I: pbuilder: network access will be disabled during build I: Current time: Fri Jul 16 00:14:41 +14 2021 I: pbuilder-time-stamp: 1626344081 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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-deeptools_3.5.0-1.dsc] I: copying [./python-deeptools_3.5.0.orig.tar.xz] I: copying [./python-deeptools_3.5.0-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.4p0CehTc/trustedkeys.kbx': General error gpgv: Signature made Fri Sep 18 03:51:50 2020 +14 gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./python-deeptools_3.5.0-1.dsc dpkg-source: info: extracting python-deeptools in python-deeptools-3.5.0 dpkg-source: info: unpacking python-deeptools_3.5.0.orig.tar.xz dpkg-source: info: unpacking python-deeptools_3.5.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying tmp_inhibit_test_readFiltering.patch dpkg-source: info: applying python2to3_for_executables.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/17891/tmp/hooks/D01_modify_environment starting debug: Running on cbxi4a. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/17891/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/17891/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=4' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=95f8319a9c634a9e8e5f41d84ff0c1a9 LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=17891 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.g9UvZCNzco/pbuilderrc_aUzd --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.g9UvZCNzco/b2 --logfile b2/build.log --extrapackages usrmerge python-deeptools_3.5.0-1.dsc' SUDO_GID=113 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:8000/ I: uname -a Linux i-capture-the-hostname 5.10.0-7-armmp #1 SMP Debian 5.10.40-1 (2021-05-28) armv7l GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Jun 22 16:26 bash -rwxr-xr-x 3 root root 26052 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 23 2020 cat -rwxr-xr-x 1 root root 43104 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 23 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 23 2020 chown -rwxr-xr-x 1 root root 92616 Sep 23 2020 cp -rwxr-xr-x 1 root root 75524 Dec 11 2020 dash -rwxr-xr-x 1 root root 75880 Sep 23 2020 date -rwxr-xr-x 1 root root 55436 Sep 23 2020 dd -rwxr-xr-x 1 root root 59912 Sep 23 2020 df -rwxr-xr-x 1 root root 96764 Sep 23 2020 dir -rwxr-xr-x 1 root root 55012 Feb 8 04:38 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 47492 Feb 8 04:38 findmnt -rwsr-xr-x 1 root root 26076 Feb 27 06:12 fusermount -rwxr-xr-x 1 root root 124508 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe -rwxr-xr-x 1 root root 64212 Mar 3 13:30 gzip -rwxr-xr-x 1 root root 13784 Nov 8 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 23 2020 ln -rwxr-xr-x 1 root root 35068 Feb 8 2020 login -rwxr-xr-x 1 root root 96764 Sep 23 2020 ls -rwxr-xr-x 1 root root 99940 Feb 8 04:38 lsblk -rwxr-xr-x 1 root root 51408 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 23 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 34408 Feb 8 04:38 more -rwsr-xr-x 1 root root 34400 Feb 8 04:38 mount -rwxr-xr-x 1 root root 9824 Feb 8 04:38 mountpoint -rwxr-xr-x 1 root root 88524 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Jun 22 16:26 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 23 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 23 2020 rm -rwxr-xr-x 1 root root 30732 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jul 16 00:17 sh -> bash lrwxrwxrwx 1 root root 4 Jul 14 23:28 sh.distrib -> dash -rwxr-xr-x 1 root root 22532 Sep 23 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 23 2020 stty -rwsr-xr-x 1 root root 46704 Feb 8 04:38 su -rwxr-xr-x 1 root root 22532 Sep 23 2020 sync -rwxr-xr-x 1 root root 340872 Feb 17 23:55 tar -rwxr-xr-x 1 root root 9808 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 23 2020 touch -rwxr-xr-x 1 root root 22496 Sep 23 2020 true -rwxr-xr-x 1 root root 9636 Feb 27 06:12 ulockmgr_server -rwsr-xr-x 1 root root 22108 Feb 8 04:38 umount -rwxr-xr-x 1 root root 22520 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress -rwxr-xr-x 1 root root 96764 Sep 23 2020 vdir -rwxr-xr-x 1 root root 38512 Feb 8 04:38 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew I: user script /srv/workspace/pbuilder/17891/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, python3-all, python3-setuptools, python3-numpy, python3-scipy (>= 0.17.0), python3-matplotlib (>= 2.1.2), python3-pysam (>= 0.14.0), python3-py2bit, python3-numpydoc, python3-pybigwig, python3-plotly (>= 2.0.0), python3-deeptoolsintervals, python3-nose dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19398 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy (>= 0.17.0); however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib (>= 2.1.2); however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam (>= 0.14.0); however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-py2bit; however: Package python3-py2bit is not installed. pbuilder-satisfydepends-dummy depends on python3-numpydoc; however: Package python3-numpydoc is not installed. pbuilder-satisfydepends-dummy depends on python3-pybigwig; however: Package python3-pybigwig is not installed. pbuilder-satisfydepends-dummy depends on python3-plotly (>= 2.0.0); however: Package python3-plotly is not installed. pbuilder-satisfydepends-dummy depends on python3-deeptoolsintervals; however: Package python3-deeptoolsintervals is not installed. pbuilder-satisfydepends-dummy depends on python3-nose; however: Package python3-nose is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fonts-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbigwig0{a} libblas3{a} libbrotli1{a} libbsd0{a} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran5{a} libhts3{a} libicu67{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmpdec3{a} libnghttp2-14{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-stdlib{a} libpython3.9{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtiff5{a} libtool{a} libuchardet0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml2{a} m4{a} mailcap{a} man-db{a} media-types{a} mime-support{a} openssl{a} po-debconf{a} python-babel-localedata{a} python-matplotlib-data{a} python3{a} python3-alabaster{a} python3-all{a} python3-attr{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-deeptoolsintervals{a} python3-distutils{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-importlib-metadata{a} python3-ipython-genutils{a} python3-jinja2{a} python3-jsonschema{a} python3-jupyter-core{a} python3-kiwisolver{a} python3-lib2to3{a} python3-markupsafe{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{a} python3-nbformat{a} python3-nose{a} python3-numpy{a} python3-numpydoc{a} python3-packaging{a} python3-pil{a} python3-pkg-resources{a} python3-plotly{a} python3-py2bit{a} python3-pybigwig{a} python3-pygments{a} python3-pyparsing{a} python3-pyrsistent{a} python3-pysam{a} python3-requests{a} python3-retrying{a} python3-roman{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-traitlets{a} python3-tz{a} python3-urllib3{a} python3-zipp{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} ttf-bitstream-vera{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx publicsuffix python3-olefile python3-tk wget 0 packages upgraded, 142 newly installed, 0 to remove and 0 not upgraded. Need to get 68.8 MB of archives. After unpacking 278 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-7 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf libpython3.9-minimal armhf 3.9.2-1 [790 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libexpat1 armhf 2.2.10-2 [76.3 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf python3.9-minimal armhf 3.9.2-1 [1630 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf python3-minimal armhf 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf mailcap all 3.69 [31.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf mime-support all 3.66 [10.9 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf libmpdec3 armhf 2.5.1-1 [74.9 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf readline-common all 8.1-1 [73.7 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf libreadline8 armhf 8.1-1 [147 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf libpython3.9-stdlib armhf 3.9.2-1 [1608 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf python3.9 armhf 3.9.2-1 [466 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf libpython3-stdlib armhf 3.9.2-3 [21.4 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf python3 armhf 3.9.2-3 [37.9 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf sgml-base all 1.30 [15.1 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf openssl armhf 1.1.1k-1 [826 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf ca-certificates all 20210119 [158 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 32 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 33 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 34 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 35 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 36 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 37 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 38 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 39 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 40 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 41 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 42 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 43 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 44 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 45 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 46 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 