I: pbuilder: network access will be disabled during build I: Current time: Sat Aug 28 03:52:23 -12 2021 I: pbuilder-time-stamp: 1630165943 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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 [bcbio_1.1.2-3.dsc] I: copying [./bcbio_1.1.2.orig.tar.gz] I: copying [./bcbio_1.1.2-3.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/var/lib/jenkins/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Wed Jan 23 02:23:54 2019 -12 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 ./bcbio_1.1.2-3.dsc dpkg-source: info: extracting bcbio in bcbio-1.1.2 dpkg-source: info: unpacking bcbio_1.1.2.orig.tar.gz dpkg-source: info: unpacking bcbio_1.1.2-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying python3.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/32190/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8' DISTRIBUTION='' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='32190' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.xXlIzVMMUy/pbuilderrc_FcX2 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.xXlIzVMMUy/b1 --logfile b1/build.log bcbio_1.1.2-3.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink-sled15-arm64 4.4.0-186-generic #216-Ubuntu SMP Wed Jul 1 05:35:21 UTC 2020 aarch64 GNU/Linux I: ls -l /bin total 4928 -rwxr-xr-x 1 root root 1216928 Apr 17 2019 bash -rwxr-xr-x 3 root root 34808 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 34808 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14264 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 35576 Feb 28 2019 cat -rwxr-xr-x 1 root root 60256 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 56096 Feb 28 2019 chmod -rwxr-xr-x 1 root root 64368 Feb 28 2019 chown -rwxr-xr-x 1 root root 134632 Feb 28 2019 cp -rwxr-xr-x 1 root root 129536 Jan 17 2019 dash -rwxr-xr-x 1 root root 97136 Feb 28 2019 date -rwxr-xr-x 1 root root 76736 Feb 28 2019 dd -rwxr-xr-x 1 root root 93752 Feb 28 2019 df -rwxr-xr-x 1 root root 138848 Feb 28 2019 dir -rwxr-xr-x 1 root root 75984 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 31368 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 27256 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68792 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34824 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 174304 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 89656 Jan 5 2019 gzip -rwxr-xr-x 1 root root 18440 Sep 26 2018 hostname -rwxr-xr-x 1 root root 64472 Feb 28 2019 ln -rwxr-xr-x 1 root root 52544 Jul 26 2018 login -rwxr-xr-x 1 root root 138848 Feb 28 2019 ls -rwxr-xr-x 1 root root 108552 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 76840 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 64480 Feb 28 2019 mknod -rwxr-xr-x 1 root root 39736 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 38840 Jan 9 2019 more -rwsr-xr-x 1 root root 47112 Jan 9 2019 mount -rwxr-xr-x 1 root root 14344 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138736 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35560 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 43712 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68440 Feb 28 2019 rm -rwxr-xr-x 1 root root 39624 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 19144 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 28 02:48 sh -> dash -rwxr-xr-x 1 root root 31384 Feb 28 2019 sleep -rwxr-xr-x 1 root root 72480 Feb 28 2019 stty -rwsr-xr-x 1 root root 59424 Jan 9 2019 su -rwxr-xr-x 1 root root 31416 Feb 28 2019 sync -rwxr-xr-x 1 root root 449416 Apr 23 2019 tar -rwxr-xr-x 1 root root 10560 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 88968 