python3-elementpath{a} python3-execnet{a} python3-h5py{a} python3-h5py-serial{a} python3-idna{a} python3-imagesize{a} python3-importlib-metadata{a} python3-iniconfig{a} python3-isort{a} python3-jinja2{a} python3-lazy-object-proxy{a} python3-lib2to3{a} python3-logilab-common{a} python3-markupsafe{a} python3-mccabe{a} python3-minimal{a} python3-more-itertools{a} python3-mypy-extensions{a} python3-numpy{a} python3-packaging{a} python3-pil{a} python3-pkg-resources{a} python3-platformdirs{a} python3-pluggy{a} python3-py{a} python3-pygments{a} python3-pysam{a} python3-pytest{a} python3-pytest-cov{a} python3-pytest-runner{a} python3-pytest-xdist{a} python3-renderpm{a} python3-reportlab{a} python3-reportlab-accel{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-toml{a} python3-tomlkit{a} python3-typing-extensions{a} python3-tz{a} python3-uritools{a} python3-urllib3{a} python3-wrapt{a} python3-xmlschema{a} python3-zipp{a} python3.11{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common libarchive-cpio-perl libglib2.0-data libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx ncbi-blast+ publicsuffix python-biopython-doc python3-olefile python3-tk shared-mime-info wget xdg-user-dirs 0 packages upgraded, 171 newly installed, 0 to remove and 0 not upgraded. Need to get 76.4 MB of archives. After unpacking 290 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 2 http://deb.debian.org/debian bookworm/main i386 libjs-jquery-hotkeys all 0~20130707+git2d51e3a9+dfsg-2.1 [11.5 kB] Get: 3 http://deb.debian.org/debian bookworm/main i386 libpython3.11-minimal i386 3.11.2-6 [813 kB] Get: 4 http://deb.debian.org/debian bookworm/main i386 libexpat1 i386 2.5.0-1 [103 kB] Get: 5 http://deb.debian.org/debian bookworm/main i386 python3.11-minimal i386 3.11.2-6 [2130 kB] Get: 6 http://deb.debian.org/debian bookworm/main i386 python3-minimal i386 3.11.2-1+b1 [26.3 kB] Get: 7 http://deb.debian.org/debian bookworm/main i386 media-types all 10.0.0 [26.1 kB] Get: 8 http://deb.debian.org/debian bookworm/main i386 mailcap all 3.70+nmu1 [32.0 kB] Get: 9 http://deb.debian.org/debian bookworm/main i386 mime-support all 3.66 [10.9 kB] Get: 10 http://deb.debian.org/debian bookworm/main i386 readline-common all 8.2-1.3 [69.0 kB] Get: 11 http://deb.debian.org/debian bookworm/main i386 libreadline8 i386 8.2-1.3 [171 kB] Get: 12 http://deb.debian.org/debian bookworm/main i386 libpython3.11-stdlib i386 3.11.2-6 [1799 kB] Get: 13 http://deb.debian.org/debian bookworm/main i386 python3.11 i386 3.11.2-6 [572 kB] Get: 14 http://deb.debian.org/debian bookworm/main i386 libpython3-stdlib i386 3.11.2-1+b1 [9308 B] Get: 15 http://deb.debian.org/debian bookworm/main i386 python3 i386 3.11.2-1+b1 [26.3 kB] Get: 16 http://deb.debian.org/debian bookworm/main i386 sgml-base all 1.31 [15.4 kB] Get: 17 http://deb.debian.org/debian bookworm/main i386 tzdata all 2023c-5+deb12u1 [296 kB] Get: 18 http://deb.debian.org/debian bookworm/main i386 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 19 http://deb.debian.org/debian bookworm/main i386 openssl i386 3.0.11-1~deb12u2 [1423 kB] Get: 20 http://deb.debian.org/debian bookworm/main i386 ca-certificates all 20230311 [153 kB] Get: 21 http://deb.debian.org/debian bookworm/main i386 libmagic-mgc i386 1:5.44-3 [305 kB] Get: 22 http://deb.debian.org/debian bookworm/main i386 libmagic1 i386 1:5.44-3 [114 kB] Get: 23 http://deb.debian.org/debian bookworm/main i386 file i386 1:5.44-3 [42.5 kB] Get: 24 http://deb.debian.org/debian bookworm/main i386 gettext-base i386 0.21-12 [162 kB] Get: 25 http://deb.debian.org/debian bookworm/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 26 http://deb.debian.org/debian bookworm/main i386 groff-base i386 1.22.4-10 [932 kB] Get: 27 http://deb.debian.org/debian bookworm/main i386 bsdextrautils i386 2.38.1-5+b1 [90.3 kB] Get: 28 http://deb.debian.org/debian bookworm/main i386 libpipeline1 i386 1.5.7-1 [40.0 kB] Get: 29 http://deb.debian.org/debian bookworm/main i386 man-db i386 2.11.2-2 [1397 kB] Get: 30 http://deb.debian.org/debian bookworm/main i386 m4 i386 1.4.19-3 [294 kB] Get: 31 http://deb.debian.org/debian bookworm/main i386 autoconf all 2.71-3 [332 kB] Get: 32 http://deb.debian.org/debian bookworm/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 33 http://deb.debian.org/debian bookworm/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 34 http://deb.debian.org/debian bookworm/main i386 autopoint all 0.21-12 [495 kB] Get: 35 http://deb.debian.org/debian bookworm/main i386 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 36 http://deb.debian.org/debian bookworm/main i386 libtool all 2.4.7-5 [517 kB] Get: 37 http://deb.debian.org/debian bookworm/main i386 dh-autoreconf all 20 [17.1 kB] Get: 38 http://deb.debian.org/debian bookworm/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 39 http://deb.debian.org/debian bookworm/main i386 libsub-override-perl all 0.09-4 [9304 B] Get: 40 http://deb.debian.org/debian bookworm/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 41 http://deb.debian.org/debian bookworm/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 42 http://deb.debian.org/debian bookworm/main i386 libelf1 i386 0.188-2.1 [179 kB] Get: 43 http://deb.debian.org/debian bookworm/main i386 dwz i386 0.15-1 [118 kB] Get: 44 http://deb.debian.org/debian bookworm/main i386 libicu72 i386 72.1-3 [9541 kB] Get: 45 http://deb.debian.org/debian bookworm/main i386 libxml2 i386 2.9.14+dfsg-1.3~deb12u1 [720 kB] Get: 46 http://deb.debian.org/debian bookworm/main i386 gettext i386 0.21-12 [1311 kB] Get: 47 http://deb.debian.org/debian bookworm/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 48 http://deb.debian.org/debian bookworm/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 49 http://deb.debian.org/debian bookworm/main i386 debhelper all 13.11.4 [942 kB] Get: 50 http://deb.debian.org/debian bookworm/main i386 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 51 http://deb.debian.org/debian bookworm/main i386 python3-distutils all 3.11.2-3 [131 kB] Get: 52 http://deb.debian.org/debian bookworm/main i386 dh-python all 5.20230130+deb12u1 [104 kB] Get: 53 http://deb.debian.org/debian bookworm/main i386 xml-core all 0.18+nmu1 [23.8 kB] Get: 54 http://deb.debian.org/debian bookworm/main i386 docutils-common all 0.19+dfsg-6 [127 kB] Get: 55 http://deb.debian.org/debian bookworm/main i386 libfontenc1 i386 1:1.1.4-1 [24.5 kB] Get: 56 http://deb.debian.org/debian bookworm/main i386 libbrotli1 i386 1.0.9-2+b6 [275 kB] Get: 57 http://deb.debian.org/debian bookworm/main i386 libpng16-16 i386 1.6.39-2 [283 kB] Get: 58 http://deb.debian.org/debian bookworm/main i386 libfreetype6 i386 2.12.1+dfsg-5 [410 kB] Get: 59 http://deb.debian.org/debian bookworm/main i386 x11-common all 1:7.7+23 [252 kB] Get: 60 http://deb.debian.org/debian bookworm/main i386 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 61 http://deb.debian.org/debian bookworm/main i386 xfonts-utils i386 1:7.7+6 [95.2 kB] Get: 62 http://deb.debian.org/debian bookworm/main i386 fonts-urw-base35 all 20200910-7 [10.8 MB] Get: 63 http://deb.debian.org/debian bookworm/main i386 libaec0 i386 1.0.6-1+b1 [22.4 kB] Get: 64 http://deb.debian.org/debian bookworm/main i386 libblas3 i386 3.11.0-2 [139 kB] Get: 65 http://deb.debian.org/debian bookworm/main i386 libbsd0 i386 0.11.7-2 [121 kB] Get: 66 http://deb.debian.org/debian bookworm/main i386 libsasl2-modules-db i386 2.1.28+dfsg-10 [21.4 kB] Get: 67 http://deb.debian.org/debian bookworm/main i386 libsasl2-2 i386 2.1.28+dfsg-10 [62.7 kB] Get: 68 http://deb.debian.org/debian bookworm/main i386 libldap-2.5-0 i386 2.5.13+dfsg-5 [196 kB] Get: 69 http://deb.debian.org/debian bookworm/main i386 libnghttp2-14 i386 1.52.0-1+deb12u1 [80.7 kB] Get: 70 http://deb.debian.org/debian bookworm/main i386 libpsl5 i386 0.21.2-1 [59.3 kB] Get: 71 http://deb.debian.org/debian bookworm/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 72 http://deb.debian.org/debian bookworm/main i386 libssh2-1 i386 1.10.0-3+b1 [187 kB] Get: 73 http://deb.debian.org/debian bookworm/main i386 libcurl3-gnutls i386 7.88.1-10+deb12u4 [417 kB] Get: 74 http://deb.debian.org/debian bookworm/main i386 libcurl4 i386 7.88.1-10+deb12u4 [424 kB] Get: 75 http://deb.debian.org/debian bookworm/main i386 libdeflate0 i386 1.14-1 [57.5 kB] Get: 76 http://deb.debian.org/debian bookworm/main i386 libfribidi0 i386 1.0.8-2.1 [65.6 kB] Get: 77 http://deb.debian.org/debian bookworm/main i386 libgfortran5 i386 12.2.0-14 [698 kB] Get: 78 http://deb.debian.org/debian bookworm/main i386 libglib2.0-0 i386 2.74.6-2 [1467 kB] Get: 79 http://deb.debian.org/debian bookworm/main i386 libgraphite2-3 i386 1.3.14-1 [84.0 kB] Get: 80 http://deb.debian.org/debian bookworm/main i386 libharfbuzz0b i386 6.0.0+dfsg-3 [1966 kB] Get: 81 http://deb.debian.org/debian bookworm/main i386 libsz2 i386 1.0.6-1+b1 [7884 B] Get: 82 http://deb.debian.org/debian bookworm/main i386 libhdf5-103-1 i386 1.10.8+repack1-1 [1175 kB] Get: 83 http://deb.debian.org/debian bookworm/main i386 libhdf5-hl-100 i386 1.10.8+repack1-1 [79.3 kB] Get: 84 http://deb.debian.org/debian bookworm/main i386 libhtscodecs2 i386 1.3.0-4 [67.4 kB] Get: 85 http://deb.debian.org/debian bookworm/main i386 libhts3 i386 1.16+ds-3 [469 kB] Get: 86 http://deb.debian.org/debian bookworm/main i386 libimagequant0 i386 2.17.0-1 [32.9 kB] Get: 87 http://deb.debian.org/debian bookworm/main i386 libjbig0 i386 2.1-6.1 [31.6 kB] Get: 88 http://deb.debian.org/debian bookworm/main i386 libjpeg62-turbo i386 1:2.1.5-2 [169 kB] Get: 89 http://deb.debian.org/debian bookworm/main i386 libjs-jquery-isonscreen all 1.2.0-1.1 [3196 B] Get: 90 http://deb.debian.org/debian bookworm/main i386 libjs-jquery-metadata all 12-4 [6532 B] Get: 91 http://deb.debian.org/debian bookworm/main i386 libjs-jquery-tablesorter all 1:2.31.3+dfsg1-3 [184 kB] Get: 92 http://deb.debian.org/debian bookworm/main i386 libjs-jquery-throttle-debounce all 1.1+dfsg.1-2 [12.2 kB] Get: 93 http://deb.debian.org/debian bookworm/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 94 http://deb.debian.org/debian bookworm/main i386 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 95 http://deb.debian.org/debian bookworm/main i386 libjson-perl all 4.10000-1 [87.5 kB] Get: 96 http://deb.debian.org/debian bookworm/main i386 liblapack3 i386 3.11.0-2 [2092 kB] Get: 97 http://deb.debian.org/debian bookworm/main i386 liblcms2-2 i386 2.14-2 [165 kB] Get: 98 http://deb.debian.org/debian bookworm/main i386 liblerc4 i386 4.0.0+ds-2 [181 kB] Get: 99 http://deb.debian.org/debian bookworm/main i386 liblzf1 i386 3.6-3 [9668 B] Get: 100 http://deb.debian.org/debian bookworm/main i386 libopenjp2-7 i386 2.5.0-2 [196 kB] Get: 101 