47 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Get: 49 http://deb.debian.org/debian bullseye/main armhf python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 50 http://deb.debian.org/debian bullseye/main armhf python3-distutils all 3.9.2-1 [143 kB] Get: 51 http://deb.debian.org/debian bullseye/main armhf dh-python all 4.20201102+nmu1 [99.4 kB] Get: 52 http://deb.debian.org/debian bullseye/main armhf xml-core all 0.18+nmu1 [23.8 kB] Get: 53 http://deb.debian.org/debian bullseye/main armhf docutils-common all 0.16+dfsg-4 [129 kB] Get: 54 http://deb.debian.org/debian bullseye/main armhf fonts-lyx all 2.3.6-1 [205 kB] Get: 55 http://deb.debian.org/debian bullseye/main armhf libbrotli1 armhf 1.0.9-2+b2 [262 kB] Get: 56 http://deb.debian.org/debian bullseye/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2.1 [67.6 kB] Get: 57 http://deb.debian.org/debian bullseye/main armhf libsasl2-2 armhf 2.1.27+dfsg-2.1 [99.1 kB] Get: 58 http://deb.debian.org/debian bullseye/main armhf libldap-2.4-2 armhf 2.4.57+dfsg-3 [210 kB] Get: 59 http://deb.debian.org/debian bullseye/main armhf libnghttp2-14 armhf 1.43.0-1 [65.6 kB] Get: 60 http://deb.debian.org/debian bullseye/main armhf libpsl5 armhf 0.21.0-1.2 [56.1 kB] Get: 61 http://deb.debian.org/debian bullseye/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 62 http://deb.debian.org/debian bullseye/main armhf libssh2-1 armhf 1.9.0-2 [143 kB] Get: 63 http://deb.debian.org/debian bullseye/main armhf libcurl3-gnutls armhf 7.74.0-1.3+b1 [306 kB] Get: 64 http://deb.debian.org/debian bullseye/main armhf libbigwig0 armhf 0.4.4+dfsg-2 [24.0 kB] Get: 65 http://deb.debian.org/debian bullseye/main armhf libblas3 armhf 3.9.0-3 [109 kB] Get: 66 http://deb.debian.org/debian bullseye/main armhf libmd0 armhf 1.0.3-3 [27.4 kB] Get: 67 http://deb.debian.org/debian bullseye/main armhf libbsd0 armhf 0.11.3-1 [103 kB] Get: 68 http://deb.debian.org/debian bullseye/main armhf libdeflate0 armhf 1.7-1 [43.1 kB] Get: 69 http://deb.debian.org/debian bullseye/main armhf libpng16-16 armhf 1.6.37-3 [277 kB] Get: 70 http://deb.debian.org/debian bullseye/main armhf libfreetype6 armhf 2.10.4+dfsg-1 [357 kB] Get: 71 http://deb.debian.org/debian bullseye/main armhf libgfortran5 armhf 10.2.1-6 [237 kB] Get: 72 http://deb.debian.org/debian bullseye/main armhf libhts3 armhf 1.11-4 [332 kB] Get: 73 http://deb.debian.org/debian bullseye/main armhf libimagequant0 armhf 2.12.2-1.1 [27.2 kB] Get: 74 http://deb.debian.org/debian bullseye/main armhf libjbig0 armhf 2.1-3.1+b2 [28.4 kB] Get: 75 http://deb.debian.org/debian bullseye/main armhf libjpeg62-turbo armhf 1:2.0.6-4 [123 kB] Get: 76 http://deb.debian.org/debian bullseye/main armhf libjs-jquery all 3.5.1+dfsg+~3.5.5-7 [315 kB] Get: 77 http://deb.debian.org/debian bullseye/main armhf libjs-jquery-ui all 1.12.1+dfsg-8 [232 kB] Get: 78 http://deb.debian.org/debian bullseye/main armhf libjs-underscore all 1.9.1~dfsg-3 [100 kB] Get: 79 http://deb.debian.org/debian bullseye/main armhf libjs-sphinxdoc all 3.4.3-2 [127 kB] Get: 80 http://deb.debian.org/debian bullseye/main armhf liblapack3 armhf 3.9.0-3 [1651 kB] Get: 81 http://deb.debian.org/debian bullseye/main armhf liblbfgsb0 armhf 3.0+dfsg.3-9 [24.9 kB] Get: 82 http://deb.debian.org/debian bullseye/main armhf liblcms2-2 armhf 2.12~rc1-2 [123 kB] Get: 83 http://deb.debian.org/debian bullseye/main armhf libpython3.9 armhf 3.9.2-1 [1447 kB] Get: 84 http://deb.debian.org/debian bullseye/main armhf libwebp6 armhf 0.6.1-2.1 [226 kB] Get: 85 http://deb.debian.org/debian bullseye/main armhf libtiff5 armhf 4.2.0-1 [271 kB] Get: 86 http://deb.debian.org/debian bullseye/main armhf libwebpdemux2 armhf 0.6.1-2.1 [86.7 kB] Get: 87 http://deb.debian.org/debian bullseye/main armhf libwebpmux3 armhf 0.6.1-2.1 [94.2 kB] Get: 88 http://deb.debian.org/debian bullseye/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 89 http://deb.debian.org/debian bullseye/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 90 http://deb.debian.org/debian bullseye/main armhf libxcb1 armhf 1.14-3 [136 kB] Get: 91 http://deb.debian.org/debian bullseye/main armhf python-babel-localedata all 2.8.0+dfsg.1-7 [4997 kB] Get: 92 http://deb.debian.org/debian bullseye/main armhf ttf-bitstream-vera all 1.10-8.1 [223 kB] Get: 93 http://deb.debian.org/debian bullseye/main armhf python-matplotlib-data all 3.3.4-1 [4153 kB] Get: 94 http://deb.debian.org/debian bullseye/main armhf python3-alabaster all 0.7.8-1.1 [18.6 kB] Get: 95 http://deb.debian.org/debian bullseye/main armhf python3-all armhf 3.9.2-3 [1056 B] Get: 96 http://deb.debian.org/debian bullseye/main armhf python3-attr all 20.3.0-1 [52.9 kB] Get: 97 http://deb.debian.org/debian bullseye/main armhf python3-pkg-resources all 52.0.0-4 [190 kB] Get: 98 http://deb.debian.org/debian bullseye/main armhf python3-tz all 2021.1-1 [34.8 kB] Get: 99 http://deb.debian.org/debian bullseye/main armhf python3-babel all 2.8.0+dfsg.1-7 [100 kB] Get: 100 http://deb.debian.org/debian bullseye/main armhf python3-certifi all 2020.6.20-1 [151 kB] Get: 101 http://deb.debian.org/debian bullseye/main armhf python3-chardet all 4.0.0-1 [99.0 kB] Get: 102 http://deb.debian.org/debian bullseye/main armhf python3-six all 1.16.0-1 [17.1 kB] Get: 103 http://deb.debian.org/debian bullseye/main armhf python3-cycler all 0.10.0-3 [8084 B] Get: 104 http://deb.debian.org/debian bullseye/main armhf python3-dateutil all 2.8.1-5 [81.7 kB] Get: 105 http://deb.debian.org/debian bullseye/main armhf python3-decorator all 4.4.2-2 [15.8 kB] Get: 106 http://deb.debian.org/debian bullseye/main armhf python3-deeptoolsintervals armhf 0.1.9-3+b2 [47.9 kB] Get: 107 http://deb.debian.org/debian bullseye/main armhf python3-roman all 2.0.0-5 [9064 B] Get: 108 http://deb.debian.org/debian bullseye/main armhf python3-docutils all 0.16+dfsg-4 [384 kB] Get: 109 http://deb.debian.org/debian bullseye/main armhf python3-idna all 2.10-1 [37.4 kB] Get: 110 http://deb.debian.org/debian bullseye/main armhf python3-imagesize all 1.2.0-2 [5824 B] Get: 111 http://deb.debian.org/debian bullseye/main armhf python3-more-itertools all 4.2.0-3 [42.7 kB] Get: 112 http://deb.debian.org/debian bullseye/main armhf python3-zipp all 1.0.0-3 [6060 B] Get: 113 http://deb.debian.org/debian bullseye/main armhf python3-importlib-metadata all 1.6.0-2 [10.3 kB] Get: 114 http://deb.debian.org/debian bullseye/main armhf python3-ipython-genutils all 0.2.0-4 [21.4 kB] Get: 115 http://deb.debian.org/debian bullseye/main armhf python3-markupsafe armhf 1.1.1-1+b3 [14.6 kB] Get: 116 http://deb.debian.org/debian bullseye/main armhf python3-jinja2 all 2.11.3-1 [114 kB] Get: 117 http://deb.debian.org/debian bullseye/main armhf python3-setuptools all 52.0.0-4 [366 kB] Get: 118 http://deb.debian.org/debian bullseye/main armhf python3-pyrsistent armhf 0.15.5-1+b3 [56.5 kB] Get: 119 http://deb.debian.org/debian bullseye/main armhf python3-jsonschema all 3.2.0-3 [46.3 kB] Get: 120 http://deb.debian.org/debian bullseye/main armhf python3-traitlets all 5.0.5-1 [84.4 kB] Get: 121 http://deb.debian.org/debian bullseye/main armhf python3-jupyter-core all 4.7.1-1 [44.0 kB] Get: 122 http://deb.debian.org/debian bullseye/main armhf python3-kiwisolver armhf 1.3.1-1+b1 [46.7 kB] Get: 123 http://deb.debian.org/debian bullseye/main armhf python3-pyparsing all 2.4.7-1 [109 kB] Get: 124 http://deb.debian.org/debian bullseye/main armhf python3-numpy armhf 1:1.19.5-1 [2981 kB] Get: 125 http://deb.debian.org/debian bullseye/main armhf python3-pil armhf 8.1.2+dfsg-0.2 [414 kB] Get: 126 http://deb.debian.org/debian bullseye/main armhf python3-matplotlib armhf 3.3.4-1 [4111 kB] Get: 127 http://deb.debian.org/debian bullseye/main armhf python3-nbformat all 5.1.2-1 [51.6 kB] Get: 128 http://deb.debian.org/debian bullseye/main armhf python3-nose all 1.3.7-7 [133 kB] Get: 129 http://deb.debian.org/debian bullseye/main armhf sphinx-common all 3.4.3-2 [578 kB] Get: 130 http://deb.debian.org/debian bullseye/main armhf python3-packaging all 20.9-2 [33.5 kB] Get: 131 http://deb.debian.org/debian bullseye/main armhf python3-pygments all 2.7.1+dfsg-2.1 [657 kB] Get: 132 http://deb.debian.org/debian bullseye/main armhf python3-urllib3 all 1.26.5-1~exp1 [114 kB] Get: 133 http://deb.debian.org/debian bullseye/main armhf python3-requests all 2.25.1+dfsg-2 [69.3 kB] Get: 134 http://deb.debian.org/debian bullseye/main armhf python3-snowballstemmer all 2.1.0-1 [58.7 kB] Get: 135 http://deb.debian.org/debian bullseye/main armhf python3-sphinx all 3.4.3-2 [545 kB] Get: 136 http://deb.debian.org/debian bullseye/main armhf python3-numpydoc all 1.1.0-3 [40.0 kB] Get: 137 http://deb.debian.org/debian bullseye/main armhf python3-retrying all 1.3.3-4 [8876 B] Get: 138 http://deb.debian.org/debian bullseye/main armhf python3-plotly all 4.14.3+dfsg-1 [2450 kB] Get: 139 http://deb.debian.org/debian bullseye/main armhf python3-py2bit armhf 0.3.0-6+b1 [16.4 kB] Get: 140 http://deb.debian.org/debian bullseye/main armhf python3-pybigwig armhf 0.3.17-1+b4 [31.4 kB] Get: 141 http://deb.debian.org/debian bullseye/main armhf python3-pysam armhf 0.15.4+ds-3+b2 [1381 kB] Get: 142 http://deb.debian.org/debian bullseye/main armhf python3-scipy armhf 1.6.0-2 [11.3 MB] Fetched 68.8 MB in 12s (5532 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19398 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-7_armhf.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../1-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_armhf.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../3-libpipeline1_1.5.3-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../4-man-db_2.9.4-2_armhf.