Feb 28 2019 touch -rwxr-xr-x 1 root root 27256 Feb 28 2019 true -rwxr-xr-x 1 root root 14264 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 30728 Jan 9 2019 umount -rwxr-xr-x 1 root root 31384 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138848 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34824 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/32190/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: arm64 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 (>= 10), dh-python, python3-all, python3-setuptools, python3-gffutils, python3-mock, python3-pandas, python3-pybedtools, python3-pysam, python3-pyvcf, python3-toolz, python3-tornado, python3-yaml, python3-biopython, python3-cyvcf2, python3-logbook, python3-requests, python3-sphinx dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19168 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 (>= 10); however: Package debhelper 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-gffutils; however: Package python3-gffutils is not installed. pbuilder-satisfydepends-dummy depends on python3-mock; however: Package python3-mock is not installed. pbuilder-satisfydepends-dummy depends on python3-pandas; however: Package python3-pandas is not installed. pbuilder-satisfydepends-dummy depends on python3-pybedtools; however: Package python3-pybedtools is not installed. pbuilder-satisfydepends-dummy depends on python3-pysam; however: Package python3-pysam is not installed. pbuilder-satisfydepends-dummy depends on python3-pyvcf; however: Package python3-pyvcf is not installed. pbuilder-satisfydepends-dummy depends on python3-toolz; however: Package python3-toolz is not installed. pbuilder-satisfydepends-dummy depends on python3-tornado; however: Package python3-tornado is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml is not installed. pbuilder-satisfydepends-dummy depends on python3-biopython; however: Package python3-biopython is not installed. pbuilder-satisfydepends-dummy depends on python3-cyvcf2; however: Package python3-cyvcf2 is not installed. pbuilder-satisfydepends-dummy depends on python3-logbook; however: Package python3-logbook is not installed. pbuilder-satisfydepends-dummy depends on python3-requests; however: Package python3-requests is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx 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} bsdmainutils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbsd0{a} libcroco3{a} libcurl3-gnutls{a} libdeflate0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfreetype6{a} libgfortran5{a} libglib2.0-0{a} libgssapi-krb5-2{a} libhts2{a} libicu63{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-2.4-2{a} libldap-common{a} libmagic-mgc{a} libmagic1{a} libmpdec2{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpng16-16{a} libpsl5{a} libpython3-stdlib{a} libpython3.7-minimal{a} libpython3.7-stdlib{a} libreadline7{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libssl1.1{a} libtiff5{a} libtool{a} libuchardet0{a} libwebp6{a} libwebpdemux2{a} libwebpmux3{a} libxml2{a} libyaml-0-2{a} m4{a} man-db{a} mime-support{a} openssl{a} po-debconf{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-argcomplete{a} python3-argh{a} python3-babel{a} python3-biopython{a} python3-certifi{a} python3-chardet{a} python3-cyvcf2{a} python3-dateutil{a} python3-distutils{a} python3-docutils{a} python3-gffutils{a} python3-idna{a} python3-imagesize{a} python3-jinja2{a} python3-lib2to3{a} python3-logbook{a} python3-markupsafe{a} python3-minimal{a} python3-mock{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pbr{a} python3-pil{a} python3-pkg-resources{a} python3-pybedtools{a} python3-pyfaidx{a} python3-pygments{a} python3-pyparsing{a} python3-pysam{a} python3-pyvcf{a} python3-reportlab{a} python3-reportlab-accel{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-simplejson{a} python3-six{a} python3-sphinx{a} python3-toolz{a} python3-tornado{a} python3-tz{a} python3-urllib3{a} python3-yaml{a} python3.7{a} python3.7-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx ncbi-blast+ publicsuffix python-biopython-doc python3-bs4 python3-html5lib python3-lxml python3-matplotlib python3-numexpr python3-olefile python3-renderpm python3-scipy python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 133 newly installed, 0 to remove and 0 not upgraded. Need to get 64.4 MB of archives. After unpacking 253 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main arm64 libbsd0 arm64 0.9.1-2 [97.4 kB] Get: 2 http://deb.debian.org/debian buster/main arm64 bsdmainutils arm64 11.1.2+b1 [185 kB] Get: 3 http://deb.debian.org/debian buster/main arm64 libuchardet0 arm64 0.0.6-3 [65.0 kB] Get: 4 http://deb.debian.org/debian buster/main arm64 groff-base arm64 1.22.4-3 [869 kB] Get: 5 http://deb.debian.org/debian buster/main arm64 libpipeline1 arm64 1.5.1-2 [29.8 kB] Get: 6 http://deb.debian.org/debian buster/main arm64 man-db arm64 2.8.5-2 [1258 kB] Get: 7 http://deb.debian.org/debian buster/main arm64 libssl1.1 arm64 1.1.1d-0+deb10u3 [1382 kB] Get: 8 http://deb.debian.org/debian buster/main arm64 libpython3.7-minimal arm64 3.7.3-2+deb10u1 [588 kB] Get: 9 http://deb.debian.org/debian buster/main arm64 libexpat1 arm64 2.2.6-2+deb10u1 [85.4 kB] Get: 10 http://deb.debian.org/debian buster/main arm64 python3.7-minimal arm64 3.7.3-2+deb10u1 [1404 kB] Get: 11 http://deb.debian.org/debian buster/main arm64 python3-minimal arm64 3.7.3-1 [36.6 kB] Get: 12 http://deb.debian.org/debian buster/main arm64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main arm64 libmpdec2 arm64 2.4.2-2 [77.7 kB] Get: 14 http://deb.debian.org/debian buster/main arm64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main arm64 libreadline7 arm64 7.0-5 [134 kB] Get: 16 http://deb.debian.org/debian buster/main arm64 libpython3.7-stdlib arm64 3.7.3-2+deb10u1 [1640 kB] Get: 17 http://deb.debian.org/debian buster/main arm64 python3.7 arm64 3.7.3-2+deb10u1 [330 kB] Get: 18 http://deb.debian.org/debian buster/main arm64 libpython3-stdlib arm64 3.7.3-1 [20.0 kB] Get: 19 http://deb.debian.org/debian buster/main arm64 python3 arm64 3.7.3-1 [61.5 kB] Get: 20 http://deb.debian.org/debian buster/main arm64 sgml-base all 1.29 [14.8 kB] Get: 21 http://deb.debian.org/debian buster/main arm64 sensible-utils all 0.0.12 [15.8 kB] Get: 22 http://deb.debian.org/debian buster/main arm64 libmagic-mgc arm64 1:5.35-4+deb10u1 [242 kB] Get: 23 http://deb.debian.org/debian buster/main arm64 libmagic1 arm64 1:5.35-4+deb10u1 [115 kB] Get: 24 http://deb.debian.org/debian buster/main arm64 file arm64 1:5.35-4+deb10u1 [66.4 kB] Get: 25 http://deb.debian.org/debian buster/main arm64 gettext-base arm64 0.19.8.1-9 [120 kB] Get: 26 http://deb.debian.org/debian buster/main arm64 libsigsegv2 arm64 2.12-2 [32.3 kB] Get: 27 http://deb.debian.org/debian buster/main arm64 m4 arm64 1.4.18-2 [198 kB] Get: 28 http://deb.debian.org/debian buster/main arm64 autoconf all 2.69-11 [341 kB] Get: 29 http://deb.debian.org/debian buster/main arm64 autotools-dev all 20180224.1 [77.0 kB] Get: 30 http://deb.debian.org/debian buster/main arm64 automake all 1:1.16.1-4 [771 kB] Get: 31 http://deb.debian.org/debian buster/main arm64 autopoint all 0.19.8.1-9 [434 kB] Get: 32 http://deb.debian.org/debian buster/main arm64 openssl arm64 1.1.1d-0+deb10u3 [823 kB] Get: 33 http://deb.debian.org/debian buster/main arm64 