http://deb.debian.org/debian bookworm/main i386 libraqm0 i386 0.7.0-4.1 [11.1 kB] Get: 102 http://deb.debian.org/debian bookworm/main i386 libwebp7 i386 1.2.4-0.2+deb12u1 [294 kB] Get: 103 http://deb.debian.org/debian bookworm/main i386 libtiff6 i386 4.5.0-6+deb12u1 [332 kB] Get: 104 http://deb.debian.org/debian bookworm/main i386 libwebpdemux2 i386 1.2.4-0.2+deb12u1 [99.8 kB] Get: 105 http://deb.debian.org/debian bookworm/main i386 libwebpmux3 i386 1.2.4-0.2+deb12u1 [111 kB] Get: 106 http://deb.debian.org/debian bookworm/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 107 http://deb.debian.org/debian bookworm/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 108 http://deb.debian.org/debian bookworm/main i386 libxcb1 i386 1.15-1 [148 kB] Get: 109 http://deb.debian.org/debian bookworm/main i386 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 110 http://deb.debian.org/debian bookworm/main i386 python3-setuptools all 66.1.1-1 [521 kB] Get: 111 http://deb.debian.org/debian bookworm/main i386 python3-six all 1.16.0-4 [17.5 kB] Get: 112 http://deb.debian.org/debian bookworm/main i386 python3-typing-extensions all 4.4.0-1 [45.2 kB] Get: 113 http://deb.debian.org/debian bookworm/main i386 python3-lazy-object-proxy i386 1.9.0-1+b1 [21.6 kB] Get: 114 http://deb.debian.org/debian bookworm/main i386 python3-wrapt i386 1.14.1-2+b2 [42.7 kB] Get: 115 http://deb.debian.org/debian bookworm/main i386 python3-astroid all 2.14.2-1 [209 kB] Get: 116 http://deb.debian.org/debian bookworm/main i386 python3-toml all 0.10.2-1 [16.2 kB] Get: 117 http://deb.debian.org/debian bookworm/main i386 python3-isort all 5.6.4-1 [63.2 kB] Get: 118 http://deb.debian.org/debian bookworm/main i386 python3-more-itertools all 8.10.0-2 [53.0 kB] Get: 119 http://deb.debian.org/debian bookworm/main i386 python3-zipp all 1.0.0-6 [6696 B] Get: 120 http://deb.debian.org/debian bookworm/main i386 python3-importlib-metadata all 4.12.0-1 [24.9 kB] Get: 121 http://deb.debian.org/debian bookworm/main i386 python3-mypy-extensions all 0.4.3-4 [5788 B] Get: 122 http://deb.debian.org/debian bookworm/main i386 python3-logilab-common all 1.9.8-1 [380 kB] Get: 123 http://deb.debian.org/debian bookworm/main i386 python3-dill all 0.3.6-1 [79.5 kB] Get: 124 http://deb.debian.org/debian bookworm/main i386 python3-mccabe all 0.7.0-1 [10.5 kB] Get: 125 http://deb.debian.org/debian bookworm/main i386 python3-platformdirs all 2.6.0-1 [16.3 kB] Get: 126 http://deb.debian.org/debian bookworm/main i386 python3-tomlkit all 0.11.7-1 [40.5 kB] Get: 127 http://deb.debian.org/debian bookworm/main i386 pylint all 2.16.2-2 [339 kB] Get: 128 http://deb.debian.org/debian bookworm/main i386 python-babel-localedata all 2.10.3-1 [5615 kB] Get: 129 http://deb.debian.org/debian bookworm/main i386 python3-alabaster all 0.7.12-1 [20.8 kB] Get: 130 http://deb.debian.org/debian bookworm/main i386 python3-all i386 3.11.2-1+b1 [1056 B] Get: 131 http://deb.debian.org/debian bookworm/main i386 python3-attr all 22.2.0-1 [65.4 kB] Get: 132 http://deb.debian.org/debian bookworm/main i386 python3-tz all 2022.7.1-4 [30.1 kB] Get: 133 http://deb.debian.org/debian bookworm/main i386 python3-babel all 2.10.3-1 [103 kB] Get: 134 http://deb.debian.org/debian bookworm/main i386 python3-numpy i386 1:1.24.2-1 [6115 kB] Get: 135 http://deb.debian.org/debian bookworm/main i386 python3-renderpm i386 3.6.12-1+b1 [81.4 kB] Get: 136 http://deb.debian.org/debian bookworm/main i386 python3-reportlab-accel i386 3.6.12-1+b1 [39.4 kB] Get: 137 http://deb.debian.org/debian bookworm/main i386 python3-pil i386 9.4.0-1.1+b1 [473 kB] Get: 138 http://deb.debian.org/debian bookworm/main i386 python3-reportlab all 3.6.12-1 [564 kB] Get: 139 http://deb.debian.org/debian bookworm/main i386 w3c-sgml-lib all 1.3-3 [273 kB] Get: 140 http://deb.debian.org/debian bookworm/main i386 python3-biopython i386 1.80+dfsg-4+b1 [1589 kB] Get: 141 http://deb.debian.org/debian bookworm/main i386 python3-certifi all 2022.9.24-1 [153 kB] Get: 142 http://deb.debian.org/debian bookworm/main i386 python3-chardet all 5.1.0+dfsg-2 [110 kB] Get: 143 http://deb.debian.org/debian bookworm/main i386 python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get: 144 http://deb.debian.org/debian bookworm/main i386 python3-coverage i386 6.5.0+dfsg1-2+b1 [153 kB] Get: 145 http://deb.debian.org/debian bookworm/main i386 python3-roman all 3.3-3 [9880 B] Get: 146 http://deb.debian.org/debian bookworm/main i386 python3-docutils all 0.19+dfsg-6 [382 kB] Get: 147 http://deb.debian.org/debian bookworm/main i386 python3-elementpath all 2.5.3-1 [121 kB] Get: 148 http://deb.debian.org/debian bookworm/main i386 python3-execnet all 1.9.0-1 [41.5 kB] Get: 149 http://deb.debian.org/debian bookworm/main i386 python3-h5py-serial i386 3.7.0-8 [810 kB] Get: 150 http://deb.debian.org/debian bookworm/main i386 python3-h5py all 3.7.0-8 [10.3 kB] Get: 151 http://deb.debian.org/debian bookworm/main i386 python3-idna all 3.3-1 [39.4 kB] Get: 152 http://deb.debian.org/debian bookworm/main i386 python3-imagesize all 1.4.1-1 [6688 B] Get: 153 http://deb.debian.org/debian bookworm/main i386 python3-iniconfig all 1.1.1-2 [6396 B] Get: 154 http://deb.debian.org/debian bookworm/main i386 python3-markupsafe i386 2.1.2-1+b1 [13.3 kB] Get: 155 http://deb.debian.org/debian bookworm/main i386 python3-jinja2 all 3.1.2-1 [119 kB] Get: 156 http://deb.debian.org/debian bookworm/main i386 python3-packaging all 23.0-1 [32.5 kB] Get: 157 http://deb.debian.org/debian bookworm/main i386 python3-pluggy all 1.0.0+repack-1 [19.7 kB] Get: 158 http://deb.debian.org/debian bookworm/main i386 python3-py all 1.11.0-1 [89.2 kB] Get: 159 http://deb.debian.org/debian bookworm/main i386 python3-pygments all 2.14.0+dfsg-1 [783 kB] Get: 160 http://deb.debian.org/debian bookworm/main i386 python3-pysam i386 0.20.0+ds-3+b1 [1708 kB] Get: 161 http://deb.debian.org/debian bookworm/main i386 python3-pytest all 7.2.1-2 [236 kB] Get: 162 http://deb.debian.org/debian bookworm/main i386 python3-pytest-cov all 4.0.0-1 [26.1 kB] Get: 163 http://deb.debian.org/debian bookworm/main i386 python3-pytest-runner all 2.11.1-4 [8432 B] Get: 164 http://deb.debian.org/debian bookworm/main i386 python3-pytest-xdist all 3.1.0-1 [39.6 kB] Get: 165 http://deb.debian.org/debian bookworm/main i386 python3-urllib3 all 1.26.12-1 [117 kB] Get: 166 http://deb.debian.org/debian bookworm/main i386 python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get: 167 http://deb.debian.org/debian bookworm/main i386 python3-snowballstemmer all 2.2.0-2 [57.8 kB] Get: 168 http://deb.debian.org/debian bookworm/main i386 sphinx-common all 5.3.0-4 [653 kB] Get: 169 http://deb.debian.org/debian bookworm/main i386 python3-sphinx all 5.3.0-4 [549 kB] Get: 170 http://deb.debian.org/debian bookworm/main i386 python3-uritools all 4.0.0-1 [25.3 kB] Get: 171 http://deb.debian.org/debian bookworm/main i386 python3-xmlschema all 1.10.0-6 [177 kB] Fetched 76.4 MB in 14s (5494 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libjs-jquery. (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 ... 18156 files and directories currently installed.) Preparing to unpack .../libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-jquery-hotkeys. Preparing to unpack .../libjs-jquery-hotkeys_0~20130707+git2d51e3a9+dfsg-2.1_all.deb ... Unpacking libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ... Selecting previously unselected package libpython3.11-minimal:i386. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_i386.deb ... Unpacking libpython3.11-minimal:i386 (3.11.2-6) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.5.0-1_i386.deb ... Unpacking libexpat1:i386 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_i386.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:i386 (3.11.2-6) ... Setting up libexpat1:i386 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (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 ... 18498 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_i386.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../2-mailcap_3.70+nmu1_all.deb ... Unpacking mailcap (3.70+nmu1) ... Selecting previously unselected package mime-support. Preparing to unpack .../3-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../5-libreadline8_8.2-1.3_i386.deb ... Unpacking libreadline8:i386 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:i386. Preparing to unpack .../6-libpython3.11-stdlib_3.11.2-6_i386.deb ... Unpacking libpython3.11-stdlib:i386 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.2-6_i386.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../8-libpython3-stdlib_3.11.2-1+b1_i386.deb ... Unpacking libpython3-stdlib:i386 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (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 ... 18956 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_i386.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package tzdata. Preparing to unpack .../002-tzdata_2023c-5+deb12u1_all.deb ... Unpacking tzdata (2023c-5+deb12u1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.0.11-1~deb12u2_i386.deb ... Unpacking openssl (3.0.11-1~deb12u2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.44-3_i386.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../007-libmagic1_1%3a5.44-3_i386.deb ... Unpacking libmagic1:i386 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.44-3_i386.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.21-12_i386.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../010-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.22.4-10_i386.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../012-bsdextrautils_2.38.1-5+b1_i386.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../013-libpipeline1_1.5.7-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../014-man-db_2.11.2-2_i386.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package m4. Preparing to unpack .../015-m4_1.4.19-3_i386.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../016-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../017-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../018-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../019-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../020-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../021-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../022-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../023-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../024-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../025-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../026-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../027-libelf1_0.188-2.1_i386.deb ... Unpacking libelf1:i386 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../028-dwz_0.15-1_i386.