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libpython3.9-minimal:armhf. Preparing to unpack .../5-libpython3.9-minimal_3.9.2-1_armhf.deb ... Unpacking libpython3.9-minimal:armhf (3.9.2-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../6-libexpat1_2.2.10-2_armhf.deb ... Unpacking libexpat1:armhf (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../7-python3.9-minimal_3.9.2-1_armhf.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:armhf (3.9.2-1) ... Setting up libexpat1:armhf (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20265 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_armhf.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package mailcap. Preparing to unpack .../2-mailcap_3.69_all.deb ... Unpacking mailcap (3.69) ... Selecting previously unselected package mime-support. Preparing to unpack .../3-mime-support_3.66_all.deb ... Unpacking mime-support (3.66) ... Selecting previously unselected package libmpdec3:armhf. Preparing to unpack .../4-libmpdec3_2.5.1-1_armhf.deb ... Unpacking libmpdec3:armhf (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:armhf. Preparing to unpack .../6-libreadline8_8.1-1_armhf.deb ... Unpacking libreadline8:armhf (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:armhf. Preparing to unpack .../7-libpython3.9-stdlib_3.9.2-1_armhf.deb ... Unpacking libpython3.9-stdlib:armhf (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../8-python3.9_3.9.2-1_armhf.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../9-libpython3-stdlib_3.9.2-3_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... 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 ... 20710 files and directories currently installed.) Preparing to unpack .../000-python3_3.9.2-3_armhf.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.30_all.deb ... Unpacking sgml-base (1.30) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package openssl. Preparing to unpack .../003-openssl_1.1.1k-1_armhf.deb ... Unpacking openssl (1.1.1k-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../004-ca-certificates_20210119_all.deb ... Unpacking ca-certificates (20210119) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.39-3_armhf.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../006-libmagic1_1%3a5.39-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../007-file_1%3a5.39-3_armhf.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../008-gettext-base_0.21-4_armhf.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../009-libsigsegv2_2.13-1_armhf.deb ... Unpacking libsigsegv2:armhf (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../010-m4_1.4.18-5_armhf.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../011-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../012-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../013-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../014-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../015-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../016-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../017-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../018-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../019-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../020-libfile-stripnondeterminism-perl_1.11.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.11.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../021-dh-strip-nondeterminism_1.11.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.11.0-1) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../022-libelf1_0.183-1_armhf.deb ... Unpacking libelf1:armhf (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../023-dwz_0.13+20210201-1_armhf.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:armhf. Preparing to unpack .../024-libicu67_67.1-7_armhf.deb ... Unpacking libicu67:armhf (67.1-7) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../025-libxml2_2.9.10+dfsg-6.7_armhf.deb ... Unpacking libxml2:armhf (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../026-gettext_0.21-4_armhf.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../027-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../028-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../029-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../030-python3-lib2to3_3.9.2-1_all.deb ... Unpacking python3-lib2to3 (3.9.2-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../031-python3-distutils_3.9.2-1_all.deb ... Unpacking python3-distutils (3.9.2-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../032-dh-python_4.20201102+nmu1_all.deb ... Unpacking dh-python (4.20201102+nmu1) ... Selecting previously unselected package xml-core. Preparing to unpack .../033-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package docutils-common. Preparing to unpack .../034-docutils-common_0.16+dfsg-4_all.deb ... Unpacking docutils-common (0.16+dfsg-4) ... Selecting previously unselected package fonts-lyx. Preparing to unpack .../035-fonts-lyx_2.3.6-1_all.deb ... Unpacking fonts-lyx (2.3.6-1) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../036-libbrotli1_1.0.9-2+b2_armhf.deb ... Unpacking libbrotli1:armhf (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../037-libsasl2-modules-db_2.1.27+dfsg-2.1_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../038-libsasl2-2_2.1.27+dfsg-2.1_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:armhf. Preparing to unpack .../039-libldap-2.4-2_2.4.57+dfsg-3_armhf.deb ... Unpacking libldap-2.4-2:armhf (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../040-libnghttp2-14_1.43.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.43.0-1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../041-libpsl5_0.21.0-1.2_armhf.deb ... Unpacking libpsl5:armhf (0.21.0-1.2) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../042-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:armhf. 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Setting up liblcms2-2:armhf (2.12~rc1-2) ... Setting up libxau6:armhf (1:1.0.9-1) ... Setting up libpsl5:armhf (0.21.0-1.2) ... Setting up ttf-bitstream-vera (1.10-8.1) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:armhf (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up fonts-lyx (2.3.6-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:armhf (1.0.9-2+b2) ... Setting up libnghttp2-14:armhf (1.43.0-1) ... Setting up libmagic1:armhf (1:5.39-3) ... Setting up libdeflate0:armhf (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libjbig0:armhf (2.1-3.1+b2) ... Setting up python-babel-localedata (2.8.0+dfsg.1-7) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:armhf (3.9.0-3) ... 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 libjpeg62-turbo:armhf (1:2.0.6-4) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:armhf (2.13-1) ... Setting up libimagequant0:armhf (2.12.2-1.1) ... Setting up libpng16-16:armhf (1.6.37-3) ... Setting up autopoint (0.21-4) ... Setting up libwebp6:armhf (0.6.1-2.1) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2.1) ... Setting up libgfortran5:armhf (10.2.1-6) ... Setting up libmd0:armhf (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libmpdec3:armhf (2.5.1-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:armhf (1.9.0-2) ... Setting up sgml-base (1.30) ... Setting up libtiff5:armhf (4.2.0-1) ... Setting up libjs-jquery (3.5.1+dfsg+~3.5.5-7) ... Setting up python-matplotlib-data (3.3.4-1) ... Setting up openssl (1.1.1k-1) ... Setting up libwebpmux3:armhf (0.6.1-2.1) ... Setting up libbsd0:armhf (0.11.3-1) ... Setting up mailcap (3.69) ... Setting up libelf1:armhf (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:armhf (2.9.10+dfsg-6.7) ... Setting up libjs-underscore (1.9.1~dfsg-3) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up liblapack3:armhf (3.9.0-3) ... 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 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up mime-support (3.66) ... Setting up libtool (2.4.6-15) ... Setting up libwebpdemux2:armhf (0.6.1-2.1) ... Setting up libreadline8:armhf (8.1-1) ... Setting up libldap-2.4-2:armhf (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:armhf (7.74.0-1.3+b1) ... Setting up libbigwig0:armhf (0.4.4+dfsg-2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up libjs-jquery-ui (1.12.1+dfsg-8) ... Setting up libfreetype6:armhf (2.10.4+dfsg-1) ... Setting up libjs-sphinxdoc (3.4.3-2) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.11.