ca-certificates all 20190110 [157 kB] Get: 34 http://deb.debian.org/debian buster/main arm64 libtool all 2.4.6-9 [547 kB] Get: 35 http://deb.debian.org/debian buster/main arm64 dh-autoreconf all 19 [16.9 kB] Get: 36 http://deb.debian.org/debian buster/main arm64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 37 http://deb.debian.org/debian buster/main arm64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 38 http://deb.debian.org/debian buster/main arm64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 39 http://deb.debian.org/debian buster/main arm64 libelf1 arm64 0.176-1.1 [160 kB] Get: 40 http://deb.debian.org/debian buster/main arm64 dwz arm64 0.12-3 [71.7 kB] Get: 41 http://deb.debian.org/debian buster/main arm64 libglib2.0-0 arm64 2.58.3-2+deb10u2 [1185 kB] Get: 42 http://deb.debian.org/debian buster/main arm64 libicu63 arm64 63.1-6+deb10u1 [8151 kB] Get: 43 http://deb.debian.org/debian buster/main arm64 libxml2 arm64 2.9.4+dfsg1-7+b3 [623 kB] Get: 44 http://deb.debian.org/debian buster/main arm64 libcroco3 arm64 0.6.12-3 [140 kB] Get: 45 http://deb.debian.org/debian buster/main arm64 libncurses6 arm64 6.1+20181013-2+deb10u2 [92.6 kB] Get: 46 http://deb.debian.org/debian buster/main arm64 gettext arm64 0.19.8.1-9 [1261 kB] Get: 47 http://deb.debian.org/debian buster/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 48 http://deb.debian.org/debian buster/main arm64 po-debconf all 1.0.21 [248 kB] Get: 49 http://deb.debian.org/debian buster/main arm64 debhelper all 12.1.1 [1016 kB] Get: 50 http://deb.debian.org/debian buster/main arm64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get: 51 http://deb.debian.org/debian buster/main arm64 python3-distutils all 3.7.3-1 [142 kB] Get: 52 http://deb.debian.org/debian buster/main arm64 dh-python all 3.20190308 [99.3 kB] Get: 53 http://deb.debian.org/debian buster/main arm64 xml-core all 0.18+nmu1 [23.8 kB] Get: 54 http://deb.debian.org/debian buster/main arm64 docutils-common all 0.14+dfsg-4 [167 kB] Get: 55 http://deb.debian.org/debian buster/main arm64 libgfortran5 arm64 8.3.0-6 [298 kB] Get: 56 http://deb.debian.org/debian buster/main arm64 libblas3 arm64 3.8.0-2 [100 kB] Get: 57 http://deb.debian.org/debian buster/main arm64 libkeyutils1 arm64 1.6-6 [14.9 kB] Get: 58 http://deb.debian.org/debian buster/main arm64 libkrb5support0 arm64 1.17-3 [64.7 kB] Get: 59 http://deb.debian.org/debian buster/main arm64 libk5crypto3 arm64 1.17-3 [122 kB] Get: 60 http://deb.debian.org/debian buster/main arm64 libkrb5-3 arm64 1.17-3 [353 kB] Get: 61 http://deb.debian.org/debian buster/main arm64 libgssapi-krb5-2 arm64 1.17-3 [150 kB] Get: 62 http://deb.debian.org/debian buster/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-1+deb10u1 [69.3 kB] Get: 63 http://deb.debian.org/debian buster/main arm64 libsasl2-2 arm64 2.1.27+dfsg-1+deb10u1 [105 kB] Get: 64 http://deb.debian.org/debian buster/main arm64 libldap-common all 2.4.47+dfsg-3+deb10u2 [89.7 kB] Get: 65 http://deb.debian.org/debian buster/main arm64 libldap-2.4-2 arm64 2.4.47+dfsg-3+deb10u2 [216 kB] Get: 66 http://deb.debian.org/debian buster/main arm64 libnghttp2-14 arm64 1.36.0-2+deb10u1 [81.9 kB] Get: 67 http://deb.debian.org/debian buster/main arm64 libpsl5 arm64 0.20.2-2 [53.6 kB] Get: 68 http://deb.debian.org/debian buster/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2 [55.7 kB] Get: 69 http://deb.debian.org/debian buster/main arm64 libssh2-1 arm64 1.8.0-2.1 [135 kB] Get: 70 http://deb.debian.org/debian buster/main arm64 libcurl3-gnutls arm64 7.64.0-4+deb10u1 [310 kB] Get: 71 http://deb.debian.org/debian buster/main arm64 libdeflate0 arm64 1.2-1 [51.4 kB] Get: 72 http://deb.debian.org/debian