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../029-libicu72_72.1-3_i386.deb ... Unpacking libicu72:i386 (72.1-3) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../030-libxml2_2.9.14+dfsg-1.3~deb12u1_i386.deb ... Unpacking libxml2:i386 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package gettext. Preparing to unpack .../031-gettext_0.21-12_i386.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../032-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../033-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../034-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../035-python3-lib2to3_3.11.2-3_all.deb ... Unpacking python3-lib2to3 (3.11.2-3) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../036-python3-distutils_3.11.2-3_all.deb ... Unpacking python3-distutils (3.11.2-3) ... Selecting previously unselected package dh-python. Preparing to unpack .../037-dh-python_5.20230130+deb12u1_all.deb ... Unpacking dh-python (5.20230130+deb12u1) ... Selecting previously unselected package xml-core. Preparing to unpack .../038-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package docutils-common. Preparing to unpack .../039-docutils-common_0.19+dfsg-6_all.deb ... Unpacking docutils-common (0.19+dfsg-6) ... Selecting previously unselected package libfontenc1:i386. Preparing to unpack .../040-libfontenc1_1%3a1.1.4-1_i386.deb ... Unpacking libfontenc1:i386 (1:1.1.4-1) ... Selecting previously unselected package libbrotli1:i386. Preparing to unpack .../041-libbrotli1_1.0.9-2+b6_i386.deb ... Unpacking libbrotli1:i386 (1.0.9-2+b6) ... Selecting previously unselected package libpng16-16:i386. Preparing to unpack .../042-libpng16-16_1.6.39-2_i386.deb ... Unpacking libpng16-16:i386 (1.6.39-2) ... Selecting previously unselected package libfreetype6:i386. Preparing to unpack .../043-libfreetype6_2.12.1+dfsg-5_i386.deb ... Unpacking libfreetype6:i386 (2.12.1+dfsg-5) ... Selecting previously unselected package x11-common. Preparing to unpack .../044-x11-common_1%3a7.7+23_all.deb ... Unpacking x11-common (1:7.7+23) ... Selecting previously unselected package xfonts-encodings. Preparing to unpack .../045-xfonts-encodings_1%3a1.0.4-2.2_all.deb ... Unpacking xfonts-encodings (1:1.0.4-2.2) ... Selecting previously unselected package xfonts-utils. Preparing to unpack .../046-xfonts-utils_1%3a7.7+6_i386.deb ... Unpacking xfonts-utils (1:7.7+6) ... Selecting previously unselected package fonts-urw-base35. Preparing to unpack .../047-fonts-urw-base35_20200910-7_all.deb ... Unpacking fonts-urw-base35 (20200910-7) ... Selecting previously unselected package libaec0:i386. Preparing to unpack .../048-libaec0_1.0.6-1+b1_i386.deb ... Unpacking libaec0:i386 (1.0.6-1+b1) ... Selecting previously unselected package libblas3:i386. Preparing to unpack .../049-libblas3_3.11.0-2_i386.deb ... Unpacking libblas3:i386 (3.11.0-2) ... Selecting previously unselected package libbsd0:i386. Preparing to unpack .../050-libbsd0_0.11.7-2_i386.deb ... Unpacking libbsd0:i386 (0.11.7-2) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../051-libsasl2-modules-db_2.1.28+dfsg-10_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../052-libsasl2-2_2.1.28+dfsg-10_i386.deb ... Unpacking libsasl2-2:i386 (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:i386. Preparing to unpack .../053-libldap-2.5-0_2.5.13+dfsg-5_i386.deb ... Unpacking libldap-2.5-0:i386 (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../054-libnghttp2-14_1.52.0-1+deb12u1_i386.deb ... Unpacking libnghttp2-14:i386 (1.52.0-1+deb12u1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../055-libpsl5_0.21.2-1_i386.deb ... Unpacking libpsl5:i386 (0.21.2-1) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../056-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../057-libssh2-1_1.10.0-3+b1_i386.deb ... Unpacking libssh2-1:i386 (1.10.0-3+b1) ... Selecting previously unselected package libcurl3-gnutls:i386. Preparing to unpack .../058-libcurl3-gnutls_7.88.1-10+deb12u4_i386.deb ... Unpacking libcurl3-gnutls:i386 (7.88.1-10+deb12u4) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../059-libcurl4_7.88.1-10+deb12u4_i386.deb ... Unpacking libcurl4:i386 (7.88.1-10+deb12u4) ... Selecting previously unselected package libdeflate0:i386. Preparing to unpack .../060-libdeflate0_1.14-1_i386.deb ... Unpacking libdeflate0:i386 (1.14-1) ... Selecting previously unselected package libfribidi0:i386. Preparing to unpack .../061-libfribidi0_1.0.8-2.1_i386.deb ... Unpacking libfribidi0:i386 (1.0.8-2.1) ... Selecting previously unselected package libgfortran5:i386. Preparing to unpack .../062-libgfortran5_12.2.0-14_i386.deb ... Unpacking libgfortran5:i386 (12.2.0-14) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../063-libglib2.0-0_2.74.6-2_i386.deb ... Unpacking libglib2.0-0:i386 (2.74.6-2) ... Selecting previously unselected package libgraphite2-3:i386. Preparing to unpack .../064-libgraphite2-3_1.3.14-1_i386.deb ... Unpacking libgraphite2-3:i386 (1.3.14-1) ... Selecting previously unselected package libharfbuzz0b:i386. Preparing to unpack .../065-libharfbuzz0b_6.0.0+dfsg-3_i386.deb ... Unpacking libharfbuzz0b:i386 (6.0.0+dfsg-3) ... Selecting previously unselected package libsz2:i386. Preparing to unpack .../066-libsz2_1.0.6-1+b1_i386.deb ... Unpacking libsz2:i386 (1.0.6-1+b1) ... Selecting previously unselected package libhdf5-103-1:i386. Preparing to unpack .../067-libhdf5-103-1_1.10.8+repack1-1_i386.deb ... Unpacking libhdf5-103-1:i386 (1.10.8+repack1-1) ... Selecting previously unselected package libhdf5-hl-100:i386. Preparing to unpack .../068-libhdf5-hl-100_1.10.8+repack1-1_i386.deb ... Unpacking libhdf5-hl-100:i386 (1.10.8+repack1-1) ... Selecting previously unselected package libhtscodecs2:i386. Preparing to unpack .../069-libhtscodecs2_1.3.0-4_i386.deb ... Unpacking libhtscodecs2:i386 (1.3.0-4) ... Selecting previously unselected package libhts3:i386. Preparing to unpack .../070-libhts3_1.16+ds-3_i386.deb ... Unpacking libhts3:i386 (1.16+ds-3) ... Selecting previously unselected package libimagequant0:i386. Preparing to unpack .../071-libimagequant0_2.17.0-1_i386.deb ... Unpacking libimagequant0:i386 (2.17.0-1) ... Selecting previously unselected package libjbig0:i386. Preparing to unpack .../072-libjbig0_2.1-6.1_i386.deb ... Unpacking libjbig0:i386 (2.1-6.1) ... Selecting previously unselected package libjpeg62-turbo:i386. Preparing to unpack .../073-libjpeg62-turbo_1%3a2.1.5-2_i386.deb ... Unpacking libjpeg62-turbo:i386 (1:2.1.5-2) ... Selecting previously unselected package libjs-jquery-isonscreen. Preparing to unpack .../074-libjs-jquery-isonscreen_1.2.0-1.1_all.deb ... Unpacking libjs-jquery-isonscreen (1.2.0-1.1) ... Selecting previously unselected package libjs-jquery-metadata. Preparing to unpack .../075-libjs-jquery-metadata_12-4_all.deb ... Unpacking libjs-jquery-metadata (12-4) ... Selecting previously unselected package libjs-jquery-tablesorter. Preparing to unpack .../076-libjs-jquery-tablesorter_1%3a2.31.3+dfsg1-3_all.deb ... Unpacking libjs-jquery-tablesorter (1:2.31.3+dfsg1-3) ... Selecting previously unselected package libjs-jquery-throttle-debounce. Preparing to unpack .../077-libjs-jquery-throttle-debounce_1.1+dfsg.1-2_all.deb ... Unpacking libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... Selecting previously unselected package libjs-underscore. Preparing to unpack .../078-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Selecting previously unselected package libjs-sphinxdoc. Preparing to unpack .../079-libjs-sphinxdoc_5.3.0-4_all.deb ... Unpacking libjs-sphinxdoc (5.3.0-4) ... Selecting previously unselected package libjson-perl. Preparing to unpack .../080-libjson-perl_4.10000-1_all.deb ... Unpacking libjson-perl (4.10000-1) ... Selecting previously unselected package liblapack3:i386. Preparing to unpack .../081-liblapack3_3.11.0-2_i386.deb ... Unpacking liblapack3:i386 (3.11.0-2) ... Selecting previously unselected package liblcms2-2:i386. Preparing to unpack .../082-liblcms2-2_2.14-2_i386.deb ... Unpacking liblcms2-2:i386 (2.14-2) ... Selecting previously unselected package liblerc4:i386. Preparing to unpack .../083-liblerc4_4.0.0+ds-2_i386.deb ... Unpacking liblerc4:i386 (4.0.0+ds-2) ... Selecting previously unselected package liblzf1:i386. Preparing to unpack .../084-liblzf1_3.6-3_i386.deb ... Unpacking liblzf1:i386 (3.6-3) ... Selecting previously unselected package libopenjp2-7:i386. Preparing to unpack .../085-libopenjp2-7_2.5.0-2_i386.deb ... Unpacking libopenjp2-7:i386 (2.5.0-2) ... Selecting previously unselected package libraqm0:i386. Preparing to unpack .../086-libraqm0_0.7.0-4.1_i386.deb ... Unpacking libraqm0:i386 (0.7.0-4.1) ... Selecting previously unselected package libwebp7:i386. Preparing to unpack .../087-libwebp7_1.2.4-0.2+deb12u1_i386.deb ... Unpacking libwebp7:i386 (1.2.4-0.2+deb12u1) ... Selecting previously unselected package libtiff6:i386. Preparing to unpack .../088-libtiff6_4.5.0-6+deb12u1_i386.deb ... Unpacking libtiff6:i386 (4.5.0-6+deb12u1) ... Selecting previously unselected package libwebpdemux2:i386. Preparing to unpack .../089-libwebpdemux2_1.2.4-0.2+deb12u1_i386.deb ... Unpacking libwebpdemux2:i386 (1.2.4-0.2+deb12u1) ... Selecting previously unselected package libwebpmux3:i386. Preparing to unpack .../090-libwebpmux3_1.2.4-0.2+deb12u1_i386.deb ... Unpacking libwebpmux3:i386 (1.2.4-0.2+deb12u1) ... Selecting previously unselected package libxau6:i386. Preparing to unpack .../091-libxau6_1%3a1.0.9-1_i386.deb ... Unpacking libxau6:i386 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:i386. Preparing to unpack .../092-libxdmcp6_1%3a1.1.2-3_i386.deb ... Unpacking libxdmcp6:i386 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:i386. Preparing to unpack .../093-libxcb1_1.15-1_i386.deb ... Unpacking libxcb1:i386 (1.15-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../094-python3-pkg-resources_66.1.1-1_all.deb ... Unpacking python3-pkg-resources (66.1.1-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../095-python3-setuptools_66.1.1-1_all.deb ... Unpacking python3-setuptools (66.1.1-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../096-python3-six_1.16.0-4_all.deb ... Unpacking python3-six (1.16.0-4) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../097-python3-typing-extensions_4.4.0-1_all.deb ... Unpacking python3-typing-extensions (4.4.0-1) ... Selecting previously unselected package python3-lazy-object-proxy. Preparing to unpack .../098-python3-lazy-object-proxy_1.9.0-1+b1_i386.deb ... Unpacking python3-lazy-object-proxy (1.9.0-1+b1) ... Selecting previously