Wed May 17 06:40:40 UTC 2023 I: starting to build python-pybedtools/bookworm/armhf on jenkins on '2023-05-17 06:40' Wed May 17 06:40:40 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_35/2015/console.log Wed May 17 06:40:40 UTC 2023 I: Downloading source for bookworm/python-pybedtools=0.9.0-4 --2023-05-17 06:40:41-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/python-pybedtools/python-pybedtools_0.9.0-4.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2637 (2.6K) [text/prs.lines.tag] Saving to: ‘python-pybedtools_0.9.0-4.dsc’ 0K .. 100% 99.2M=0s 2023-05-17 06:40:41 (99.2 MB/s) - ‘python-pybedtools_0.9.0-4.dsc’ saved [2637/2637] Wed May 17 06:40:41 UTC 2023 I: python-pybedtools_0.9.0-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: python-pybedtools Binary: pybedtools-bin, python3-pybedtools, python-pybedtools-doc Architecture: any all Version: 0.9.0-4 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe , Steffen Moeller Homepage: https://daler.github.io/pybedtools/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/python-pybedtools Vcs-Git: https://salsa.debian.org/med-team/python-pybedtools.git Testsuite: autopkgtest-pkg-python Build-Depends: debhelper-compat (= 13), dh-python, bedtools, cython3, python3-all-dev, python3-setuptools, python3-pysam, python3-matplotlib, python3-pytest, python3-numpy, python3-numpydoc, python3-pandas, python3-psutil, python3-yaml, python3-tk, python3-sphinx, r-base-core, zlib1g-dev Package-List: pybedtools-bin deb python optional arch=all python-pybedtools-doc deb doc optional arch=all python3-pybedtools deb python optional arch=any Checksums-Sha1: ca9bfd341bff054241f8ef7bf2d49ca09eadfa43 12497249 python-pybedtools_0.9.0.orig.tar.gz be2eae8392f7417cd33c0b98a980b630262a4077 29528 python-pybedtools_0.9.0-4.debian.tar.xz Checksums-Sha256: d0ea55325ba4cb5bd6da9d497f27f6af5aa7ae65f5b97053514ab05ff3cd532d 12497249 python-pybedtools_0.9.0.orig.tar.gz f417db40b2b32d3b816d61e6333fc2b213d40591ab123ca80b16ac731536867e 29528 python-pybedtools_0.9.0-4.debian.tar.xz Files: b7ef52fdb2fde7ec2ed3bf7e7ae181e3 12497249 python-pybedtools_0.9.0.orig.tar.gz 4cc5c85811fb22002c42c4fa81dd9485 29528 python-pybedtools_0.9.0-4.debian.tar.xz Dgit: 6849bcef524b8ca76a71493d18686311cc041f46 debian archive/debian/0.9.0-4 https://git.dgit.debian.org/python-pybedtools -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmOzTHcUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoiDhAAhuJto3LoQ71SyN0T+QpHRecu+a8s EdpkC374Rfxb3rsk6iANmrbX0sXygQFZyxTLYt+ZCa59gdoc2HwEq3/1j2+L8dgl nHszKEyB4/8njoLw3K+++2RJ6HmmMe6N8qN8oHEWPL0CyKn6X9els+7JyhJMD0yZ NmMy4/jIMOmfH+T/8i0HhxkVJ504sqNbTRAHYHNDAOnDZs+jRKRi9ytNt4sBeEEm qHf7leh8rGE1od5K9td9606kEOs5K76RW4lTRV7z5ElGFeDrbyvLnIjNPQ49jFYj S+Ki0NP3JdJTeyyuEiDGz2CgcN2lcv07QZClVgYbiPc5HwSBCSSVTO9GsQKVabfh KtbZ/o92x2zMNvoJ9ZHwLfcWr1EIJ9oDpT1zbzwu/6LqC4xkunSlN2UI1yiQy/u6 XaPveToLmOPpAmNTFfRu0QCwXevPZnKni4x5Rg2Fp3Q2sROh1WEJ+xdlokyTNglP ferHE46rsK6otMpsru71+uKP19UXGqVtw3u5qEaUx+5hHvD21Nm3TK25cke9ATzg 6I4c6wHfsvz+2VYUH9MuackZOX2PZtjUNjAk8mg96djcygPbvq+l+U/4+fCtgxM6 9J4g6PBsLSrB4T65zJHuw8ywlUawtnLGk2FMpoRwR8OrVec3/VMUr791u7bLDJEb VWeHWvPVUqi0NXo= =8Oa9 -----END PGP SIGNATURE----- Wed May 17 06:40:41 UTC 2023 I: Checking whether the package is not for us Wed May 17 06:40:41 UTC 2023 I: Starting 1st build on remote node jtx1c-armhf-rb.debian.net. Wed May 17 06:40:41 UTC 2023 I: Preparing to do remote build '1' on jtx1c-armhf-rb.debian.net. Wed May 17 06:50:29 UTC 2023 I: Deleting $TMPDIR on jtx1c-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue May 16 18:40:48 -12 2023 I: pbuilder-time-stamp: 1684305648 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: Copying source file I: copying [python-pybedtools_0.9.0-4.dsc] I: copying [./python-pybedtools_0.9.0.orig.tar.gz] I: copying [./python-pybedtools_0.9.0-4.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Jan 2 09:28:23 2023 -12 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-pybedtools_0.9.0-4.dsc: no acceptable signature found dpkg-source: info: extracting python-pybedtools in python-pybedtools-0.9.0 dpkg-source: info: unpacking python-pybedtools_0.9.0.orig.tar.gz dpkg-source: info: unpacking python-pybedtools_0.9.0-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying define_filenotfounderror_python2.patch dpkg-source: info: applying remove_badges_from_documentation.patch dpkg-source: info: applying add_missing_shebang.patch dpkg-source: info: applying yaml_safe_load.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/18102/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='8a1a28dc9a3242e1b0f618646ff5ee24' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' 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='18102' 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.7pi7vfTK/pbuilderrc_lPES --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.7pi7vfTK/b1 --logfile b1/build.log python-pybedtools_0.9.0-4.dsc' SUDO_GID='114' SUDO_UID='108' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux jtx1c 5.10.0-23-arm64 #1 SMP Debian 5.10.179-1 (2023-05-12) aarch64 GNU/Linux I: ls -l /bin total 5072 -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/18102/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: armhf 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, bedtools, cython3, python3-all-dev, python3-setuptools, python3-pysam, python3-matplotlib, python3-pytest, python3-numpy, python3-numpydoc, python3-pandas, python3-psutil, python3-yaml, python3-tk, python3-sphinx, r-base-core, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19329 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 bedtools; however: Package bedtools is not installed. pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-numpydoc; however: Package python3-numpydoc is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-psutil; however: Package python3-psutil is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml is not installed. pbuilder-satisfydepends-dummy depends on python3-tk; however: Package python3-tk is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on r-base-core; however: Package r-base-core is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev 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} bedtools{a} blt{a} bsdextrautils{a} ca-certificates{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcurl3-gnutls{a} libcurl4{a} libdatrie1{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhts3{a} libhtscodecs2{a} libice6{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libopenjp2-7{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libpsl5{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsm6{a} libssh2-1{a} libsub-override-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} libxt6{a} libyaml-0-2{a} m4{a} man-db{a} media-types{a} openssl{a} po-debconf{a} python-babel-localedata{a} python-matplotlib-data{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-appdirs{a} python3-attr{a} python3-babel{a} python3-brotli{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-docutils{a} python3-fonttools{a} python3-fs{a} python3-idna{a} python3-imagesize{a} python3-iniconfig{a} python3-jinja2{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-markupsafe{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-numpy{a} python3-numpydoc{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pluggy{a} python3-psutil{a} python3-py{a} python3-pygments{a} python3-pyparsing{a} python3-pysam{a} python3-pytest{a} python3-requests{a} python3-roman{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-sympy{a} python3-tk{a} python3-tz{a} python3-ufolib2{a} python3-urllib3{a} python3-yaml{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} r-base-core{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tk8.6-blt2.5{a} ucf{a} unicode-data{a} unzip{a} x11-common{a} xdg-utils{a} xml-core{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl isympy-common javascript-common libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libsasl2-modules libx11-protocol-perl lynx publicsuffix python3-bottleneck python3-bs4 python3-html5lib python3-numexpr python3-odf python3-olefile python3-openpyxl python3-tables r-base-dev r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 201 newly installed, 0 to remove and 0 not upgraded. Need to get 141 MB of archives. After unpacking 488 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf libpython3.11-minimal armhf 3.11.2-6 [798 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf python3.11-minimal armhf 3.11.2-6 [1714 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf python3-minimal armhf 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf libreadline8 armhf 8.2-1.3 [144 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libpython3.11-stdlib armhf 3.11.2-6 [1678 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf python3.11 armhf 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf libpython3-stdlib armhf 3.11.2-1+b1 [9296 B] Get: 11 http://deb.debian.org/debian bookworm/main armhf python3 armhf 