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up xml-core (0.18+nmu1) ... Setting up libpython3.9-stdlib:armhf (3.9.2-1) ... Setting up libpython3-stdlib:armhf (3.9.2-3) ... Setting up liblbfgsb0:armhf (3.0+dfsg.3-9) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libhts3:armhf (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up libpython3.9:armhf (3.9.2-1) ... Setting up sphinx-common (3.4.3-2) ... Setting up python3.9 (3.9.2-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up python3-markupsafe (1.1.1-1+b3) ... Setting up python3-tz (2021.1-1) ... Setting up python3-six (1.16.0-1) ... Setting up python3-pil:armhf (8.1.2+dfsg-0.2) ... Setting up python3-roman (2.0.0-5) ... Setting up python3-decorator (4.4.2-2) ... Setting up python3-jinja2 (2.11.3-1) ... Setting up python3-pyparsing (2.4.7-1) ... Setting up python3-certifi (2020.6.20-1) ... Setting up python3-snowballstemmer (2.1.0-1) ... Setting up python3-cycler (0.10.0-3) ... Setting up python3-kiwisolver (1.3.1-1+b1) ... Setting up python3-idna (2.10-1) ... Setting up python3-urllib3 (1.26.5-1~exp1) ... Setting up python3-pyrsistent:armhf (0.15.5-1+b3) ... Setting up python3-dateutil (2.8.1-5) ... Setting up python3-py2bit (0.3.0-6+b1) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-imagesize (1.2.0-2) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up python3-distutils (3.9.2-1) ... Setting up dh-python (4.20201102+nmu1) ... Setting up python3-more-itertools (4.2.0-3) ... Setting up python3-attr (20.3.0-1) ... Setting up python3-pysam (0.15.4+ds-3+b2) ... Setting up python3-setuptools (52.0.0-4) ... Setting up python3-babel (2.8.0+dfsg.1-7) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-deeptoolsintervals (0.1.9-3+b2) ... Setting up python3-ipython-genutils (0.2.0-4) ... Setting up python3-alabaster (0.7.8-1.1) ... Setting up python3-retrying (1.3.3-4) ... Setting up python3-all (3.9.2-3) ... Setting up python3-zipp (1.0.0-3) ... Setting up python3-nose (1.3.7-7) ... Setting up python3-pygments (2.7.1+dfsg-2.1) ... Setting up python3-packaging (20.9-2) ... Setting up python3-chardet (4.0.0-1) ... Setting up python3-requests (2.25.1+dfsg-2) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-pybigwig (0.3.17-1+b4) ... Setting up python3-traitlets (5.0.5-1) ... Setting up python3-jupyter-core (4.7.1-1) ... Setting up python3-matplotlib (3.3.4-1) ... Setting up python3-scipy (1.6.0-2) ... Setting up python3-importlib-metadata (1.6.0-2) ... Setting up python3-jsonschema (3.2.0-3) ... Setting up python3-nbformat (5.1.2-1) ... Setting up python3-plotly (4.14.3+dfsg-1) ... Processing triggers for libc-bin (2.31-12) ... Processing triggers for sgml-base (1.30) ... Setting up docutils-common (0.16+dfsg-4) ... Processing triggers for sgml-base (1.30) ... Setting up python3-docutils (0.16+dfsg-4) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-sphinx (3.4.3-2) ... Setting up python3-numpydoc (1.1.0-3) ... Processing triggers for ca-certificates (20210119) ... 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 Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl The following NEW packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 59.5 kB of archives. After this operation, 157 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main armhf libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main armhf libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main armhf libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main armhf usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (445 kB/s) Selecting previously unselected package libnumber-compare-perl. (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 ... 40444 files and directories currently installed.) Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... Unpacking libnumber-compare-perl (0.03-1.1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... Unpacking libtext-glob-perl (0.11-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package usrmerge. Preparing to unpack .../archives/usrmerge_25_all.deb ... Unpacking usrmerge (25) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (25) ... The system has been successfully converted. Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package hostname: Name or service not known I: Running cd /build/python-deeptools-3.5.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../python-deeptools_3.5.0-1_source.changes dpkg-buildpackage: info: source package python-deeptools dpkg-buildpackage: info: source version 3.5.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf dpkg-source: info: using options from python-deeptools-3.5.0/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/python-deeptools-3.5.0' dh_auto_clean install -d /build/python-deeptools-3.5.0/debian/.debhelper/generated/_source/home pybuild --clean --test-nose -i python{version} -p 3.9 I: pybuild base:232: python3.9 setup.py clean running clean removing '/build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build' (and everything under it) 'build/bdist.linux-armhf' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; rm -rf .pytest_cache deeptools/__pycache__ make[1]: Leaving directory '/build/python-deeptools-3.5.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-deeptools.substvars debian/files rm -fr -- debian/python3-deeptools/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild install -d /build/python-deeptools-3.5.0/debian/.debhelper/generated/_source/home pybuild --configure --test-nose -i python{version} -p 3.9 I: pybuild base:232: python3.9 setup.py config running config dh_auto_build -O--buildsystem=pybuild pybuild --build --test-nose -i python{version} -p 3.9 I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py creating /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/computeMatrix.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/getScorePerBigWigBin.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotCoverage.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/writeBedGraph_bam_and_bw.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/sumCoveragePerBin.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotCorrelation.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/heatmapper_utilities.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/parserCommon.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/multiBamSummary.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/getScaleFactor.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotProfile.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/utilities.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/misc.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/bamHandler.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/correctGCBias.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/correlation_heatmap.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/deepBlue.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/getFragmentAndReadSize.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/correlation.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/writeBedGraph.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/computeMatrixOperations.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/computeGCBias.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/estimateReadFiltering.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/multiBigwigSummary.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/__init__.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotPCA.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotEnrichment.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/cm.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotFingerprint.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/alignmentSieve.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/deeptools_list_tools.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/heatmapper.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/_version.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/getRatio.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/plotHeatmap.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/countReadsPerBin.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/bamPEFragmentSize.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/mapReduce.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/bamCoverage.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/SES_scaleFactor.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/bigwigCompare.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools copying deeptools/bamCompare.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools creating /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_writeBedGraph.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_readFiltering.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/testskip_heatmapper_images.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_heatmapper.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_countReadsPerBin.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_bigwigCompare_and_multiBigwigSummary.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_computeMatrixOperations.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/__init__.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_plotCoverage.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_multiBamSummary.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_bamCoverage_and_bamCompare.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test copying deeptools/test/test_tools.py -> /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test running egg_info creating deepTools.egg-info writing deepTools.egg-info/PKG-INFO writing dependency_links to deepTools.egg-info/dependency_links.txt writing requirements to deepTools.egg-info/requires.txt writing top-level names to deepTools.egg-info/top_level.txt writing manifest file 'deepTools.egg-info/SOURCES.txt' reading manifest file 'deepTools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'examples/*' warning: no previously-included files found matching 'galaxy/*' warning: no previously-included files found matching 'gallery/*' writing manifest file 'deepTools.egg-info/SOURCES.txt' running build_scripts creating build creating build/scripts-3.9 copying and adjusting bin/bamCompare -> build/scripts-3.9 copying and adjusting bin/bamCoverage -> build/scripts-3.9 copying and adjusting bin/multiBamSummary -> build/scripts-3.9 copying and adjusting bin/plotHeatmap -> build/scripts-3.9 copying and adjusting bin/plotFingerprint -> build/scripts-3.9 copying and adjusting bin/estimateScaleFactor -> build/scripts-3.9 copying and adjusting bin/bamPEFragmentSize -> build/scripts-3.9 copying and adjusting bin/computeMatrix -> build/scripts-3.9 copying and adjusting bin/plotProfile -> build/scripts-3.9 copying and adjusting bin/computeGCBias -> build/scripts-3.9 copying and adjusting bin/correctGCBias -> build/scripts-3.9 copying and adjusting bin/multiBigwigSummary -> build/scripts-3.9 copying and adjusting bin/bigwigCompare -> build/scripts-3.9 copying and