unselected package python3-wrapt. Preparing to unpack .../099-python3-wrapt_1.14.1-2+b2_i386.deb ... Unpacking python3-wrapt (1.14.1-2+b2) ... Selecting previously unselected package python3-astroid. Preparing to unpack .../100-python3-astroid_2.14.2-1_all.deb ... Unpacking python3-astroid (2.14.2-1) ... Selecting previously unselected package python3-toml. Preparing to unpack .../101-python3-toml_0.10.2-1_all.deb ... Unpacking python3-toml (0.10.2-1) ... Selecting previously unselected package python3-isort. Preparing to unpack .../102-python3-isort_5.6.4-1_all.deb ... Unpacking python3-isort (5.6.4-1) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../103-python3-more-itertools_8.10.0-2_all.deb ... Unpacking python3-more-itertools (8.10.0-2) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../104-python3-zipp_1.0.0-6_all.deb ... Unpacking python3-zipp (1.0.0-6) ... Selecting previously unselected package python3-importlib-metadata. Preparing to unpack .../105-python3-importlib-metadata_4.12.0-1_all.deb ... Unpacking python3-importlib-metadata (4.12.0-1) ... Selecting previously unselected package python3-mypy-extensions. Preparing to unpack .../106-python3-mypy-extensions_0.4.3-4_all.deb ... Unpacking python3-mypy-extensions (0.4.3-4) ... Selecting previously unselected package python3-logilab-common. Preparing to unpack .../107-python3-logilab-common_1.9.8-1_all.deb ... Unpacking python3-logilab-common (1.9.8-1) ... Selecting previously unselected package python3-dill. Preparing to unpack .../108-python3-dill_0.3.6-1_all.deb ... Unpacking python3-dill (0.3.6-1) ... Selecting previously unselected package python3-mccabe. Preparing to unpack .../109-python3-mccabe_0.7.0-1_all.deb ... Unpacking python3-mccabe (0.7.0-1) ... Selecting previously unselected package python3-platformdirs. Preparing to unpack .../110-python3-platformdirs_2.6.0-1_all.deb ... Unpacking python3-platformdirs (2.6.0-1) ... Selecting previously unselected package python3-tomlkit. Preparing to unpack .../111-python3-tomlkit_0.11.7-1_all.deb ... Unpacking python3-tomlkit (0.11.7-1) ... Selecting previously unselected package pylint. Preparing to unpack .../112-pylint_2.16.2-2_all.deb ... Unpacking pylint (2.16.2-2) ... Selecting previously unselected package python-babel-localedata. Preparing to unpack .../113-python-babel-localedata_2.10.3-1_all.deb ... Unpacking python-babel-localedata (2.10.3-1) ... Selecting previously unselected package python3-alabaster. Preparing to unpack .../114-python3-alabaster_0.7.12-1_all.deb ... Unpacking python3-alabaster (0.7.12-1) ... Selecting previously unselected package python3-all. Preparing to unpack .../115-python3-all_3.11.2-1+b1_i386.deb ... Unpacking python3-all (3.11.2-1+b1) ... Selecting previously unselected package python3-attr. Preparing to unpack .../116-python3-attr_22.2.0-1_all.deb ... Unpacking python3-attr (22.2.0-1) ... Selecting previously unselected package python3-tz. Preparing to unpack .../117-python3-tz_2022.7.1-4_all.deb ... Unpacking python3-tz (2022.7.1-4) ... Selecting previously unselected package python3-babel. Preparing to unpack .../118-python3-babel_2.10.3-1_all.deb ... Unpacking python3-babel (2.10.3-1) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../119-python3-numpy_1%3a1.24.2-1_i386.deb ... Unpacking python3-numpy (1:1.24.2-1) ... Selecting previously unselected package python3-renderpm:i386. Preparing to unpack .../120-python3-renderpm_3.6.12-1+b1_i386.deb ... Unpacking python3-renderpm:i386 (3.6.12-1+b1) ... Selecting previously unselected package python3-reportlab-accel:i386. Preparing to unpack .../121-python3-reportlab-accel_3.6.12-1+b1_i386.deb ... Unpacking python3-reportlab-accel:i386 (3.6.12-1+b1) ... Selecting previously unselected package python3-pil:i386. Preparing to unpack .../122-python3-pil_9.4.0-1.1+b1_i386.deb ... Unpacking python3-pil:i386 (9.4.0-1.1+b1) ... Selecting previously unselected package python3-reportlab. Preparing to unpack .../123-python3-reportlab_3.6.12-1_all.deb ... Unpacking python3-reportlab (3.6.12-1) ... Selecting previously unselected package w3c-sgml-lib. Preparing to unpack .../124-w3c-sgml-lib_1.3-3_all.deb ... Unpacking w3c-sgml-lib (1.3-3) ... Selecting previously unselected package python3-biopython. Preparing to unpack .../125-python3-biopython_1.80+dfsg-4+b1_i386.deb ... Unpacking python3-biopython (1.80+dfsg-4+b1) ... Selecting previously unselected package python3-certifi. Preparing to unpack .../126-python3-certifi_2022.9.24-1_all.deb ... Unpacking python3-certifi (2022.9.24-1) ... Selecting previously unselected package python3-chardet. Preparing to unpack .../127-python3-chardet_5.1.0+dfsg-2_all.deb ... Unpacking python3-chardet (5.1.0+dfsg-2) ... Selecting previously unselected package python3-charset-normalizer. Preparing to unpack .../128-python3-charset-normalizer_3.0.1-2_all.deb ... Unpacking python3-charset-normalizer (3.0.1-2) ... Selecting previously unselected package python3-coverage. Preparing to unpack .../129-python3-coverage_6.5.0+dfsg1-2+b1_i386.deb ... Unpacking python3-coverage (6.5.0+dfsg1-2+b1) ... Selecting previously unselected package python3-roman. Preparing to unpack .../130-python3-roman_3.3-3_all.deb ... Unpacking python3-roman (3.3-3) ... Selecting previously unselected package python3-docutils. Preparing to unpack .../131-python3-docutils_0.19+dfsg-6_all.deb ... Unpacking python3-docutils (0.19+dfsg-6) ... Selecting previously unselected package python3-elementpath. Preparing to unpack .../132-python3-elementpath_2.5.3-1_all.deb ... Unpacking python3-elementpath (2.5.3-1) ... Selecting previously unselected package python3-execnet. Preparing to unpack .../133-python3-execnet_1.9.0-1_all.deb ... Unpacking python3-execnet (1.9.0-1) ... Selecting previously unselected package python3-h5py-serial. Preparing to unpack .../134-python3-h5py-serial_3.7.0-8_i386.deb ... Unpacking python3-h5py-serial (3.7.0-8) ... Selecting previously unselected package python3-h5py. Preparing to unpack .../135-python3-h5py_3.7.0-8_all.deb ... Unpacking python3-h5py (3.7.0-8) ... Selecting previously unselected package python3-idna. Preparing to unpack .../136-python3-idna_3.3-1_all.deb ... Unpacking python3-idna (3.3-1) ... Selecting previously unselected package python3-imagesize. Preparing to unpack .../137-python3-imagesize_1.4.1-1_all.deb ... Unpacking python3-imagesize (1.4.1-1) ... Selecting previously unselected package python3-iniconfig. Preparing to unpack .../138-python3-iniconfig_1.1.1-2_all.deb ... Unpacking python3-iniconfig (1.1.1-2) ... Selecting previously unselected package python3-markupsafe. Preparing to unpack .../139-python3-markupsafe_2.1.2-1+b1_i386.deb ... Unpacking python3-markupsafe (2.1.2-1+b1) ... Selecting previously unselected package python3-jinja2. Preparing to unpack .../140-python3-jinja2_3.1.2-1_all.deb ... Unpacking python3-jinja2 (3.1.2-1) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../141-python3-packaging_23.0-1_all.deb ... Unpacking python3-packaging (23.0-1) ... Selecting previously unselected package python3-pluggy. Preparing to unpack .../142-python3-pluggy_1.0.0+repack-1_all.deb ... Unpacking python3-pluggy (1.0.0+repack-1) ... Selecting previously unselected package python3-py. Preparing to unpack .../143-python3-py_1.11.0-1_all.deb ... Unpacking python3-py (1.11.0-1) ... Selecting previously unselected package python3-pygments. Preparing to unpack .../144-python3-pygments_2.14.0+dfsg-1_all.deb ... Unpacking python3-pygments (2.14.0+dfsg-1) ... Selecting previously unselected package python3-pysam. Preparing to unpack .../145-python3-pysam_0.20.0+ds-3+b1_i386.deb ... Unpacking python3-pysam (0.20.0+ds-3+b1) ... Selecting previously unselected package python3-pytest. Preparing to unpack .../146-python3-pytest_7.2.1-2_all.deb ... Unpacking python3-pytest (7.2.1-2) ... Selecting previously unselected package python3-pytest-cov. Preparing to unpack .../147-python3-pytest-cov_4.0.0-1_all.deb ... Unpacking python3-pytest-cov (4.0.0-1) ... Selecting previously unselected package python3-pytest-runner. Preparing to unpack .../148-python3-pytest-runner_2.11.1-4_all.deb ... Unpacking python3-pytest-runner (2.11.1-4) ... Selecting previously unselected package python3-pytest-xdist. Preparing to unpack .../149-python3-pytest-xdist_3.1.0-1_all.deb ... Unpacking python3-pytest-xdist (3.1.0-1) ... Selecting previously unselected package python3-urllib3. Preparing to unpack .../150-python3-urllib3_1.26.12-1_all.deb ... Unpacking python3-urllib3 (1.26.12-1) ... Selecting previously unselected package python3-requests. Preparing to unpack .../151-python3-requests_2.28.1+dfsg-1_all.deb ... Unpacking python3-requests (2.28.1+dfsg-1) ... Selecting previously unselected package python3-snowballstemmer. Preparing to unpack .../152-python3-snowballstemmer_2.2.0-2_all.deb ... Unpacking python3-snowballstemmer (2.2.0-2) ... Selecting previously unselected package sphinx-common. Preparing to unpack .../153-sphinx-common_5.3.0-4_all.deb ... Unpacking sphinx-common (5.3.0-4) ... Selecting previously unselected package python3-sphinx. Preparing to unpack .../154-python3-sphinx_5.3.0-4_all.deb ... Unpacking python3-sphinx (5.3.0-4) ... Selecting previously unselected package python3-uritools. Preparing to unpack .../155-python3-uritools_4.0.0-1_all.deb ... Unpacking python3-uritools (4.0.0-1) ... Selecting previously unselected package python3-xmlschema. Preparing to unpack .../156-python3-xmlschema_1.10.0-6_all.deb ... Unpacking python3-xmlschema (1.10.0-6) ... Setting up libhtscodecs2:i386 (1.3.0-4) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:i386 (1.5.7-1) ... Setting up libgraphite2-3:i386 (1.3.14-1) ... Setting up liblcms2-2:i386 (2.14-2) ... Setting up libxau6:i386 (1:1.0.9-1) ... Setting up libpsl5:i386 (0.21.2-1) ... Setting up libicu72:i386 (72.1-3) ... Setting up liblerc4:i386 (4.0.0+ds-2) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:i386 (2.74.6-2) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:i386 (1.0.9-2+b6) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libnghttp2-14:i386 (1.52.0-1+deb12u1) ... Setting up libmagic1:i386 (1:5.44-3) ... Setting up libdeflate0:i386 (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libjs-jquery-throttle-debounce (1.1+dfsg.1-2) ... Setting up libjbig0:i386 (2.1-6.1) ... Setting up libaec0:i386 (1.0.6-1+b1) ... Setting up python-babel-localedata (2.10.3-1) ... Setting up libsasl2-modules-db:i386 (2.1.28+dfsg-10) ... Setting up tzdata (2023c-5+deb12u1) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Jan 6 16:19:11 UTC 2024. Universal Time is now: Sat Jan 6 16:19:11 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libfontenc1:i386 (1:1.1.4-1) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:i386 (3.11.