buster/main arm64 libpng16-16 arm64 1.6.36-6 [287 kB] Get: 73 http://deb.debian.org/debian buster/main arm64 libfreetype6 arm64 2.9.1-3+deb10u1 [355 kB] Get: 74 http://deb.debian.org/debian buster/main arm64 libhts2 arm64 1.9-11 [277 kB] Get: 75 http://deb.debian.org/debian buster/main arm64 libimagequant0 arm64 2.12.2-1.1 [30.3 kB] Get: 76 http://deb.debian.org/debian buster/main arm64 libjbig0 arm64 2.1-3.1+b2 [27.8 kB] Get: 77 http://deb.debian.org/debian buster/main arm64 libjpeg62-turbo arm64 1:1.5.2-2+b1 [115 kB] Get: 78 http://deb.debian.org/debian buster/main arm64 libjs-jquery all 3.3.1~dfsg-3 [332 kB] Get: 79 http://deb.debian.org/debian buster/main arm64 libjs-underscore all 1.9.1~dfsg-1 [99.4 kB] Get: 80 http://deb.debian.org/debian buster/main arm64 libjs-sphinxdoc all 1.8.4-1 [95.9 kB] Get: 81 http://deb.debian.org/debian buster/main arm64 liblapack3 arm64 3.8.0-2 [1489 kB] Get: 82 http://deb.debian.org/debian buster/main arm64 liblcms2-2 arm64 2.9-3 [137 kB] Get: 83 http://deb.debian.org/debian buster/main arm64 libwebp6 arm64 0.6.1-2 [233 kB] Get: 84 http://deb.debian.org/debian buster/main arm64 libtiff5 arm64 4.1.0+git191117-2~deb10u1 [259 kB] Get: 85 http://deb.debian.org/debian buster/main arm64 libwebpdemux2 arm64 0.6.1-2 [86.8 kB] Get: 86 http://deb.debian.org/debian buster/main arm64 libwebpmux3 arm64 0.6.1-2 [95.4 kB] Get: 87 http://deb.debian.org/debian buster/main arm64 libyaml-0-2 arm64 0.2.1-1 [41.4 kB] Get: 88 http://deb.debian.org/debian buster/main arm64 python-babel-localedata all 2.6.0+dfsg.1-1 [4083 kB] Get: 89 http://deb.debian.org/debian buster/main arm64 python3-alabaster all 0.7.8-1 [18.4 kB] Get: 90 http://deb.debian.org/debian buster/main arm64 python3-all arm64 3.7.3-1 [1068 B] Get: 91 http://deb.debian.org/debian buster/main arm64 python3-argcomplete all 1.8.1-1 [29.2 kB] Get: 92 http://deb.debian.org/debian buster/main arm64 python3-argh all 0.26.2-1 [21.9 kB] Get: 93 http://deb.debian.org/debian buster/main arm64 python3-pkg-resources all 40.8.0-1 [153 kB] Get: 94 http://deb.debian.org/debian buster/main arm64 python3-tz all 2019.1-1 [27.1 kB] Get: 95 http://deb.debian.org/debian buster/main arm64 python3-babel all 2.6.0+dfsg.1-1 [96.7 kB] Get: 96 http://deb.debian.org/debian buster/main arm64 python3-numpy arm64 1:1.16.2-1 [1991 kB] Get: 97 http://deb.debian.org/debian buster/main arm64 python3-reportlab-accel arm64 3.5.13-1+deb10u1 [34.8 kB] Get: 98 http://deb.debian.org/debian buster/main arm64 python3-pil arm64 5.4.1-2+deb10u1 [381 kB] Get: 99 http://deb.debian.org/debian buster/main arm64 python3-reportlab all 3.5.13-1+deb10u1 [541 kB] Get: 100 http://deb.debian.org/debian buster/main arm64 python3-biopython arm64 1.73+dfsg-1 [1276 kB] Get: 101 http://deb.debian.org/debian buster/main arm64 python3-certifi all 2018.8.24-1 [140 kB] Get: 102 http://deb.debian.org/debian buster/main arm64 python3-chardet all 3.0.4-3 [80.5 kB] Get: 103 http://deb.debian.org/debian buster/main arm64 python3-cyvcf2 arm64 0.10.4-1 [753 kB] Get: 104 http://deb.debian.org/debian buster/main arm64 python3-six all 1.12.0-1 [15.7 kB] Get: 105 http://deb.debian.org/debian buster/main arm64 python3-dateutil all 2.7.3-3 [64.5 kB] Get: 106 http://deb.debian.org/debian buster/main arm64 python3-roman all 2.0.0-3 [8768 B] Get: 107 http://deb.debian.org/debian buster/main arm64 python3-docutils all 0.14+dfsg-4 [378 kB] Get: 108 http://deb.debian.org/debian buster/main arm64 python3-pyfaidx all 0.5.5.2-1 [25.3 kB] Get: 109 http://deb.debian.org/debian buster/main arm64 python3-simplejson arm64 3.16.0-1 [59.4 kB] Get: 110 http://deb.debian.org/debian buster/main arm64 python3-gffutils all 0.9-1 [1016 kB] Get: 111 