adjusting bin/plotCoverage -> build/scripts-3.9 copying and adjusting bin/plotPCA -> build/scripts-3.9 copying and adjusting bin/plotCorrelation -> build/scripts-3.9 copying and adjusting bin/plotEnrichment -> build/scripts-3.9 copying and adjusting bin/deeptools -> build/scripts-3.9 copying and adjusting bin/computeMatrixOperations -> build/scripts-3.9 copying and adjusting bin/estimateReadFiltering -> build/scripts-3.9 copying and adjusting bin/alignmentSieve -> build/scripts-3.9 changing mode of build/scripts-3.9/bamCompare from 644 to 755 changing mode of build/scripts-3.9/bamCoverage from 644 to 755 changing mode of build/scripts-3.9/multiBamSummary from 644 to 755 changing mode of build/scripts-3.9/plotHeatmap from 644 to 755 changing mode of build/scripts-3.9/plotFingerprint from 644 to 755 changing mode of build/scripts-3.9/estimateScaleFactor from 644 to 755 changing mode of build/scripts-3.9/bamPEFragmentSize from 644 to 755 changing mode of build/scripts-3.9/computeMatrix from 644 to 755 changing mode of build/scripts-3.9/plotProfile from 644 to 755 changing mode of build/scripts-3.9/computeGCBias from 644 to 755 changing mode of build/scripts-3.9/correctGCBias from 644 to 755 changing mode of build/scripts-3.9/multiBigwigSummary from 644 to 755 changing mode of build/scripts-3.9/bigwigCompare from 644 to 755 changing mode of build/scripts-3.9/plotCoverage from 644 to 755 changing mode of build/scripts-3.9/plotPCA from 644 to 755 changing mode of build/scripts-3.9/plotCorrelation from 644 to 755 changing mode of build/scripts-3.9/plotEnrichment from 644 to 755 changing mode of build/scripts-3.9/deeptools from 644 to 755 changing mode of build/scripts-3.9/computeMatrixOperations from 644 to 755 changing mode of build/scripts-3.9/estimateReadFiltering from 644 to 755 changing mode of build/scripts-3.9/alignmentSieve from 644 to 755 debian/rules override_dh_auto_test make[1]: Entering directory '/build/python-deeptools-3.5.0' PYTHONPATH=/build/python-deeptools-3.5.0 nosetests3 -x -v -s deeptools Test minimal command line args for bamCoverage ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_extend ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_extend_and_normalizeUsingRPGC ... normalization: 1x (effective genome size 200) bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 normalization: 1x (effective genome size 200) bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_skipnas ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_filtering ... Specified --scaleFactor: 1.0 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: True region: None bedFile: None minMappingQuality: None ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 Specified --scaleFactor: 1.0 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: True region: None bedFile: None minMappingQuality: None ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test minimal command line args for bamCoverage. The ratio ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test with two different files ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test with different pseudocounts ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Ensure --skipZeroOverZero works in bamCompare ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: True bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test the scale factor functions ... ok Test skipnas ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test read extension ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 ok Test scale factor ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test scale factor ... normalization: CPM normalization: CPM The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 normalization: CPM normalization: CPM The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test --samFlagInclude --samFlagExclude --minMappingQuality --ignoreDuplicates and --blackListFileName ... normalization: 1x (effective genome size 1400) bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.bam'] binLength: 50 numberOfSamples: None blackListFileName: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 normalization: 1x (effective genome size 1400) bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.cram'] binLength: 50 numberOfSamples: None blackListFileName: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test -bs 1 --Offset 1 ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1] bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1] ok Test -bs 1 --Offset 1 10 ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1, 10] bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1, 10] ok Test -bs 1 --Offset -1 ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [-1] bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [-1] ok Test -bs 1 --Offset 20 -4 ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [20, -4] bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [20, -4] ok Test --samFlagInclude --samFlagExclude --minMappingQuality --ignoreDuplicates and --blackListFileName ... bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.bam', '/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering2.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.cram', '/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering2.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: ['/build/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_bigwigCompare ... ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_bigwigCompare_skipnas ... ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_bigwigCompare_skipZeroOverZero ... ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_multiBigwigSummary ... The following chromosome names did not match between the bigwig files chromosome length chr_cigar 200 Number of bins found: 4 ok Test multiBigwigSummary raw counts output ... The following chromosome names did not match between the bigwig files chromosome length chr_cigar 200 *Warning* The resulting bed file does not contain information for the chromosomes that were not common between the bigwig files Number of bins found: 4 ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_multiBigwigSummary_gtf ... Number of bins found: 2 ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_multiBigwigSummary_metagene ... Number of bins found: 2 ok computeMatrixOperations relabel ... ok computeMatrixOperations subset ... ok computeMatrixOperations cbind ... ok computeMatrixOperations filterStrand ... ok computeMatrixOperations rbind ... ok computeMatrixOperations rbind with different groups ... ok computeMatrixOperations sort ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_bed_file ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_countReadsInRegions_min_mapping_quality ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_count_reads_in_region ... ok In this case when read extension is smaller than read length ... *WARNING*: read extension is smaller than read length (read length = 50). Reads will not be extended. ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_count_reads_in_region_ignore_bed_regions ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_count_reads_in_region_ignore_duplicates ... ok count the reads over the whole region ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_ignore_duplicates ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_large_bin ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_sam_flag_exclude ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_sam_flag_include ... ok The bamFile1 contains a read at position 10 ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_zeros_to_nan ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_bed_file ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_countReadsInRegions_min_mapping_quality ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_count_reads_in_region ... ok In this case when read extension is smaller than read length ... *WARNING*: read extension is smaller than read length (read length = 50). Reads will not be extended. ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_count_reads_in_region_ignore_bed_regions ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_count_reads_in_region_ignore_duplicates ... ok count the reads over the whole region ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_ignore_duplicates ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_large_bin ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_sam_flag_exclude ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_sam_flag_include ... ok The bamFile1 contains a read at position 10 ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_zeros_to_nan ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point_center ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point_tes ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point_missing_data_as_zero ... ok deeptools.test.test_heatmapper.test_computeMatrix_scale_regions ... ok deeptools.test.test_heatmapper.test_computeMatrix_multiple_bed ... ok deeptools.test.test_heatmapper.test_computeMatrix_region_extend_over_chr_end ... ok deeptools.test.test_heatmapper.test_computeMatrix_unscaled ... ok deeptools.test.test_heatmapper.test_computeMatrix_gtf ... ok deeptools.test.test_heatmapper.test_computeMatrix_metagene ... ok deeptools.test.test_heatmapper.test_chopRegions_body ... ok deeptools.test.test_heatmapper.test_chopRegions_TSS ... ok deeptools.test.test_heatmapper.test_chopRegions_TES ... ok deeptools.test.test_heatmapper.test_chopRegionsFromMiddle ... ok deeptools.test.test_multiBamSummary.test_multiBamSummary_gtf ... Number of bins found: 2 Number of bins found: 2 ok deeptools.test.test_multiBamSummary.test_multiBamSummary_metagene ... Number of bins found: 2 Number of bins found: 2 ok deeptools.test.test_multiBamSummary.test_multiBamSummary_scalingFactors ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 Number of bins found: 4 /build/python-deeptools-3.5.0/deeptools/test/test_multiBamSummary.py:54: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/test.scalingFactors.txt' mode='r' encoding='UTF-8'> ok deeptools.test.test_plotCoverage.test_plotCoverage_default ... ok Minimal testing ... ok --minMappingQuality 10 --samFlagExclude 512 --ignoreDuplicates -bl ... ok Test alignmentSieve with the --BED option ... [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_w_nhgs0j.