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libjpeg62-turbo:i386 (1:2.1.5-2) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up liblzf1:i386 (3.6-3) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:i386 (1.0.8-2.1) ... Setting up libimagequant0:i386 (2.17.0-1) ... Setting up libpng16-16:i386 (1.6.39-2) ... Setting up autopoint (0.21-12) ... Setting up libsasl2-2:i386 (2.1.28+dfsg-10) ... Setting up libgfortran5:i386 (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:i386 (1.2.4-0.2+deb12u1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libtiff6:i386 (4.5.0-6+deb12u1) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libjson-perl (4.10000-1) ... Setting up libopenjp2-7:i386 (2.5.0-2) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:i386 (1.10.0-3+b1) ... Setting up sgml-base (1.31) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libjs-jquery-hotkeys (0~20130707+git2d51e3a9+dfsg-2.1) ... Setting up openssl (3.0.11-1~deb12u2) ... Setting up libwebpmux3:i386 (1.2.4-0.2+deb12u1) ... Setting up libbsd0:i386 (0.11.7-2) ... Setting up mailcap (3.70+nmu1) ... Setting up libelf1:i386 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libsz2:i386 (1.0.6-1+b1) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up liblapack3:i386 (3.11.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up libxcb1:i386 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up mime-support (3.66) ... Setting up libtool (2.4.7-5) ... Setting up libwebpdemux2:i386 (1.2.4-0.2+deb12u1) ... Setting up libreadline8:i386 (8.2-1.3) ... Setting up libldap-2.5-0:i386 (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libfreetype6:i386 (2.12.1+dfsg-5) ... Setting up libjs-jquery-metadata (12-4) ... Setting up libjs-jquery-isonscreen (1.2.0-1.1) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up libjs-jquery-tablesorter (1:2.31.3+dfsg1-3) ... Setting up groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up libcurl4:i386 (7.88.1-10+deb12u4) ... Setting up libharfbuzz0b:i386 (6.0.0+dfsg-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:i386 (3.11.2-6) ... Setting up libcurl3-gnutls:i386 (7.88.1-10+deb12u4) ... Setting up xfonts-utils (1:7.7+6) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libraqm0:i386 (0.7.0-4.1) ... Setting up sphinx-common (5.3.0-4) ... Setting up libhdf5-103-1:i386 (1.10.8+repack1-1) ... Setting up libpython3-stdlib:i386 (3.11.2-1+b1) ... Setting up libhdf5-hl-100:i386 (1.10.8+repack1-1) ... Setting up python3.11 (3.11.2-6) ... Setting up libhts3:i386 (1.16+ds-3) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up python3-markupsafe (2.1.2-1+b1) ... Setting up python3-platformdirs (2.6.0-1) ... Setting up python3-tz (2022.7.1-4) ... Setting up python3-six (1.16.0-4) ... Setting up python3-pil:i386 (9.4.0-1.1+b1) ... Setting up python3-roman (3.3-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-snowballstemmer (2.2.0-2) ... Setting up python3-dill (0.3.6-1) ... Setting up python3-reportlab-accel:i386 (3.6.12-1+b1) ... Setting up python3-idna (3.3-1) ... Setting up python3-wrapt (1.14.1-2+b2) ... Setting up python3-elementpath (2.5.3-1) ... Setting up python3-typing-extensions (4.4.0-1) ... Setting up python3-xmlschema (1.10.0-6) ... Setting up python3-toml (0.10.2-1) ... Setting up python3-isort (5.6.4-1) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up python3-pluggy (1.0.0+repack-1) ... Setting up python3-reportlab (3.6.12-1) ... Setting up python3-mccabe (0.7.0-1) ... Setting up python3-lazy-object-proxy (1.9.0-1+b1) ... Setting up python3-execnet (1.9.0-1) ... Setting up python3-tomlkit (0.11.7-1) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-imagesize (1.4.1-1) ... Setting up python3-uritools (4.0.0-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130+deb12u1) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-attr (22.2.0-1) ... Setting up python3-pysam (0.20.0+ds-3+b1) ... Setting up python3-renderpm:i386 (3.6.12-1+b1) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3-py (1.11.0-1) ... Setting up python3-babel (2.10.3-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-charset-normalizer (3.0.1-2) ... Setting up python3-pytest (7.2.1-2) ... Setting up python3-alabaster (0.7.12-1) ... Setting up python3-mypy-extensions (0.4.3-4) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-coverage (6.5.0+dfsg1-2+b1) ... Setting up python3-pytest-cov (4.0.0-1) ... Setting up python3-zipp (1.0.0-6) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up python3-chardet (5.1.0+dfsg-2) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-astroid (2.14.2-1) ... Setting up python3-pytest-runner (2.11.1-4) ... Setting up python3-importlib-metadata (4.12.0-1) ... Setting up python3-pytest-xdist (3.1.0-1) ... Setting up python3-logilab-common (1.9.8-1) ... Setting up python3-h5py-serial (3.7.0-8) ... Setting up python3-h5py (3.7.0-8) ... Setting up pylint (2.16.2-2) ... Processing triggers for libc-bin (2.36-9+deb12u3) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up docutils-common (0.19+dfsg-6) ... Setting up python3-biopython (1.80+dfsg-4+b1) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up python3-sphinx (5.3.0-4) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/python-pbcore-2.1.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../python-pbcore_2.1.2+dfsg-5_source.changes dpkg-buildpackage: info: source package python-pbcore dpkg-buildpackage: info: source version 2.1.2+dfsg-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean' dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean' rm -f doc/pbcore.data.datasets.rst doc/pbcore.io.align.rst doc/pbcore.io.dataset.pyxb.rst rm -fr coverage.xml .eggs/README.txt .pytest_cache rm -rf .pybuild rm -rf _tmp doc/_build/ find . -name __pycache__ | xargs -r rm -rf rm -f .coverage nosetests.xml rm -rf pbcore.egg-info make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean' dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:240: python3.11 setup.py config /usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean' dh_auto_build I: pybuild base:240: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running build running build_py creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore copying pbcore/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore copying pbcore/sequence.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry copying pbcore/chemistry/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry copying pbcore/chemistry/chemistry.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model copying pbcore/model/baseRegions.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model copying pbcore/model/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/model creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/FastaIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/FastqIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/GffIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/opener.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/_utils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/FofnIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/base.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io copying pbcore/io/VcfIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util copying pbcore/util/ToolRunner.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util copying pbcore/util/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util copying pbcore/util/statistics.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util copying pbcore/util/decorators.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/util creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/_AlignmentMixin.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/BamIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/BlasrIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/PacBioBamIndex.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/BamAlignment.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align copying pbcore/io/align/_BamSupport.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/align creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetIO.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/run_split.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetMetaTypes.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetErrors.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetReader.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetWriter.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetMembers.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetValidator.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/__init__.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/DataSetUtils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset copying pbcore/io/dataset/utils.py -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset running egg_info creating pbcore.egg-info writing pbcore.egg-info/PKG-INFO writing dependency_links to pbcore.egg-info/dependency_links.txt writing entry points to pbcore.egg-info/entry_points.txt writing requirements to pbcore.egg-info/requires.txt writing top-level names to pbcore.egg-info/top_level.txt writing manifest file 'pbcore.egg-info/SOURCES.txt' reading manifest file 'pbcore.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.txt' warning: no directories found matching 'bin' adding license file 'LICENSE' writing manifest file 'pbcore.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pbcore.chemistry.resources' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'pbcore.chemistry.resources' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'pbcore.chemistry.resources' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'pbcore.chemistry.resources' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) copying pbcore/data/Fluidigm_human_amplicons.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/Fluidigm_human_amplicons.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/Fluidigm_human_amplicons_tiny.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/barcodes-ed65-450.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/barcodes-ed65-450.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/blasr-output.m4 -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/blasr-output.m5 -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/chemistry.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/empty.aligned_subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/empty.aligned_subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/empty.ccs.