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf sgml-base all 1.31 [15.4 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf openssl armhf 3.0.8-1 [1373 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf ca-certificates all 20230311 [153 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf ucf all 3.0043+nmu1 [55.2 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf bedtools armhf 2.30.0+dfsg-3 [567 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf libtcl8.6 armhf 8.6.13+dfsg-2 [922 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf libpng16-16 armhf 1.6.39-2 [260 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf libfreetype6 armhf 2.12.1+dfsg-5 [332 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf fonts-dejavu-core all 2.37-6 [1068 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf fontconfig-config armhf 2.14.1-4 [315 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf libfontconfig1 armhf 2.14.1-4 [368 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf libbsd0 armhf 0.11.7-2 [113 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf libxcb1 armhf 1.15-1 [140 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf libx11-data all 2:1.8.4-2 [292 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf libx11-6 armhf 2:1.8.4-2 [695 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf libxrender1 armhf 1:0.9.10-1.1 [30.1 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf libxft2 armhf 2.3.6-1 [53.8 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf libxext6 armhf 2:1.3.4-1+b1 [47.8 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf x11-common all 1:7.7+23 [252 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf libxss1 armhf 1:1.2.3-1 [17.2 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf libtk8.6 armhf 8.6.13-2 [689 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-4.1 [489 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf blt armhf 2.5.3+dfsg-4.1 [14.9 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf cython3 armhf 0.29.32-2+b1 [1230 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 56 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 59 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 61 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 63 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 64 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 65 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 66 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 67 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 68 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 69 http://deb.debian.org/debian bookworm/main armhf python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 70 http://deb.debian.org/debian bookworm/main armhf python3-distutils all 3.11.2-3 [131 kB] Get: 71 http://deb.debian.org/debian bookworm/main armhf dh-python all 5.20230130 [104 kB] Get: 72 http://deb.debian.org/debian bookworm/main armhf xml-core all 0.18+nmu1 [23.8 kB] Get: 73 http://deb.debian.org/debian bookworm/main armhf docutils-common all 0.19+dfsg-6 [127 kB] Get: 74 http://deb.debian.org/debian bookworm/main armhf fontconfig armhf 2.14.1-4 [448 kB] Get: 75 http://deb.debian.org/debian bookworm/main armhf fonts-lyx all 2.3.7-1 [186 kB] Get: 76 http://deb.debian.org/debian bookworm/main armhf libblas3 armhf 3.11.0-2 [105 kB] Get: 77 http://deb.debian.org/debian bookworm/main armhf libpixman-1-0 armhf 0.42.2-1 [465 kB] Get: 78 http://deb.debian.org/debian bookworm/main armhf libxcb-render0 armhf 1.15-1 [114 kB] Get: 79 http://deb.debian.org/debian bookworm/main armhf libxcb-shm0 armhf 1.15-1 [106 kB] Get: 80 http://deb.debian.org/debian bookworm/main armhf libcairo2 armhf 1.16.0-7 [493 kB] Get: 81 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 82 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 83 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 84 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 85 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 86 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 87 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 88 http://deb.debian.org/debian bookworm/main armhf libcurl3-gnutls armhf 7.88.1-9 [343 kB] Get: 89 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-9 [347 kB] Get: 90 http://deb.debian.org/debian bookworm/main armhf libdatrie1 armhf 0.2.13-2+b1 [39.9 kB] Get: 91 http://deb.debian.org/debian bookworm/main armhf libdeflate0 armhf 1.14-1 [52.2 kB] Get: 92 http://deb.debian.org/debian bookworm/main armhf libexpat1-dev armhf 2.5.0-1 [134 kB] Get: 93 http://deb.debian.org/debian bookworm/main armhf libfribidi0 armhf 1.0.8-2.1 [63.1 kB] Get: 94 http://deb.debian.org/debian bookworm/main armhf libgfortran5 armhf 12.2.0-14 [246 kB] Get: 95 http://deb.debian.org/debian bookworm/main armhf libglib2.0-0 armhf 2.74.6-2 [1227 kB] Get: 96 http://deb.debian.org/debian bookworm/main armhf libgraphite2-3 armhf 1.3.14-1 [70.5 kB] Get: 97 http://deb.debian.org/debian bookworm/main armhf libharfbuzz0b armhf 6.0.0+dfsg-3 [1893 kB] Get: 98 http://deb.debian.org/debian bookworm/main armhf libhtscodecs2 armhf 1.3.0-4 [60.4 kB] Get: 99 http://deb.debian.org/debian bookworm/main armhf libhts3 armhf 1.16+ds-3 [375 kB] Get: 100 http://deb.debian.org/debian bookworm/main armhf libice6 armhf 2:1.0.10-1 [51.9 kB] Get: 101 http://deb.debian.org/debian bookworm/main armhf libimagequant0 armhf 2.17.0-1 [27.9 kB] Get: 102 http://deb.debian.org/debian bookworm/main armhf libjbig0 armhf 2.1-6.1 [27.1 kB] Get: 103 http://deb.debian.org/debian bookworm/main armhf libjpeg62-turbo armhf 1:2.1.5-2 [143 kB] Get: 104 http://deb.debian.org/debian bookworm/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 105 http://deb.debian.org/debian bookworm/main armhf libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 106 http://deb.debian.org/debian bookworm/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 107 http://deb.debian.org/debian bookworm/main armhf libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 108 http://deb.debian.org/debian bookworm/main armhf libjson-perl all 4.10000-1 [87.5 kB] Get: 109 http://deb.debian.org/debian bookworm/main armhf liblapack3 armhf 3.11.0-2 [1724 kB] Get: 110 http://deb.debian.org/debian bookworm/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1 [25.0 kB] Get: 111 http://deb.debian.org/debian bookworm/main armhf liblcms2-2 armhf 2.14-2 [125 kB] Get: 112 http://deb.debian.org/debian bookworm/main armhf liblerc4 armhf 4.0.0+ds-2 [137 kB] Get: 113 http://deb.debian.org/debian bookworm/main armhf libopenjp2-7 armhf 2.5.0-1+b1 [170 kB] Get: 114 http://deb.debian.org/debian bookworm/main armhf libthai-data all 0.1.29-1 [176 kB] Get: 115 http://deb.debian.org/debian bookworm/main armhf libthai0 armhf 0.1.29-1 [54.3 kB] Get: 116 http://deb.debian.org/debian bookworm/main armhf libpango-1.0-0 armhf 1.50.12+ds-1 [188 kB] Get: 117 http://deb.debian.org/debian bookworm/main armhf libpangoft2-1.0-0 armhf 1.50.12+ds-1 [40.9 kB] Get: 118 http://deb.debian.org/debian bookworm/main armhf libpangocairo-1.0-0 armhf 1.50.12+ds-1 [30.3 kB] Get: 119 http://deb.debian.org/debian bookworm/main armhf libpaper1 armhf 1.1.29 [11.9 kB] Get: 120 http://deb.debian.org/debian bookworm/main armhf libpaper-utils armhf 1.1.29 [8400 B] Get: 121 http://deb.debian.org/debian bookworm/main armhf libpython3.11 armhf 3.11.2-6 [1710 kB] Get: 122 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 123 http://deb.debian.org/debian bookworm/main armhf libpython3.11-dev armhf 3.11.2-6 [3518 kB] Get: 124 http://deb.debian.org/debian bookworm/main armhf libpython3-dev armhf 3.11.2-1+b1 [9556 B] Get: 125 http://deb.debian.org/debian bookworm/main armhf libpython3-all-dev armhf 3.11.2-1+b1 [1068 B] Get: 126 http://deb.debian.org/debian bookworm/main armhf libqhull-r8.0 armhf 2020.2-5 [224 kB] Get: 127 http://deb.debian.org/debian bookworm/main armhf libraqm0 armhf 0.7.0-4.1 [9116 B] Get: 128 http://deb.debian.org/debian bookworm/main armhf libsm6 armhf 2:1.2.3-1 [33.0 kB] Get: 129 http://deb.debian.org/debian bookworm/main armhf libwebp7 armhf 1.2.4-0.1 [242 kB] Get: 130 http://deb.debian.org/debian bookworm/main armhf libtiff6 armhf 4.5.0-5 [295 kB] Get: 131 http://deb.debian.org/debian bookworm/main armhf libwebpdemux2 armhf 1.2.4-0.1 [98.2 kB] Get: 132 http://deb.debian.org/debian bookworm/main armhf libwebpmux3 armhf 1.2.4-0.1 [105 kB] Get: 133 http://deb.debian.org/debian bookworm/main armhf libxslt1.1 armhf 1.1.35-1 [223 kB] Get: 134 http://deb.debian.org/debian bookworm/main armhf libxt6 armhf 1:1.2.1-1.1 [157 kB] Get: 135 http://deb.debian.org/debian bookworm/main armhf libyaml-0-2 armhf 0.2.5-1 [46.8 kB] Get: 136 http://deb.debian.org/debian bookworm/main armhf python-babel-localedata all 2.10.3-1 [5615 kB] Get: 137 http://deb.debian.org/debian bookworm/main armhf python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 138 http://deb.debian.org/debian bookworm/main armhf python3-alabaster all 0.7.12-1 [20.8 kB] Get: 139 http://deb.debian.org/debian bookworm/main armhf python3-all armhf 