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_qtp79yc6.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_akl898ci.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_j7_m7yue.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_0_ozyr1v.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_av839ujr.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_1shh6s7s.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_3y5c1v51.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_7e1o318i.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_mre2lus4.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_niofefps.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_eafc1yl1.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_azd2vlkp.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_pz1mgjvv.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_4qmt9x5n.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_wgddjxze.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_4fy4hdw7.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_2xk4xzxw.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_0mhrowqh.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_n0m70bjq.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools__n2k6wi4.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_9scqx7se.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_1x3h00ew.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_7fz61i43.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_mkw7_yrg.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_byyszj_1.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_jrgp7gas.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_uw11sbbw.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_vz_1j075.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_33pu91_q.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_yfrybaeo.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_kjcjiamb.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_lakzh114.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_74hk9x0m.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_c5hsvc61.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_qlyrstef.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_a30xeup6.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_g2ww9eqf.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_bns0_p86.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_p30cntue.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_nsxf9xlk.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_6mu1gh4d.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_2s3td_44.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_f9kvkh__.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_86rn7gjj.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_dheo65y5.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_i39k7dq3.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_8d08cqch.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_rfi5wtem.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_zbgw60il.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_gvsvzrsx.bam' ok Test filtering a BAM file by MAPQ, flag, and blacklist ... SKIP: Skip this test (see )https://github.com/deeptools/deepTools/issues/903 Test alignmentSieve --BED --shift ... [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_53w3u4g5.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_p7i88p7a.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_r0hgeq6f.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_2oahu411.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_kt5y75l8.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_na7467ea.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_k1b6yu7m.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_18ajq7hv.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_kye6o1tj.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ra7uw47h.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_x6no53dl.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_57yasi1g.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_af9tscuq.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_tyc_0m1m.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_uyxdrbtb.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_g1l7nk2q.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_xo7u0d1r.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_lsql5caz.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_3nk8lqll.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_101lc9_0.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_rduwjj9o.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_bc2zpomv.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_co6szk76.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_w3rs2cet.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_zte320c5.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_wj8u04ih.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_qancdaxc.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_1u6_hk9b.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ymb0ue9b.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_x_az5yle.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ksaggjkc.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_lr8qxh5y.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_azrbubk9.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_vl3hdli8.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_f49hl9vq.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_59apora3.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_o6j_hqa2.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_lba0xqi4.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_oe64jk57.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_n1kaud58.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_39dh_68y.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_loixmurx.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_e1_lrx5p.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_jbc5q930.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_jx0qffgz.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_et40d4fz.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_s75xhzkr.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_8x_j988o.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_b1d09fki.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_hdne2d0j.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_xfjw7hjt.bam' ok Checks everything that is in /bin/ ... plotPCA 3.5.0 bamPEFragmentSize 3.5.0 computeGCBias 3.5.0 bigwigCompare 3.5.0 bamCoverage 3.5.0 plotCorrelation 3.5.0 alignmentSieve 3.5.0 estimateReadFiltering 3.5.0 multiBamSummary 3.5.0 plotHeatmap 3.5.0 deeptools 3.5.0 plotProfile 3.5.0 multiBigwigSummary 3.5.0 bamCompare 3.5.0 plotEnrichment 3.5.0 plotCoverage 3.5.0 computeMatrixOperations 3.5.0 plotFingerprint 3.5.0 correctGCBias 3.5.0 estimateScaleFactor 3.5.0 computeMatrix 3.5.0 ok The bamFile1 contains a read at position 10 ... ok test_writeBedGraph_worker (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_ignore_duplicates (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_scaling (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_smoothing (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_zerotonan (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok The bamFile1 contains a read at position 10 ... ok test_writeBedGraph_worker (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_ignore_duplicates (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_scaling (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_smoothing (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_zerotonan (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok Test a simple plot generated using a matrix from ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_rename_labels ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_scale_regions ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_multi_bigwig_pergroup ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_multiple_colors_muti_scales ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_multiple_colormap_no_boxes ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_interpolation ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_heatmap ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_overlapped_lines ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_multibigwig ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_multibigwig_pergroup ... ok ---------------------------------------------------------------------- Ran 108 tests in 146.975s OK (SKIP=1) MainProcess, processing 3 (2363.4 per sec) reads @ 3R:0-200 MainProcess countReadsInRegions_worker: processing 4 (1136.3 per sec) @ 3R:0-200 MainProcess, processing 3 (1014.4 per sec) reads @ 3R:0-200 MainProcess countReadsInRegions_worker: processing 4 (913.5 per sec) @ 3R:0-200 Due to filtering, 50.0% of the aforementioned alignments will be used 1.0 Due to filtering, 50.0% of the aforementioned alignments will be used 1.