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/empty.ccs.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/empty2.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/empty2.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/lambdaNEB.fa -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/lambdaNEB.fa.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m130727_114215_42211_c100569412550000001823090301191423_s1_p0.ccs.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.aligned_subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.scraps.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/variants.gff -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/weird.fa -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data copying pbcore/data/weird.fa.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data creating /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/resources copying pbcore/chemistry/resources/mapping.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/chemistry/resources copying pbcore/data/datasets/CollectionMetadata.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/alignment.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/barcode.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/ccsaligned.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/ccsread.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/contig.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/empty_lambda.aligned.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/empty_lambda.aligned.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/empty_lambda.aligned.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/fofn.fofn -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/lambda.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/lambda.referenceset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/m140905_042212_sidney_c100564852550000001823085912221377_s1_X0.subreads.fake_bc.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/m150430_142051_Mon_p1_b25.sts.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/m150616_053259_ethan_c100710482550000001823136404221563_s1_p0.sts.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.alignmentset.chunk0contigs.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.alignmentset.chunk1contigs.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.pbalign.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.pbalign.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.pbalign.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.reference.fasta -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.reference.fasta.fai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.referenceset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim0.subreadset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.alignmentset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.pbalign.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.pbalign.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.pbalign.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.subreads.bam -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.subreads.bam.bai -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.subreads.bam.pbi -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/pbalchemysim1.subreadset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/reference.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/subread.dataset.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets copying pbcore/data/datasets/subreadSetWithStats.xml -> /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/data/datasets PYTHONPATH=/build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build /usr/bin/make doc make[2]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' sphinx-apidoc -o doc/ pbcore/ && cd doc/ && make html File doc/pbcore.rst already exists, skipping. File doc/pbcore.chemistry.rst already exists, skipping. File doc/pbcore.data.rst already exists, skipping. Creating file doc/pbcore.data.datasets.rst. File doc/pbcore.io.rst already exists, skipping. Creating file doc/pbcore.io.align.rst. File doc/pbcore.io.dataset.rst already exists, skipping. File doc/pbcore.model.rst already exists, skipping. File doc/pbcore.util.rst already exists, skipping. File doc/modules.rst already exists, skipping. make[3]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc' sphinx-apidoc -o . -d 4 ../pbcore/ File ./pbcore.rst already exists, skipping. File ./pbcore.chemistry.rst already exists, skipping. File ./pbcore.data.rst already exists, skipping. File ./pbcore.data.datasets.rst already exists, skipping. File ./pbcore.io.rst already exists, skipping. File ./pbcore.io.align.rst already exists, skipping. File ./pbcore.io.dataset.rst already exists, skipping. File ./pbcore.model.rst already exists, skipping. File ./pbcore.util.rst already exists, skipping. File ./modules.rst already exists, skipping. sphinx-build -b html -d _build/doctrees . _build/html Running Sphinx v5.3.0 making output directory... done loading intersphinx inventory from http://docs.python.org/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to : HTTPConnectionPool(host='docs.python.org', port=80): Max retries exceeded with url: /objects.inv (Caused by NewConnectionError(': Failed to establish a new connection: [Errno -3] Temporary failure in name resolution')) building [mo]: targets for 0 po files that are out of date building [html]: targets for 11 source files that are out of date updating environment: [new config] 11 added, 0 changed, 0 removed reading sources... [ 9%] index reading sources... [ 18%] modules reading sources... [ 27%] pbcore reading sources... [ 36%] pbcore.chemistry reading sources... [ 45%] pbcore.data reading sources... [ 54%] pbcore.data.datasets reading sources... [ 63%] pbcore.io reading sources... [ 72%] pbcore.io.align reading sources... [ 81%] pbcore.io.dataset reading sources... [ 90%] pbcore.model reading sources... [100%] pbcore.util /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.rst:7: WARNING: toctree contains reference to nonexisting document 'pbcore.deprecated' /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.11_pbcore/build/pbcore/io/dataset/DataSetMembers.py:docstring of pbcore.io.dataset.DataSetMembers:47: ERROR: Unexpected indentation. WARNING: autodoc: failed to import module 'Process' from module 'pbcore.util'; the following exception was raised: No module named 'pbcore.util.Process' looking for now-outdated files... none found pickling environment... done checking consistency... /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/modules.rst: WARNING: document isn't included in any toctree /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.data.datasets.rst: WARNING: document isn't included in any toctree /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.io.align.rst: WARNING: document isn't included in any toctree /build/reproducible-path/python-pbcore-2.1.2+dfsg/doc/pbcore.io.dataset.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 9%] index writing output... [ 18%] modules writing output... [ 27%] pbcore writing output... [ 36%] pbcore.chemistry writing output... [ 45%] pbcore.data writing output... [ 54%] pbcore.data.datasets writing output... [ 63%] pbcore.io writing output... [ 72%] pbcore.io.align writing output... [ 81%] pbcore.io.dataset writing output... [ 90%] pbcore.model writing output... [100%] pbcore.util WARNING: dot command 'dot' cannot be run (needed for graphviz output), check the graphviz_dot setting generating indices... genindex py-modindex done writing additional pages... search done copying static files... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 9 warnings. The HTML pages are in _build/html. Build finished. The HTML pages are in _build/html. make[3]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg/doc' make[2]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' debian/rules:55: warning: overriding recipe for target 'override_dh_auto_clean' debian/rules:28: warning: ignoring old recipe for target 'override_dh_auto_clean' # we need to exclude tests requiring pbtestdata which is not packaged mkdir -p /tmp/tests_avoid mv `grep -l pbtestdata tests/*.py` /tmp/tests_avoid # for whatever reason this test is failing as well - just skip it for the moment mv tests/test_pbdataset_filters.py /tmp/tests_avoid PYBUILD_SYSTEM=custom \ PYBUILD_TEST_ARGS="{interpreter} setup.py test" \ dh_auto_test I: pybuild base:240: python3.11 setup.py test /usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( running pytest /usr/lib/python3/dist-packages/setuptools/dist.py:775: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead warnings.warn( /usr/lib/python3/dist-packages/setuptools/command/easy_install.py:146: EasyInstallDeprecationWarning: easy_install command is deprecated. Use build and pip and other standards-based tools. warnings.warn( /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( WARNING: Testing via this command is deprecated and will be removed in a future version. Users looking for a generic test entry point independent of test runner are encouraged to use tox. running egg_info writing pbcore.egg-info/PKG-INFO writing dependency_links to pbcore.egg-info/dependency_links.txt writing entry points to pbcore.egg-info/entry_points.txt writing requirements to pbcore.egg-info/requires.txt writing top-level names to pbcore.egg-info/top_level.txt reading manifest file 'pbcore.