3.11.2-1+b1 [1060 B] Get: 140 http://deb.debian.org/debian bookworm/main armhf python3.11-dev armhf 3.11.2-6 [615 kB] Get: 141 http://deb.debian.org/debian bookworm/main armhf python3-dev armhf 3.11.2-1+b1 [26.2 kB] Get: 142 http://deb.debian.org/debian bookworm/main armhf python3-all-dev armhf 3.11.2-1+b1 [1076 B] Get: 143 http://deb.debian.org/debian bookworm/main armhf python3-appdirs all 1.4.4-3 [13.0 kB] Get: 144 http://deb.debian.org/debian bookworm/main armhf python3-attr all 22.2.0-1 [65.4 kB] Get: 145 http://deb.debian.org/debian bookworm/main armhf python3-pkg-resources all 66.1.1-1 [296 kB] Get: 146 http://deb.debian.org/debian bookworm/main armhf python3-tz all 2022.7.1-3 [30.1 kB] Get: 147 http://deb.debian.org/debian bookworm/main armhf python3-babel all 2.10.3-1 [103 kB] Get: 148 http://deb.debian.org/debian bookworm/main armhf python3-brotli armhf 1.0.9-2+b6 [274 kB] Get: 149 http://deb.debian.org/debian bookworm/main armhf python3-certifi all 2022.9.24-1 [153 kB] Get: 150 http://deb.debian.org/debian bookworm/main armhf python3-chardet all 5.1.0+dfsg-2 [110 kB] Get: 151 http://deb.debian.org/debian bookworm/main armhf python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get: 152 http://deb.debian.org/debian bookworm/main armhf python3-numpy armhf 1:1.24.2-1 [4165 kB] Get: 153 http://deb.debian.org/debian bookworm/main armhf python3-contourpy armhf 1.0.7-1+b1 [146 kB] Get: 154 http://deb.debian.org/debian bookworm/main armhf python3-cycler all 0.11.0-1 [8020 B] Get: 155 http://deb.debian.org/debian bookworm/main armhf python3-six all 1.16.0-4 [17.5 kB] Get: 156 http://deb.debian.org/debian bookworm/main armhf python3-dateutil all 2.8.2-2 [78.3 kB] Get: 157 http://deb.debian.org/debian bookworm/main armhf python3-decorator all 5.1.1-3 [14.9 kB] Get: 158 http://deb.debian.org/debian bookworm/main armhf python3-roman all 3.3-3 [9880 B] Get: 159 http://deb.debian.org/debian bookworm/main armhf python3-docutils all 0.19+dfsg-6 [382 kB] Get: 160 http://deb.debian.org/debian bookworm/main armhf python3-scipy armhf 1.10.1-2 [13.8 MB] Get: 161 http://deb.debian.org/debian bookworm/main armhf python3-ufolib2 all 0.14.0+dfsg1-1 [34.3 kB] Get: 162 http://deb.debian.org/debian bookworm/main armhf python3-mpmath all 1.2.1-2 [418 kB] Get: 163 http://deb.debian.org/debian bookworm/main armhf python3-sympy all 1.11.1-1 [4358 kB] Get: 164 http://deb.debian.org/debian bookworm/main armhf python3-fs all 2.4.16-2 [95.2 kB] Get: 165 http://deb.debian.org/debian bookworm/main armhf python3-lxml armhf 4.9.2-1+b1 [1082 kB] Get: 166 http://deb.debian.org/debian bookworm/main armhf python3-lz4 armhf 4.0.2+dfsg-1+b2 [23.3 kB] Get: 167 http://deb.debian.org/debian bookworm/main armhf unicode-data all 15.0.0-1 [7984 kB] Get: 168 http://deb.debian.org/debian bookworm/main armhf python3-fonttools armhf 4.38.0-1+b1 [989 kB] Get: 169 http://deb.debian.org/debian bookworm/main armhf python3-idna all 3.3-1 [39.4 kB] Get: 170 http://deb.debian.org/debian bookworm/main armhf python3-imagesize all 1.4.1-1 [6688 B] Get: 171 http://deb.debian.org/debian bookworm/main armhf python3-iniconfig all 1.1.1-2 [6396 B] Get: 172 http://deb.debian.org/debian bookworm/main armhf python3-markupsafe armhf 2.1.2-1+b1 [12.8 kB] Get: 173 http://deb.debian.org/debian bookworm/main armhf python3-jinja2 all 3.1.2-1 [119 kB] Get: 174 http://deb.debian.org/debian bookworm/main armhf python3-kiwisolver armhf 1.4.4-1+b1 [50.7 kB] Get: 175 http://deb.debian.org/debian bookworm/main armhf python3-pil armhf 9.4.0-1.1+b1 [438 kB] Get: 176 http://deb.debian.org/debian bookworm/main armhf python3-tk armhf 3.11.2-3 [95.4 kB] Get: 177 http://deb.debian.org/debian bookworm/main armhf python3-pil.imagetk armhf 9.4.0-1.1+b1 [73.9 kB] Get: 178 http://deb.debian.org/debian bookworm/main armhf python3-pyparsing all 3.0.9-1 [138 kB] Get: 179 http://deb.debian.org/debian bookworm/main armhf python3-packaging all 23.0-1 [32.5 kB] Get: 180 http://deb.debian.org/debian bookworm/main armhf python3-matplotlib armhf 3.6.3-1+b1 [6784 kB] Get: 181 http://deb.debian.org/debian bookworm/main armhf python3-more-itertools all 8.10.0-2 [53.0 kB] Get: 182 http://deb.debian.org/debian bookworm/main armhf sphinx-common all 5.3.0-4 [653 kB] Get: 183 http://deb.debian.org/debian bookworm/main armhf python3-pygments all 2.14.0+dfsg-1 [783 kB] Get: 184 http://deb.debian.org/debian bookworm/main armhf python3-urllib3 all 1.26.12-1 [117 kB] Get: 185 http://deb.debian.org/debian bookworm/main armhf python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get: 186 http://deb.debian.org/debian bookworm/main armhf python3-snowballstemmer all 2.2.0-2 [57.8 kB] Get: 187 http://deb.debian.org/debian bookworm/main armhf python3-sphinx all 5.3.0-4 [549 kB] Get: 188 http://deb.debian.org/debian bookworm/main armhf python3-numpydoc all 1.5.0-1 [43.0 kB] Get: 189 http://deb.debian.org/debian bookworm/main armhf python3-pandas-lib armhf 1.5.3+dfsg-2 [3167 kB] Get: 190 http://deb.debian.org/debian bookworm/main armhf python3-pandas all 1.5.3+dfsg-2 [2885 kB] Get: 191 http://deb.debian.org/debian bookworm/main armhf python3-pluggy all 1.0.0+repack-1 [19.7 kB] Get: 192 http://deb.debian.org/debian bookworm/main armhf python3-psutil armhf 5.9.4-1+b1 [188 kB] Get: 193 http://deb.debian.org/debian bookworm/main armhf python3-py all 1.11.0-1 [89.2 kB] Get: 194 http://deb.debian.org/debian bookworm/main armhf python3-pysam armhf 0.20.0+ds-3+b1 [1484 kB] Get: 195 http://deb.debian.org/debian bookworm/main armhf python3-pytest all 7.2.1-2 [236 kB] Get: 196 http://deb.debian.org/debian bookworm/main armhf python3-setuptools all 66.1.1-1 [521 kB] Get: 197 http://deb.debian.org/debian bookworm/main armhf python3-yaml armhf 6.0-3+b2 [111 kB] Get: 198 http://deb.debian.org/debian bookworm/main armhf zip armhf 3.0-13 [218 kB] Get: 199 http://deb.debian.org/debian bookworm/main armhf unzip armhf 6.0-28 [152 kB] Get: 200 http://deb.debian.org/debian bookworm/main armhf xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 201 http://deb.debian.org/debian bookworm/main armhf r-base-core armhf 4.2.2.20221110-2 [25.6 MB] Fetched 141 MB in 17s (8266 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:armhf. (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 ... 19329 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.2-6) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.5.0-1_armhf.deb ... Unpacking libexpat1:armhf (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. 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Unpacking libpython3-stdlib:armhf (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 ... 20079 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_armhf.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) ... 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Setting up libgraphite2-3:armhf (1.3.14-1) ... Setting up liblcms2-2:armhf (2.14-2) ... Setting up libpixman-1-0:armhf (0.42.2-1) ... Setting up libxau6:armhf (1:1.0.9-1) ... Setting up libpsl5:armhf (0.21.2-1) ... Setting up libicu72:armhf (72.1-3) ... Setting up liblerc4:armhf (4.0.0+ds-2) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libdatrie1:armhf (0.2.13-2+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libyaml-0-2:armhf (0.2.5-1) ... Setting up libglib2.0-0:armhf (2.74.6-2) ... No schema files found: doing nothing. Setting up fonts-lyx (2.3.7-1) ... Setting up unzip (6.0-28) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:armhf (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:armhf (1.52.0-1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up libdeflate0:armhf (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libqhull-r8.0:armhf (2020.2-5) ... Setting up file (1:5.44-3) ... Setting up libjbig0:armhf (2.1-6.1) ... Setting up python-babel-localedata (2.10.3-1) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up unicode-data (15.0.0-1) ... Setting up zip (3.0-13) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libexpat1-dev:armhf (2.5.0-1) ... Setting up libjpeg62-turbo:armhf (1:2.1.5-2) ... Setting up libx11-data (2:1.8.4-2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libfribidi0:armhf (1.0.8-2.1) ... Setting up libimagequant0:armhf (2.17.0-1) ... Setting up libpng16-16:armhf (1.6.39-2) ... Setting up libtcl8.6:armhf (8.6.13+dfsg-2) ... Setting up autopoint (0.21-12) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up libgfortran5:armhf (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:armhf (1.2.4-0.1) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libtiff6:armhf (4.5.0-5) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libjson-perl (4.10000-1) ... Setting up libopenjp2-7:armhf (2.5.0-1+b1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libthai-data (0.1.29-1) ... Setting up libssh2-1:armhf (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 python-matplotlib-data (3.6.3-1) ... Setting up openssl (3.0.8-1) ... Setting up libwebpmux3:armhf (1.2.4-0.1) ... Setting up libbsd0:armhf (0.11.7-2) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up bedtools (2.30.0+dfsg-3) ... 