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 97 alignments, of which 4 are completely within a blacklist region. Due to filtering, 86.02150537634408% of the aforementioned alignments will be used 80.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 97 alignments, of which 4 are completely within a blacklist region. Due to filtering, 86.02150537634408% of the aforementioned alignments will be used 80.0 sample mean std min 25% 50% 75% max test1.bam 4.90 5.63 0 0.0 3.0 8.0 25 test2.bam 6.56 6.63 0 0.0 5.0 11.0 25 sample mean std min 25% 50% 75% max test1.cram 4.90 5.63 0 0.0 3.0 8.0 25 test2.cram 6.56 6.63 0 0.0 5.0 11.0 25 plotPCA bamPEFragmentSize computeGCBias bigwigCompare bamCoverage plotCorrelation alignmentSieve estimateReadFiltering multiBamSummary plotHeatmap deeptools plotProfile multiBigwigSummary bamCompare plotEnrichment plotCoverage computeMatrixOperations plotFingerprint correctGCBias estimateScaleFactor computeMatrix make[1]: Leaving directory '/build/python-deeptools-3.5.0' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/python3-deeptools.substvars rm -fr -- debian/.debhelper/generated/python3-deeptools/ debian/python3-deeptools/ debian/tmp/ dh_auto_install -O--buildsystem=pybuild install -d /build/python-deeptools-3.5.0/debian/python3-deeptools pybuild --install --test-nose -i python{version} -p 3.9 --dest-dir /build/python-deeptools-3.5.0/debian/python3-deeptools I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/python-deeptools-3.5.0/debian/python3-deeptools running install running build running build_py running egg_info writing deepTools.egg-info/PKG-INFO writing dependency_links to deepTools.egg-info/dependency_links.txt writing requirements to deepTools.egg-info/requires.txt writing top-level names to deepTools.egg-info/top_level.txt reading manifest file 'deepTools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'examples/*' warning: no previously-included files found matching 'galaxy/*' warning: no previously-included files found matching 'gallery/*' writing manifest file 'deepTools.egg-info/SOURCES.txt' running build_scripts running install_lib creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9 creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/computeMatrix.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/getScorePerBigWigBin.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotCoverage.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/writeBedGraph_bam_and_bw.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/sumCoveragePerBin.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotCorrelation.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/heatmapper_utilities.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/parserCommon.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/multiBamSummary.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/getScaleFactor.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotProfile.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/utilities.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/misc.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/bamHandler.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/correctGCBias.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/correlation_heatmap.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/deepBlue.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/getFragmentAndReadSize.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/correlation.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/writeBedGraph.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/computeMatrixOperations.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/computeGCBias.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/estimateReadFiltering.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/multiBigwigSummary.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/__init__.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotPCA.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotEnrichment.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/cm.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotFingerprint.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_writeBedGraph.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_readFiltering.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/testskip_heatmapper_images.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_heatmapper.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_countReadsPerBin.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_bigwigCompare_and_multiBigwigSummary.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_computeMatrixOperations.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/__init__.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_plotCoverage.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_multiBamSummary.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_bamCoverage_and_bamCompare.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/test/test_tools.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/alignmentSieve.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/deeptools_list_tools.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/heatmapper.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/_version.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/getRatio.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/plotHeatmap.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/countReadsPerBin.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/bamPEFragmentSize.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/mapReduce.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/bamCoverage.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/SES_scaleFactor.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/bigwigCompare.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools copying /build/python-deeptools-3.5.0/.pybuild/cpython3_3.9_deeptools/build/deeptools/bamCompare.py -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/computeMatrix.py to computeMatrix.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/getScorePerBigWigBin.py to getScorePerBigWigBin.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotCoverage.py to plotCoverage.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/writeBedGraph_bam_and_bw.py to writeBedGraph_bam_and_bw.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/sumCoveragePerBin.py to sumCoveragePerBin.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotCorrelation.py to plotCorrelation.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/heatmapper_utilities.py to heatmapper_utilities.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/parserCommon.py to parserCommon.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/multiBamSummary.py to multiBamSummary.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/getScaleFactor.py to getScaleFactor.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotProfile.py to plotProfile.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/utilities.py to utilities.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/misc.py to misc.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/bamHandler.py to bamHandler.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/correctGCBias.py to correctGCBias.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/correlation_heatmap.py to correlation_heatmap.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/deepBlue.py to deepBlue.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/getFragmentAndReadSize.py to getFragmentAndReadSize.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/correlation.py to correlation.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/writeBedGraph.py to writeBedGraph.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/computeMatrixOperations.py to computeMatrixOperations.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/computeGCBias.py to computeGCBias.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/estimateReadFiltering.py to estimateReadFiltering.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/multiBigwigSummary.py to multiBigwigSummary.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/__init__.py to __init__.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotPCA.py to plotPCA.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotEnrichment.py to plotEnrichment.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/cm.py to cm.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotFingerprint.py to plotFingerprint.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_writeBedGraph.py to test_writeBedGraph.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_readFiltering.py to test_readFiltering.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/testskip_heatmapper_images.py to testskip_heatmapper_images.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_heatmapper.py to test_heatmapper.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_countReadsPerBin.py to test_countReadsPerBin.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_bigwigCompare_and_multiBigwigSummary.py to test_bigwigCompare_and_multiBigwigSummary.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_computeMatrixOperations.py to test_computeMatrixOperations.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/__init__.py to __init__.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_plotCoverage.py to test_plotCoverage.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_multiBamSummary.py to test_multiBamSummary.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_bamCoverage_and_bamCompare.py to test_bamCoverage_and_bamCompare.