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.txt' warning: no directories found matching 'bin' adding license file 'LICENSE' writing manifest file 'pbcore.egg-info/SOURCES.txt' running build_ext ============================= test session starts ============================== platform linux -- Python 3.11.2, pytest-7.2.1, pluggy-1.0.0+repack -- /usr/bin/python3.11 cachedir: .pytest_cache rootdir: /build/reproducible-path/python-pbcore-2.1.2+dfsg, configfile: pytest.ini plugins: xdist-3.1.0, cov-4.0.0 gw0 I / gw1 I / gw2 I / gw3 I / gw4 I / gw5 I / gw6 I / gw7 I / gw8 I / gw9 I [gw0] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw1] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw2] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw3] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw4] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw5] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw6] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw7] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw8] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw9] linux Python 3.11.2 cwd: /build/reproducible-path/python-pbcore-2.1.2+dfsg [gw0] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw1] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw3] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw2] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw5] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw4] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw7] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw6] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw8] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] [gw9] Python 3.11.2 (main, Mar 13 2023, 12:18:29) [GCC 12.2.0] gw0 [140] / gw1 [140] / gw2 [140] / gw3 [140] / gw4 [140] / gw5 [140] / gw6 [140] / gw7 [140] / gw8 [140] / gw9 [140] scheduling tests via LoadScopeScheduling tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations tests/test_dataset_run_split.py::test tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement [gw5] [ 0%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations [gw4] [ 1%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta [gw4] [ 2%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta [gw0] [ 2%] SKIPPED tests/test_dataset_run_split.py::test tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable [gw1] [ 3%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement tests/test_pbcore_io_BlasrIO.py::test_m4 [gw1] [ 4%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4 [gw6] [ 5%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names [gw5] [ 5%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties [gw8] [ 6%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs [gw8] [ 7%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs [gw3] [ 7%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping [gw9] [ 8%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ [gw9] [ 9%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ [gw9] [ 10%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString [gw9] [ 10%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString [gw7] [ 11%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 [gw7] [ 12%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ [gw5] [ 12%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ [gw5] [ 13%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString [gw2] [ 14%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation [gw3] [ 15%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName [gw6] [ 15%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration [gw6] [ 16%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName [gw6] [ 17%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 [gw9] [ 17%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 [gw9] [ 18%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len [gw5] [ 19%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 [gw5] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 [gw5] [ 20%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len [gw3] [ 21%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead [gw3] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead [gw2] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName [gw2] [ 23%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead [gw2] [ 24%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead [gw2] [ 25%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference [gw5] [ 25%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq [gw5] [ 26%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq [gw9] [ 27%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq [gw9] [ 27%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead [gw3] [ 28%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference [gw3] [ 29%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference [gw3] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV [gw6] [ 30%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition [gw6] [ 31%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice [gw6] [ 32%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta [gw2] [ 32%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference [gw2] [ 33%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV [gw3] [ 34%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript [gw6] [ 35%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta [gw2] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript [gw2] [ 36%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments [gw3] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments [gw2] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam [gw0] [ 38%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 [gw3] [ 39%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange [gw0] [ 40%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 tests/test_pbcore_io_BlasrIO.py::test_m5 [gw1] [ 40%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5 tests/test_pbcore_io_FofnIO.py::test_simple [gw1] [ 41%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta [gw4] [ 42%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 tests/test_pbcore_io_FofnIO.py::test_empty_lines [gw0] [ 42%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 [gw4] [ 43%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii [gw8] [ 44%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str [gw8] [ 45%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification [gw8] [ 45%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString [gw8] [ 46%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString [gw1] [ 47%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 [gw7] [ 47%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers [gw7] [ 48%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal [gw5] [ 49%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal [gw9] [ 50%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs [gw5] [ 50%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex [gw9] [ 51%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs [gw6] [ 52%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted [gw6] [ 52%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted [gw9] [ 53%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff [gw9] [ 54%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 [gw0] [ 55%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations tests/test_pbcore_io_FofnIO.py::test_absolutifying [gw1] [ 55%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 [gw4] [ 56%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv [gw4] [ 57%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv [gw0] [ 57%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse [gw1] [ 58%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement [gw1] [ 59%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement [gw1] [ 60%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac [gw1] [ 60%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac [gw8] [ 61%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error tests/test_pbdataset_split.py::TestDataSetSplit::test_split [gw1] [ 62%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ [gw7] [ 62%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file [gw5] [ 63%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 [gw6] [ 64%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 [gw9] [ 65%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file [gw7] [ 65%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy [gw4] [ 66%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd [gw0] [ 67%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd [gw1] [ 67%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype [gw7] [ 68%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix [gw7] [ 69%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges [gw7] [ 70%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges [gw5] [ 70%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming [gw5] [ 71%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire [gw5] [ 72%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index [gw5] [ 72%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index [gw3] [ 73%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable [gw2] [ 74%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange [gw3] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry [gw2] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable [gw3] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry [gw2] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry [gw3] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore [gw2] [ 78%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV [gw3] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default [gw3] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default [gw3] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default [gw2] [ 81%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts [gw2] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName [gw2] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam [gw2] [ 83%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity [gw2] [ 84%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed [gw2] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed [gw8] [ 85%] FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_split tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws [gw8] [ 86%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize [gw8] [ 87%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws [gw8] [ 87%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws [gw8] [ 88%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters [gw8] [ 89%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters [gw8] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split [gw8] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references [gw8] [ 91%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter [gw8] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit [gw8] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks [gw8] [ 93%] FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split [gw8] [ 94%] FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows [gw8] [ 95%] FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split [gw8] [ 95%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name [gw8] [ 96%] FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split [gw8] [ 97%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded [gw8] [ 97%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases [gw8] [ 98%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks [gw8] [ 99%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups [gw8] [100%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups =================================== FAILURES =================================== _________________________ TestDataSetSplit.test_split __________________________ [gw8] linux -- Python 3.11.2 /usr/bin/python3.11 self = def test_split(self): ds1 = openDataSet(data.getXml(11)) assert ds1.numExternalResources > 1 > dss = list(ds1.split()) tests/test_pbdataset_split.py:24: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ pbcore/io/dataset/DataSetIO.py:1009: in split if len(self) == 0: pbcore/io/dataset/DataSetIO.py:778: in __len__ self.updateCounts() pbcore/io/dataset/DataSetIO.py:2640: in updateCounts self.assertIndexed() pbcore/io/dataset/DataSetIO.py:2492: in assertIndexed self._assertIndexed(IndexedBamReader) pbcore/io/dataset/DataSetIO.py:2039: in _assertIndexed self._openFiles() pbcore/io/dataset/DataSetIO.py:2172: in _openFiles resource = IndexedBamReader(location) pbcore/io/align/BamIO.py:397: in __init__ super().