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 libice6:armhf (2:1.0.10-1) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up liblapack3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libxcb1:armhf (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libxcb-render0:armhf (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libwebpdemux2:armhf (1.2.4-0.1) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up libxcb-shm0:armhf (1.15-1) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libthai0:armhf (0.1.29-1) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:armhf (2.12.1+dfsg-5) ... Setting up ucf (3.0043+nmu1) ... 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 groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up libxslt1.1:armhf (1.1.35-1) ... Setting up libcurl4:armhf (7.88.1-9) ... Setting up libx11-6:armhf (2:1.8.4-2) ... Setting up libharfbuzz0b:armhf (6.0.0+dfsg-3) ... Setting up libfontconfig1:armhf (2.14.1-4) ... Setting up libsm6:armhf (2:1.2.3-1) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1) ... Setting up libpaper1:armhf (1.1.29) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libxrender1:armhf (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.2-6) ... Setting up libpango-1.0-0:armhf (1.50.12+ds-1) ... Setting up libxext6:armhf (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:armhf (7.88.1-9) ... Setting up libpaper-utils (1.1.29) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libcairo2:armhf (1.16.0-7) ... Setting up libraqm0:armhf (0.7.0-4.1) ... Setting up sphinx-common (5.3.0-4) ... Setting up libxt6:armhf (1:1.2.1-1.1) ... Setting up libxss1:armhf (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:armhf (1.50.12+ds-1) ... Setting up libpangocairo-1.0-0:armhf (1.50.12+ds-1) ... Setting up libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libxft2:armhf (2.3.6-1) ... Setting up libhts3:armhf (1.16+ds-3) ... Setting up libpython3.11:armhf (3.11.2-6) ... Setting up libtk8.6:armhf (8.6.13-2) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-markupsafe (2.1.2-1+b1) ... Setting up python3-psutil (5.9.4-1+b1) ... Setting up python3-tz (2022.7.1-3) ... Setting up python3-six (1.16.0-4) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-snowballstemmer (2.2.0-2) ... Setting up libpython3.11-dev:armhf (3.11.2-6) ... Setting up python3-brotli (1.0.9-2+b6) ... Setting up python3-cycler (0.11.0-1) ... Setting up r-base-core (4.2.2.20221110-2) ... Creating config file /etc/R/Renviron with new version Setting up python3-kiwisolver (1.4.4-1+b1) ... Setting up python3-idna (3.3-1) ... Setting up cython3 (0.29.32-2+b1) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up python3-pluggy (1.0.0+repack-1) ... Setting up python3-lxml:armhf (4.9.2-1+b1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-appdirs (1.4.4-3) ... Setting up python3-imagesize (1.4.1-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sympy (1.11.1-1) ... Setting up python3-attr (22.2.0-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1) ... Setting up python3-pysam (0.20.0+ds-3+b1) ... Setting up libpython3-dev:armhf (3.11.2-1+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-lz4 (4.0.2+dfsg-1+b2) ... Setting up python3.11-dev (3.11.2-6) ... 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 blt (2.5.3+dfsg-4.1) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-yaml (6.0-3+b2) ... Setting up python3-tk:armhf (3.11.2-3) ... Setting up python3-fs (2.4.16-2) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up python3-chardet (5.1.0+dfsg-2) ... Setting up libpython3-all-dev:armhf (3.11.2-1+b1) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up python3-numpy (1:1.24.2-1) ... Setting up python3-contourpy (1.0.7-1+b1) ... Setting up python3-all-dev (3.11.2-1+b1) ... Setting up python3-scipy (1.10.1-2) ... Setting up python3-pandas-lib:armhf (1.5.3+dfsg-2) ... Setting up python3-pandas (1.5.3+dfsg-2) ... Setting up python3-ufolib2 (0.14.0+dfsg1-1) ... Setting up python3-fonttools (4.38.0-1+b1) ... Setting up python3-pil.imagetk:armhf (9.4.0-1.1+b1) ... Setting up python3-pil:armhf (9.4.0-1.1+b1) ... Setting up python3-matplotlib (3.6.3-1+b1) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.19+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up python3-sphinx (5.3.0-4) ... Setting up python3-numpydoc (1.5.0-1) ... 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/python-pybedtools-0.9.0/ && 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-pybedtools_0.9.0-4_source.changes dpkg-buildpackage: info: source package python-pybedtools dpkg-buildpackage: info: source version 0.9.0-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/python-pybedtools-0.9.0' /bin/rm -rf fakehome .eggs .pybuild /bin/rm -rf debian/python3-pybedtools debian/files /bin/rm -rf pybedtools.egg-info /bin/rm -rf pybedtools/scripts/__pycache__/ /bin/rm -rf pybedtools/contrib/__pycache__/ /bin/rm -rf pybedtools/__pycache__/ find pybedtools -name "*.so" -o -name "*.o" | xargs -r rm rm -rf build /bin/rm -rf pybedtools/cbedtools.cpp pybedtools/featurefuncs.cpp find docs/source/autodocs/ -name "*.rst" | xargs -r /bin/rm # dh_auto_clean make[1]: Leaving directory '/build/python-pybedtools-0.9.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3,sphinxdoc --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 running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/python-pybedtools-0.9.0' python3 setup.py cythonize running cythonize /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/python-pybedtools-0.9.0/pybedtools/cbedtools.pxd tree = Parsing.p_module(s, pxd, full_module_name) /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /build/python-pybedtools-0.9.0/pybedtools/featurefuncs.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling pybedtools/cbedtools.pyx because it changed. Compiling pybedtools/featurefuncs.pyx because it changed. [1/2] Cythonizing pybedtools/cbedtools.pyx [2/2] Cythonizing pybedtools/featurefuncs.pyx dh_auto_build I: pybuild base:240: /usr/bin/python3 setup.py build running build running build_py creating /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/genome_registry.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/logger.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/filenames.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/parallel.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/version.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/paths.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/__init__.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/stats.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/settings.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/bedtool.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/helpers.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools creating /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/tfuncs.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/regression_tests.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_issues.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_helpers.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_pathlib.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_cbedtools.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_iter.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/__init__.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_contrib.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_1.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_gzip_support.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_len_leak.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/genomepy_integration.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test creating /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/bigbed.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/venn_maker.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/__init__.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/bigwig.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/long_range_interaction.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/intersection_matrix.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib copying pybedtools/contrib/plotting.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib creating /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/__init__.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data running egg_info creating pybedtools.egg-info writing pybedtools.egg-info/PKG-INFO writing dependency_links to pybedtools.egg-info/dependency_links.txt writing requirements to pybedtools.egg-info/requires.txt writing top-level names to pybedtools.egg-info/top_level.txt writing manifest file 'pybedtools.egg-info/SOURCES.txt' reading manifest file 'pybedtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.c' under directory 'pybedtools' warning: no previously-included files matching '__pycache__' found under directory '*' warning: no previously-included files matching '*.py[co]' found under directory '*' adding license file 'LICENSE.txt' writing manifest file 'pybedtools.