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/test/test_tools.py to test_tools.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/alignmentSieve.py to alignmentSieve.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/deeptools_list_tools.py to deeptools_list_tools.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/heatmapper.py to heatmapper.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/_version.py to _version.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/getRatio.py to getRatio.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/plotHeatmap.py to plotHeatmap.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/countReadsPerBin.py to countReadsPerBin.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/bamPEFragmentSize.py to bamPEFragmentSize.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/mapReduce.py to mapReduce.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/bamCoverage.py to bamCoverage.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/SES_scaleFactor.py to SES_scaleFactor.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/bigwigCompare.py to bigwigCompare.cpython-39.pyc byte-compiling /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deeptools/bamCompare.py to bamCompare.cpython-39.pyc running install_egg_info Copying deepTools.egg-info to /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.9/dist-packages/deepTools-3.5.0.egg-info Skipping SOURCES.txt running install_scripts creating /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotPCA -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/bamPEFragmentSize -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/computeGCBias -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/bigwigCompare -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/bamCoverage -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotCorrelation -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/alignmentSieve -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/estimateReadFiltering -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/multiBamSummary -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotHeatmap -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/deeptools -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotProfile -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/multiBigwigSummary -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/bamCompare -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotEnrichment -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotCoverage -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/computeMatrixOperations -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/plotFingerprint -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/correctGCBias -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/estimateScaleFactor -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.9/computeMatrix -> /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotPCA to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bamPEFragmentSize to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/computeGCBias to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bigwigCompare to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bamCoverage to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotCorrelation to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/alignmentSieve to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/estimateReadFiltering to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/multiBamSummary to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotHeatmap to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/deeptools to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotProfile to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/multiBigwigSummary to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bamCompare to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotEnrichment to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotCoverage to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/computeMatrixOperations to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotFingerprint to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/correctGCBias to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/estimateScaleFactor to 755 changing mode of /build/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/computeMatrix to 755 dh_installdocs -O--buildsystem=pybuild install -d debian/python3-deeptools/usr/share/doc/python3-deeptools install -d debian/.debhelper/generated/python3-deeptools install -p -m0644 debian/TODO debian/python3-deeptools/usr/share/doc/python3-deeptools/TODO.Debian install -p -m0644 debian/copyright debian/python3-deeptools/usr/share/doc/python3-deeptools/copyright dh_installchangelogs -O--buildsystem=pybuild install -p -m0644 debian/changelog debian/python3-deeptools/usr/share/doc/python3-deeptools/changelog.Debian install -p -m0644 ./CHANGES.txt debian/python3-deeptools/usr/share/doc/python3-deeptools/changelog dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:161: version: 4.20201102+nmu1 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:163: options: {'guess_deps': True, 'skip_private': False, 'verbose': False, 'arch': None, 'package': None, 'no_package': None, 'compile_all': False, 'vrange': None, 'regexpr': None, 'accept_upstream_versions': False, 'depends': None, 'depends_section': None, 'recommends': None, 'recommends_section': None, 'suggests': None, 'suggests_section': None, 'requires': None, 'shebang': None, 'ignore_shebangs': False, 'clean_dbg_pkg': True, 'no_ext_rename': False, 'no_shebang_rewrite': False, 'O': '--buildsystem=pybuild'} D: dh_python3 dh_python3:164: args: [] D: dh_python3 dh_python3:165: supported Python versions: 3.9 (default=3.9) D: dh_python3 debhelper:152: source=python-deeptools, binary packages=['python3-deeptools'] D: dh_python3 dh_python3:183: processing package python3-deeptools... D: dh_python3 fs:49: moving files from debian/python3-deeptools/usr/lib/python3.9/dist-packages to debian/python3-deeptools/usr/lib/python3/dist-packages/ D: dh_python3 fs:260: package python3-deeptools details = {'requires.txt': {'debian/python3-deeptools/usr/lib/python3/dist-packages/deepTools-3.5.0.egg-info/requires.txt'}, 'egg-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-deeptools D: dh_python3 pydist:142: trying to find dependency for deeptoolsintervals>=0.1.8 (python=None) D: dh_python3 pydist:142: trying to find dependency for matplotlib>=3.1.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for numpy>=1.9.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for numpydoc>=0.5 (python=None) D: dh_python3 pydist:142: trying to find dependency for plotly>=2.0.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for py2bit>=0.2.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for pyBigWig>=0.2.1 (python=None) D: dh_python3 pydist:142: trying to find dependency for pysam>=0.14.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for scipy>=0.17.0 (python=None) D: dh_python3 depends:275: D={'python3-numpy', 'python3-py2bit', 'python3-matplotlib (>=2.1.2)', 'python3-deeptoolsintervals', 'python3:any', 'python3-plotly (>=2.0.0)', 'python3-scipy (>=0.17.0)', 'python3-numpydoc', 'python3-pysam (>=0.14.0)', 'python3-pybigwig'}; R=[]; S=[]; E=[], B=[]; RT=[] 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 cd debian/python3-deeptools chmod a-x usr/share/doc/python3-deeptools/changelog usr/share/doc/python3-deeptools/changelog.Debian gzip -9nf usr/share/doc/python3-deeptools/changelog usr/share/doc/python3-deeptools/changelog.Debian cd '/build/python-deeptools-3.5.0' dh_fixperms -O--buildsystem=pybuild find debian/python3-deeptools ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-deeptools/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-deeptools/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-deeptools/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-deeptools -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-deeptools/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-deeptools/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild install -d debian/python3-deeptools/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-deeptools/DEBIAN/postinst cat debian/python3-deeptools.postinst.debhelper >> debian/python3-deeptools/DEBIAN/postinst chmod 0755 -- debian/python3-deeptools/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-deeptools/DEBIAN/prerm cat debian/python3-deeptools.prerm.debhelper >> debian/python3-deeptools/DEBIAN/prerm chmod 0755 -- debian/python3-deeptools/DEBIAN/prerm dh_gencontrol -O--buildsystem=pybuild echo misc:Depends= >> debian/python3-deeptools.substvars echo misc:Pre-Depends= >> debian/python3-deeptools.substvars dpkg-gencontrol -ppython3-deeptools -ldebian/changelog -Tdebian/python3-deeptools.substvars -Pdebian/python3-deeptools chmod 0644 -- debian/python3-deeptools/DEBIAN/control dh_md5sums -O--buildsystem=pybuild cd debian/python3-deeptools >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-deeptools/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-deeptools .. dpkg-deb: building package 'python3-deeptools' in '../python3-deeptools_3.5.0-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../python-deeptools_3.5.0-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from python-deeptools-3.5.0/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/17891/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/17891/tmp/hooks/B01_cleanup finished 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/17891 and its subdirectories I: Current time: Fri Jul 16 00:35:27 +14 2021 I: pbuilder-time-stamp: 1626345327