__init__(fname, referenceFastaFname) pbcore/io/align/BamIO.py:194: in __init__ self._loadReadGroupInfo() pbcore/io/align/BamIO.py:85: in _loadReadGroupInfo rgID = rgAsInt(rg["ID"]) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ rgIdString = 'c967a5cb' def rgAsInt(rgIdString): > return np.int32(int(rgIdString.split("/")[0], 16)) E OverflowError: Python int too large to convert to C long pbcore/io/align/_BamSupport.py:66: OverflowError _______ TestDataSetSplit.test_split_by_contigs_with_split_and_maxChunks ________ [gw8] linux -- Python 3.11.2 /usr/bin/python3.11 self = def test_split_by_contigs_with_split_and_maxChunks(self): # test to make sure the refWindows work when chunks == # refs > ds3 = AlignmentSet(data.getBam()) tests/test_pbdataset_split.py:415: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ pbcore/io/dataset/DataSetIO.py:2722: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:2085: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:551: in __init__ self.updateCounts() pbcore/io/dataset/DataSetIO.py:2640: in updateCounts self.assertIndexed() pbcore/io/dataset/DataSetIO.py:2492: in assertIndexed self._assertIndexed(IndexedBamReader) pbcore/io/dataset/DataSetIO.py:2039: in _assertIndexed self._openFiles() pbcore/io/dataset/DataSetIO.py:2172: in _openFiles resource = IndexedBamReader(location) pbcore/io/align/BamIO.py:397: in __init__ super().__init__(fname, referenceFastaFname) pbcore/io/align/BamIO.py:194: in __init__ self._loadReadGroupInfo() pbcore/io/align/BamIO.py:85: in _loadReadGroupInfo rgID = rgAsInt(rg["ID"]) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ rgIdString = 'c967a5cb' def rgAsInt(rgIdString): > return np.int32(int(rgIdString.split("/")[0], 16)) E OverflowError: Python int too large to convert to C long pbcore/io/align/_BamSupport.py:66: OverflowError ______________ TestDataSetSplit.test_split_by_contigs_with_split _______________ [gw8] linux -- Python 3.11.2 /usr/bin/python3.11 self = def test_split_by_contigs_with_split(self): # test to make sure the refWindows work when chunks == # refs > ds3 = AlignmentSet(data.getBam()) tests/test_pbdataset_split.py:558: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ pbcore/io/dataset/DataSetIO.py:2722: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:2085: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:551: in __init__ self.updateCounts() pbcore/io/dataset/DataSetIO.py:2640: in updateCounts self.assertIndexed() pbcore/io/dataset/DataSetIO.py:2492: in assertIndexed self._assertIndexed(IndexedBamReader) pbcore/io/dataset/DataSetIO.py:2039: in _assertIndexed self._openFiles() pbcore/io/dataset/DataSetIO.py:2172: in _openFiles resource = IndexedBamReader(location) pbcore/io/align/BamIO.py:397: in __init__ super().__init__(fname, referenceFastaFname) pbcore/io/align/BamIO.py:194: in __init__ self._loadReadGroupInfo() pbcore/io/align/BamIO.py:85: in _loadReadGroupInfo rgID = rgAsInt(rg["ID"]) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ rgIdString = 'c967a5cb' def rgAsInt(rgIdString): > return np.int32(int(rgIdString.split("/")[0], 16)) E OverflowError: Python int too large to convert to C long pbcore/io/align/_BamSupport.py:66: OverflowError _______________________ TestDataSetSplit.test_refWindows _______________________ [gw8] linux -- Python 3.11.2 /usr/bin/python3.11 self = def test_refWindows(self): > ds = AlignmentSet(data.getBam()) tests/test_pbdataset_split.py:614: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ pbcore/io/dataset/DataSetIO.py:2722: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:2085: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:551: in __init__ self.updateCounts() pbcore/io/dataset/DataSetIO.py:2640: in updateCounts self.assertIndexed() pbcore/io/dataset/DataSetIO.py:2492: in assertIndexed self._assertIndexed(IndexedBamReader) pbcore/io/dataset/DataSetIO.py:2039: in _assertIndexed self._openFiles() pbcore/io/dataset/DataSetIO.py:2172: in _openFiles resource = IndexedBamReader(location) pbcore/io/align/BamIO.py:397: in __init__ super().__init__(fname, referenceFastaFname) pbcore/io/align/BamIO.py:194: in __init__ self._loadReadGroupInfo() pbcore/io/align/BamIO.py:85: in _loadReadGroupInfo rgID = rgAsInt(rg["ID"]) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ rgIdString = 'c967a5cb' def rgAsInt(rgIdString): > return np.int32(int(rgIdString.split("/")[0], 16)) E OverflowError: Python int too large to convert to C long pbcore/io/align/_BamSupport.py:66: OverflowError _________ TestDataSetSplit.test_subreadset_split_metadata_element_name _________ [gw8] linux -- Python 3.11.2 /usr/bin/python3.11 self = def test_subreadset_split_metadata_element_name(self): fn = tempfile.NamedTemporaryFile(suffix=".subreadset.xml").name log.debug(fn) > sset = SubreadSet(data.getXml(9), data.getXml(12)) tests/test_pbdataset_split.py:645: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ pbcore/io/dataset/DataSetIO.py:2694: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:2085: in __init__ super().__init__(*files, **kwargs) pbcore/io/dataset/DataSetIO.py:553: in __init__ self.updateCounts() pbcore/io/dataset/DataSetIO.py:2640: in updateCounts self.assertIndexed() pbcore/io/dataset/DataSetIO.py:2492: in assertIndexed self._assertIndexed(IndexedBamReader) pbcore/io/dataset/DataSetIO.py:2039: in _assertIndexed self._openFiles() pbcore/io/dataset/DataSetIO.py:2172: in _openFiles resource = IndexedBamReader(location) pbcore/io/align/BamIO.py:397: in __init__ super().__init__(fname, referenceFastaFname) pbcore/io/align/BamIO.py:194: in __init__ self._loadReadGroupInfo() pbcore/io/align/BamIO.py:85: in _loadReadGroupInfo rgID = rgAsInt(rg["ID"]) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ rgIdString = 'c967a5cb' def rgAsInt(rgIdString): > return np.int32(int(rgIdString.split("/")[0], 16)) E OverflowError: Python int too large to convert to C long pbcore/io/align/_BamSupport.py:66: OverflowError =============================== warnings summary =============================== tests/test_pbcore_extract_bam_sequence.py: 1 warning tests/test_pbcore_io_AlnFileReaders.py: 118 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:356: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return _gusfieldTrans[uc].tostring().decode("ascii") tests/test_pbcore_io_FastqIO.py: 11 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/pbcore/io/FastqIO.py:239: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return (np.clip(a, 0, 93).astype(np.uint8) + 33).tostring().decode("ascii") tests/test_pbcore_io_AlnFileReaders.py: 28 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:583: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return r.tostring().decode("ascii") tests/test_pbcore_io_AlnFileReaders.py: 20 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:368: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return y.tostring().decode("ascii") tests/test_pbcore_io_AlnFileReaders.py: 14 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/pbcore/io/align/BamAlignment.py:535: DeprecationWarning: NumPy will stop allowing conversion of out-of-bound Python integers to integer arrays. The conversion of -1 to uint8 will fail in the future. For the old behavior, usually: np.array(value).astype(dtype)` will give the desired result (the cast overflows). gapCode = data.dtype.type(-1) -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html - generated xml file: /build/reproducible-path/python-pbcore-2.1.2+dfsg/nosetests.xml - ---------- coverage: platform linux, python 3.11.2-final-0 ----------- Coverage XML written to file coverage.xml ============================= slowest 20 durations ============================= 0.30s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize 0.26s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange 0.25s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange 0.19s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split 0.19s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws 0.08s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed 0.06s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency 0.05s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split 0.04s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity 0.03s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations 0.03s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations 0.03s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers 0.03s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta 0.01s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid 0.01s call tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta 0.01s call tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name 0.01s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype 0.01s setup tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties 0.01s call tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable 0.01s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV =========================== short test summary info ============================ FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_split - Overflow... FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows - Ove... FAILED tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name =========== 5 failed, 117 passed, 18 skipped, 192 warnings in 10.98s =========== E: pybuild pybuild:388: test: plugin custom failed with: exit code=1: python3.11 setup.py test dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.11 returned exit code 13 make[1]: *** [debian/rules:39: override_dh_auto_test] Error 25 make[1]: Leaving directory '/build/reproducible-path/python-pbcore-2.1.2+dfsg' make: *** [debian/rules:13: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/18593 and its subdirectories Sat Jan 6 16:20:58 UTC 2024 W: No second build log, what happened?