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pybedtools.include' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'pybedtools.include' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'pybedtools.include' 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 'pybedtools.include' 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 pybedtools/_Window.pyx -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/cbedtools.cpp -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/cbedtools.pxd -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/cbedtools.pyx -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/featurefuncs.cpp -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools copying pybedtools/featurefuncs.pyx -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools creating /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/bedFile.cpp -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/bedFile.h -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/fileType.cpp -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/fileType.h -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/gzstream.cpp -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/gzstream.h -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/include/lineFileUtilities.h -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include copying pybedtools/test/data/vcf-stderr-test.vcf -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/issue_121.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/reads.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/Cp190_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/test_bedpe.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/issue319.vcf.gz -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/issue319.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/vcf-stderr-test.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/a.links.html -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/small.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/rmsk.hg18.chr21.small.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/small.fastq -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.sorted.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/venn.c.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/BEAF_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.cram -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/c.gff -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/x.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/CTCF_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/SuHw_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/SuHw_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.50.200.bam.bai -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/snps.bed.gz -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/democonfig.yaml -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/d.gff -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/venn.b.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/CTCF_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/b.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/dm3-chr2L-5M.gff.gz -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.1.100.bam.bai -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/x.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.1.100.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.othersort.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/164.gtf -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/mm9.bed12 -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/v.vcf -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/bedpe.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/BEAF_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/a.igv_script -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/test.fa -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/genome.fa -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.gff.gz -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/Cp190_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/hg38-problem.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/expand_test.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.50.200.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.gff -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/issue319.out.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/tag_test1.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/hg38-base.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/1000genomes-example.vcf -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/rmsk.hg18.chr21.small.bed.gz -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/a.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/tag_test2.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/bedpe2.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/hg19.gff -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/test.fa.fai -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/test_peaks.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/multibamcov_test.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/m1.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/gdc.sorted.bam.bai -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/y.bam -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/test_tsses.bed -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/dm3-chr2L-5M-invalid.gff.gz -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/data/exons.gff -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data copying pybedtools/test/gchart-expected.png -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/mpl-expected.png -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/prevent_open_file_regression -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_cases.yaml -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_merge215.yaml -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_merge227.yaml -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_shuffle215.yaml -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test copying pybedtools/test/test_shuffle227.yaml -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test running build_ext building 'pybedtools.cbedtools' extension creating build creating build/temp.linux-armhf-cpython-311 creating build/temp.linux-armhf-cpython-311/pybedtools creating build/temp.linux-armhf-cpython-311/pybedtools/include arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/cbedtools.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/cbedtools.o In file included from pybedtools/cbedtools.cpp:796: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/bedFile.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/include/bedFile.o In file included from pybedtools/include/bedFile.cpp:12: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/fileType.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/include/fileType.o arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/gzstream.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/include/gzstream.o arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-cpython-311/pybedtools/cbedtools.o build/temp.linux-armhf-cpython-311/pybedtools/include/bedFile.o build/temp.linux-armhf-cpython-311/pybedtools/include/fileType.o build/temp.linux-armhf-cpython-311/pybedtools/include/gzstream.o -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lz -o /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/cbedtools.cpython-311-arm-linux-gnueabihf.so building 'pybedtools.featurefuncs' extension arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/featurefuncs.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/featurefuncs.o In file included from pybedtools/featurefuncs.cpp:796: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/bedFile.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/include/bedFile.o In file included from pybedtools/include/bedFile.cpp:12: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/fileType.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/include/fileType.o arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/gzstream.cpp -o build/temp.linux-armhf-cpython-311/pybedtools/include/gzstream.o arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-cpython-311/pybedtools/featurefuncs.o build/temp.linux-armhf-cpython-311/pybedtools/include/bedFile.o build/temp.linux-armhf-cpython-311/pybedtools/include/fileType.o build/temp.linux-armhf-cpython-311/pybedtools/include/gzstream.o -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lz -o /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/featurefuncs.cpython-311-arm-linux-gnueabihf.so python3 setup.py develop --user running develop /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( running egg_info writing pybedtools.egg-info/PKG-INFO writing dependency_links to pybedtools.egg-info/dependency_links.txt writing requirements to pybedtools.egg-info/requires.txt writing top-level names to pybedtools.egg-info/top_level.txt reading manifest file 'pybedtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.c' under directory 'pybedtools' warning: no previously-included files matching '__pycache__' found under directory '*' warning: no previously-included files matching '*.py[co]' found under directory '*' adding license file 'LICENSE.txt' writing manifest file 'pybedtools.egg-info/SOURCES.txt' running build_ext building 'pybedtools.cbedtools' extension creating build/temp.linux-aarch64-cpython-311 creating build/temp.linux-aarch64-cpython-311/pybedtools creating build/temp.linux-aarch64-cpython-311/pybedtools/include arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/cbedtools.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/cbedtools.o In file included from pybedtools/cbedtools.cpp:796: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/bedFile.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/include/bedFile.o In file included from pybedtools/include/bedFile.cpp:12: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/fileType.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/include/fileType.o arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/gzstream.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/include/gzstream.o arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-311/pybedtools/cbedtools.o build/temp.linux-aarch64-cpython-311/pybedtools/include/bedFile.o build/temp.linux-aarch64-cpython-311/pybedtools/include/fileType.o build/temp.linux-aarch64-cpython-311/pybedtools/include/gzstream.o -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lz -o /build/python-pybedtools-0.9.0/pybedtools/cbedtools.cpython-311-arm-linux-gnueabihf.so building 'pybedtools.featurefuncs' extension arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/featurefuncs.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/featurefuncs.o In file included from pybedtools/featurefuncs.cpp:796: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/bedFile.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/include/bedFile.o In file included from pybedtools/include/bedFile.cpp:12: pybedtools/include/bedFile.h: In function 'BIN getBin(CHRPOS, CHRPOS)': pybedtools/include/bedFile.h:92:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 92 | for (register short i = 0; i < _binLevels; ++i) { | ^ arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/fileType.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/include/fileType.o arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ipybedtools/include/ -I/usr/include/python3.11 -c pybedtools/include/gzstream.cpp -o build/temp.linux-aarch64-cpython-311/pybedtools/include/gzstream.o arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/python-pybedtools-0.9.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-311/pybedtools/featurefuncs.o build/temp.linux-aarch64-cpython-311/pybedtools/include/bedFile.o build/temp.linux-aarch64-cpython-311/pybedtools/include/fileType.o build/temp.linux-aarch64-cpython-311/pybedtools/include/gzstream.o -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lz -o /build/python-pybedtools-0.9.0/pybedtools/featurefuncs.cpython-311-arm-linux-gnueabihf.so Creating /build/python-pybedtools-0.9.0/fakehome/.local/lib/python3.11/site-packages/pybedtools.egg-link (link to .) Adding pybedtools 0.9.0 to easy-install.pth file Installed /build/python-pybedtools-0.9.0 Processing dependencies for pybedtools==0.9.0 Searching for six==1.16.0 Best match: six 1.16.0 Adding six 1.16.0 to easy-install.pth file Using /usr/lib/python3/dist-packages Searching for pysam==0.20.0 Best match: pysam 0.20.0 Adding pysam 0.20.0 to easy-install.pth file Using /usr/lib/python3/dist-packages Finished processing dependencies for pybedtools==0.9.0 python3 setup.py build_sphinx running build_sphinx Running Sphinx v5.3.0 making output directory... done [autosummary] generating autosummary for: 3-brief-examples.rst, FAQs.rst, autodoc_source.rst, changes.rst, create-a-bedtool-tutorial.rst, default-arguments.rst, each.rst, filtering.rst, flow-of-commands.rst, history.rst, ..., topical-create-a-bedtool.rst, topical-design-principles.rst, topical-documentation-contents.rst, topical-genome.rst, topical-iterators.rst, topical-low-level-ops.rst, topical-random.rst, topical-saving.rst, topical-wrapping.rst, tutorial-contents.rst generated new fontManager [autosummary] generating autosummary for: /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.absolute_distance.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.all_hits.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.annotate.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.any_hits.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.as_intervalfile.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.at.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_bed.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_fastq.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.bed6.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.bedtool.BedTool.bedpe_to_bam.rst, ..., /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.helpers.set_tempdir.rst, /build/python-pybedtools-0.9.0/docs/source/autodocs/pybedtools.parallel.parallel_apply.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.add_color.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.bedgraph_scale.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.extend_fields.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.five_prime.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.greater_than.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.less_than.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.normalized_to_length.rst, /build/python-pybedtools-0.9.0/docs/source/pybedtools.featurefuncs.three_prime.rst building [mo]: targets for 0 po files that are out of date building [html]: targets for 48 source files that are out of date updating environment: [new config] 157 added, 0 changed, 0 removed reading sources... 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Possible hints: * ImportError: * ModuleNotFoundError: No module named 'pybedtools.contrib.plotting.Track'; 'pybedtools.contrib.plotting' is not a package * AttributeError: type object 'Track' has no attribute 'colorbar' * ModuleNotFoundError: No module named 'Track' * AttributeError: type object 'Track' has no attribute 'Track' * KeyError: 'Track' /build/python-pybedtools-0.9.0/docs/source/topical-genome.rst:55: ERROR: Unknown target name: "genomepy". looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 0%] 3-brief-examples writing output... [ 1%] FAQs writing output... [ 1%] autodoc_source writing output... [ 2%] autodocs/pybedtools.bedtool.BedTool writing output... [ 3%] autodocs/pybedtools.bedtool.BedTool.absolute_distance writing output... [ 3%] autodocs/pybedtools.bedtool.BedTool.all_hits writing output... [ 4%] autodocs/pybedtools.bedtool.BedTool.annotate writing output... 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Highlighting skipped. /build/python-pybedtools-0.9.0/pybedtools/bedtool.py:docstring of pybedtools.bedtool.BedTool._log_to_history..decorated:28: WARNING: Could not lex literal_block as "python". Highlighting skipped. /build/python-pybedtools-0.9.0/pybedtools/bedtool.py:docstring of pybedtools.bedtool.BedTool._log_to_history..decorated:20: WARNING: Could not lex literal_block as "python". Highlighting skipped. /build/python-pybedtools-0.9.0/pybedtools/bedtool.py:docstring of pybedtools.bedtool.BedTool._log_to_history..decorated:16: WARNING: Could not lex literal_block as "python". Highlighting skipped. /build/python-pybedtools-0.9.0/docs/source/default-arguments.rst:35: WARNING: Could not lex literal_block as "python". Highlighting skipped. /build/python-pybedtools-0.9.0/docs/source/topical-design-principles.rst:120: WARNING: unknown option: 'mergeBed -i' /build/python-pybedtools-0.9.0/docs/source/topical-design-principles.rst:127: WARNING: unknown option: '-i' generating indices... genindex py-modindex done highlighting module code... [ 7%] pybedtools highlighting module code... [ 15%] pybedtools.bedtool highlighting module code... [ 23%] pybedtools.cbedtools highlighting module code... [ 30%] pybedtools.contrib.bigbed highlighting module code... [ 38%] pybedtools.contrib.bigwig highlighting module code... [ 46%] pybedtools.contrib.intersection_matrix highlighting module code... [ 53%] pybedtools.contrib.long_range_interaction highlighting module code... [ 61%] pybedtools.contrib.plotting highlighting module code... [ 69%] pybedtools.contrib.venn_maker highlighting module code... [ 76%] pybedtools.featurefuncs highlighting module code... [ 84%] pybedtools.filenames highlighting module code... [ 92%] pybedtools.helpers highlighting module code... [100%] pybedtools.parallel 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/sphinx/html. make[1]: Leaving directory '/build/python-pybedtools-0.9.0' dh_auto_test -O--buildsystem=pybuild create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_installdirs -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:240: /usr/bin/python3 setup.py install --root /build/python-pybedtools-0.9.0/debian/python3-pybedtools running install /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( running build running build_py copying pybedtools/version.py -> /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools running egg_info writing pybedtools.egg-info/PKG-INFO writing dependency_links to pybedtools.egg-info/dependency_links.txt writing requirements to pybedtools.egg-info/requires.txt writing top-level names to pybedtools.egg-info/top_level.txt reading manifest file 'pybedtools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.c' under directory 'pybedtools' warning: no previously-included files matching '__pycache__' found under directory '*' warning: no previously-included files matching '*.py[co]' found under directory '*' adding license file 'LICENSE.txt' writing manifest file 'pybedtools.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'pybedtools.include' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'pybedtools.include' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'pybedtools.include' 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 'pybedtools.include' 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) running build_ext running install_lib creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11 creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/genome_registry.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/_Window.pyx -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/logger.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/cbedtools.pxd -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/filenames.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/parallel.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/version.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/featurefuncs.cpython-311-arm-linux-gnueabihf.so -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/featurefuncs.cpp -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/paths.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/cbedtools.pyx -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/bigbed.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/venn_maker.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/__init__.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/bigwig.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/long_range_interaction.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/intersection_matrix.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/contrib/plotting.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/__init__.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/cbedtools.cpp -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/stats.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/featurefuncs.pyx -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/settings.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/tfuncs.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/vcf-stderr-test.vcf -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/issue_121.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/reads.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/Cp190_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/test_bedpe.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/issue319.vcf.gz -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/issue319.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/vcf-stderr-test.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/a.links.html -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/small.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/rmsk.hg18.chr21.small.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/small.fastq -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.sorted.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/venn.c.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/BEAF_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.cram -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/c.gff -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/x.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/CTCF_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/SuHw_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/SuHw_Mbn2_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.50.200.bam.bai -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/snps.bed.gz -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/democonfig.yaml -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/d.gff -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/venn.b.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/CTCF_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/b.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/dm3-chr2L-5M.gff.gz -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.1.100.bam.bai -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/x.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.1.100.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.othersort.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/164.gtf -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/mm9.bed12 -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/v.vcf -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/bedpe.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/BEAF_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/a.igv_script -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/test.fa -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/genome.fa -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.gff.gz -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/Cp190_Kc_Bushey_2009.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/__init__.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/hg38-problem.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/expand_test.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.50.200.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.gff -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/issue319.out.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/tag_test1.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/hg38-base.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/1000genomes-example.vcf -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/rmsk.hg18.chr21.small.bed.gz -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/a.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/tag_test2.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/bedpe2.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/hg19.gff -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/test.fa.fai -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/test_peaks.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/multibamcov_test.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/m1.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/gdc.sorted.bam.bai -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/y.bam -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/test_tsses.bed -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/dm3-chr2L-5M-invalid.gff.gz -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/data/exons.gff -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/regression_tests.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_issues.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_shuffle227.yaml -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_helpers.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_pathlib.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_cbedtools.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_shuffle215.yaml -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/mpl-expected.png -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_iter.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_merge215.yaml -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/__init__.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/gchart-expected.png -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_contrib.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_cases.yaml -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_1.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_merge227.yaml -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_gzip_support.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/test_len_leak.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/prevent_open_file_regression -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/test/genomepy_integration.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test creating /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/bedFile.h -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/fileType.h -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/gzstream.cpp -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/gzstream.h -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/bedFile.cpp -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/lineFileUtilities.h -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/include/fileType.cpp -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/include copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/bedtool.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/cbedtools.cpython-311-arm-linux-gnueabihf.so -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools copying /build/python-pybedtools-0.9.0/.pybuild/cpython3_3.11_pybedtools/build/pybedtools/helpers.py -> /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/genome_registry.py to genome_registry.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/logger.py to logger.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/filenames.py to filenames.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/parallel.py to parallel.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/version.py to version.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/paths.py to paths.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/bigbed.py to bigbed.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/venn_maker.py to venn_maker.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/__init__.py to __init__.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/bigwig.py to bigwig.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/long_range_interaction.py to long_range_interaction.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/intersection_matrix.py to intersection_matrix.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/contrib/plotting.py to plotting.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/__init__.py to __init__.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/stats.py to stats.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/settings.py to settings.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/tfuncs.py to tfuncs.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/data/__init__.py to __init__.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/regression_tests.py to regression_tests.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_issues.py to test_issues.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_helpers.py to test_helpers.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_pathlib.py to test_pathlib.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_cbedtools.py to test_cbedtools.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_iter.py to test_iter.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/__init__.py to __init__.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_contrib.py to test_contrib.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_1.py to test_1.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_gzip_support.py to test_gzip_support.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/test_len_leak.py to test_len_leak.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/test/genomepy_integration.py to genomepy_integration.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/bedtool.py to bedtool.cpython-311.pyc byte-compiling /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools/helpers.py to helpers.cpython-311.pyc running install_egg_info Copying pybedtools.egg-info to /build/python-pybedtools-0.9.0/debian/python3-pybedtools/usr/lib/python3.11/dist-packages/pybedtools-0.9.0.egg-info Skipping SOURCES.txt running install_scripts debian/rules override_dh_install make[1]: Entering directory '/build/python-pybedtools-0.9.0' dh_install rm -f debian/python3-pybedtools/usr/lib/python3*/dist-packages/pybedtools/test/prevent_open_file_regression make[1]: Leaving directory '/build/python-pybedtools-0.9.0' dh_installdocs -O--buildsystem=pybuild dh_installdocs: warning: Cannot auto-detect main package for python-pybedtools-doc. If the default is wrong, please use --doc-main-package dh_sphinxdoc -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installexamples -O--buildsystem=pybuild dh_installexamples: warning: Cannot auto-detect main package for python-pybedtools-doc. If the default is wrong, please use --doc-main-package dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: Depends field of package pybedtools-bin: substitution variable ${python3:Depends} used, but is not defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'pybedtools-bin' in '../pybedtools-bin_0.9.0-4_all.deb'. dpkg-deb: building package 'python3-pybedtools-dbgsym' in '../python3-pybedtools-dbgsym_0.9.0-4_armhf.deb'. dpkg-deb: building package 'python3-pybedtools' in '../python3-pybedtools_0.9.0-4_armhf.deb'. dpkg-deb: building package 'python-pybedtools-doc' in '../python-pybedtools-doc_0.9.0-4_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pybedtools_0.9.0-4_armhf.buildinfo dpkg-genchanges --build=binary -O../python-pybedtools_0.9.0-4_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/18102 and its subdirectories I: Current time: Tue May 16 18:49:09 -12 2023 I: pbuilder-time-stamp: 1684306149 Wed May 17 06:50:32 UTC 2023 I: 1st build successful. Starting 2nd build on remote node virt32c-armhf-rb.debian.net. Wed May 17 06:50:32 UTC 2023 I: Preparing to do remote build '2' on virt32c-armhf-rb.debian.net. Wed May 17 07:12:05 UTC 2023 I: Deleting $TMPDIR on virt32c-armhf-rb.debian.net. Wed May 17 07:12:07 UTC 2023 I: python-pybedtools_0.9.0-4_armhf.changes: Format: 1.8 Date: Mon, 02 Jan 2023 21:49:24 +0100 Source: python-pybedtools Binary: pybedtools-bin python-pybedtools-doc python3-pybedtools python3-pybedtools-dbgsym Architecture: all armhf Version: 0.9.0-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: pybedtools-bin - Scripts produced for pybedtools python-pybedtools-doc - Documentation for pybedtools library python3-pybedtools - Python 3 wrapper around BEDTools for bioinformatics work Closes: 1025116 Changes: python-pybedtools (0.9.0-4) unstable; urgency=medium . * Team upload. * d/control: restore python3 all versions support now that pysam supports python3.11. Thanks to Andreas Beckmann for the reminder. (Closes: #1025116) * d/copyright: update copyright year. * d/control: declare compliance to standards version 4.6.2. Checksums-Sha1: 677803c2cf30dc726e6f38b1b1bb30eb5b1fddb9 4732 pybedtools-bin_0.9.0-4_all.deb 622b4c63149a23ada2f0be444394dabfc7b61cbd 272656 python-pybedtools-doc_0.9.0-4_all.deb 1f025b8a96c4cd8248db5f36ab21fb05b1783955 11020 python-pybedtools_0.9.0-4_armhf.buildinfo 1640a85325cec88f94fb11e49050f1946021ef62 1114876 python3-pybedtools-dbgsym_0.9.0-4_armhf.deb 8732d9a64aec4331754669fce5199b6f76c94ce4 12141800 python3-pybedtools_0.9.0-4_armhf.deb Checksums-Sha256: 0adac7c5254046dbc6558a7189af5e077c30f84afb1560ee82c8e902761e799f 4732 pybedtools-bin_0.9.0-4_all.deb 8ede6a56a65bace90dc175e1fec54e531db3d63f89091cdc787e719ee6f6ded4 272656 python-pybedtools-doc_0.9.0-4_all.deb 7f20b01d81688a3a4f39d41c92d0ea0456e9eb9fc3e2f78e82ede13161651ec6 11020 python-pybedtools_0.9.0-4_armhf.buildinfo c004a42ebde60a7e3057c1e73cc78c4fb9d26dcf6bfc837c308bbe982908a676 1114876 python3-pybedtools-dbgsym_0.9.0-4_armhf.deb de4f38e29ea5a853d072f43a037569670098faf6dbb1a8a723418d9a7dcbc62a 12141800 python3-pybedtools_0.9.0-4_armhf.deb Files: f2640933fc1cde63db19328b8d9a4236 4732 python optional pybedtools-bin_0.9.0-4_all.deb 26cffd52cb28fd3e00c3d719827eabe9 272656 doc optional python-pybedtools-doc_0.9.0-4_all.deb 643f9c326d03f76735ccba9fa98d9aeb 11020 python optional python-pybedtools_0.9.0-4_armhf.buildinfo f1249c0b50f05b0dc4b2066dd8996cf0 1114876 debug optional python3-pybedtools-dbgsym_0.9.0-4_armhf.deb 0d5a9f4d5137bf024ed37c0fba91ac1e 12141800 python optional python3-pybedtools_0.9.0-4_armhf.deb Wed May 17 07:12:08 UTC 2023 I: diffoscope 242 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.7pi7vfTK/python-pybedtools_0.9.0-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.7pi7vfTK/python-pybedtools_0.9.0-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.7pi7vfTK/python-pybedtools_0.9.0-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.7pi7vfTK/b1/python-pybedtools_0.9.0-4_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.7pi7vfTK/b2/python-pybedtools_0.9.0-4_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.483s) 0.483s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.165s) 0.165s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Wed May 17 07:12:09 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Wed May 17 07:12:09 UTC 2023 I: python-pybedtools from bookworm built successfully and reproducibly on armhf. Wed May 17 07:12:11 UTC 2023 I: Submitting .buildinfo files to external archives: Wed May 17 07:12:11 UTC 2023 I: Submitting 12K b1/python-pybedtools_0.9.0-4_armhf.buildinfo.asc Wed May 17 07:12:12 UTC 2023 I: Submitting 12K b2/python-pybedtools_0.9.0-4_armhf.buildinfo.asc Wed May 17 07:12:13 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed May 17 07:12:13 UTC 2023 I: Done submitting .buildinfo files. Wed May 17 07:12:13 UTC 2023 I: Removing signed python-pybedtools_0.9.0-4_armhf.buildinfo.asc files: removed './b1/python-pybedtools_0.9.0-4_armhf.buildinfo.asc' removed './b2/python-pybedtools_0.9.0-4_armhf.buildinfo.asc'