http://deb.debian.org/debian buster/main arm64 python3-idna all 2.6-1 [34.3 kB] Get: 112 http://deb.debian.org/debian buster/main arm64 python3-imagesize all 1.0.0-1 [4960 B] Get: 113 http://deb.debian.org/debian buster/main arm64 python3-markupsafe arm64 1.1.0-1 [14.8 kB] Get: 114 http://deb.debian.org/debian buster/main arm64 python3-jinja2 all 2.10-2 [106 kB] Get: 115 http://deb.debian.org/debian buster/main arm64 python3-logbook arm64 1.4.3-1 [94.6 kB] Get: 116 http://deb.debian.org/debian buster/main arm64 python3-setuptools all 40.8.0-1 [306 kB] Get: 117 http://deb.debian.org/debian buster/main arm64 python3-pbr all 4.2.0-5 [56.5 kB] Get: 118 http://deb.debian.org/debian buster/main arm64 python3-mock all 2.0.0-4 [60.3 kB] Get: 119 http://deb.debian.org/debian buster/main arm64 python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB] Get: 120 http://deb.debian.org/debian buster/main arm64 python3-packaging all 19.0-1 [20.5 kB] Get: 121 http://deb.debian.org/debian buster/main arm64 python3-pandas-lib arm64 0.23.3+dfsg-3 [2677 kB] Get: 122 http://deb.debian.org/debian buster/main arm64 python3-pandas all 0.23.3+dfsg-3 [1750 kB] Get: 123 http://deb.debian.org/debian buster/main arm64 python3-pysam arm64 0.15.2+ds-2 [1423 kB] Get: 124 http://deb.debian.org/debian buster/main arm64 python3-pybedtools arm64 0.8.0-1 [12.1 MB] Get: 125 http://deb.debian.org/debian buster/main arm64 python3-pygments all 2.3.1+dfsg-1 [594 kB] Get: 126 http://deb.debian.org/debian buster/main arm64 python3-pyvcf arm64 0.6.8+git20170215.476169c-1 [48.4 kB] Get: 127 http://deb.debian.org/debian buster/main arm64 python3-urllib3 all 1.24.1-1 [97.1 kB] Get: 128 http://deb.debian.org/debian buster/main arm64 python3-requests all 2.21.0-1 [66.9 kB] Get: 129 http://deb.debian.org/debian buster/main arm64 sphinx-common all 1.8.4-1 [500 kB] Get: 130 http://deb.debian.org/debian buster/main arm64 python3-sphinx all 1.8.4-1 [481 kB] Get: 131 http://deb.debian.org/debian buster/main arm64 python3-toolz all 0.9.0-1 [41.9 kB] Get: 132 http://deb.debian.org/debian buster/main arm64 python3-tornado arm64 5.1.1-4 [354 kB] Get: 133 http://deb.debian.org/debian buster/main arm64 python3-yaml arm64 3.13-2 [105 kB] Fetched 64.4 MB in 4s (16.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:arm64. (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 ... 19168 files and directories currently installed.) Preparing to unpack .../0-libbsd0_0.9.1-2_arm64.deb ... Unpacking libbsd0:arm64 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../1-bsdmainutils_11.1.2+b1_arm64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../2-libuchardet0_0.0.6-3_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../3-groff-base_1.22.4-3_arm64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../4-libpipeline1_1.5.1-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../5-man-db_2.8.5-2_arm64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libssl1.1:arm64. Preparing to unpack .../6-libssl1.1_1.1.1d-0+deb10u3_arm64.deb ... Unpacking libssl1.1:arm64 (1.1.1d-0+deb10u3) ... Selecting previously unselected package libpython3.7-minimal:arm64. Preparing to unpack .../7-libpython3.7-minimal_3.7.3-2+deb10u1_arm64.deb ... Unpacking libpython3.7-minimal:arm64 (3.7.3-2+deb10u1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../8-libexpat1_2.2.6-2+deb10u1_arm64.deb ... Unpacking libexpat1:arm64 (2.2.6-2+deb10u1) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../9-python3.7-minimal_3.7.3-2+deb10u1_arm64.deb ... Unpacking python3.7-minimal (3.7.3-2+deb10u1) ... Setting up libssl1.1:arm64 (1.1.1d-0+deb10u3) ... Setting up libpython3.7-minimal:arm64 (3.7.3-2+deb10u1) ... Setting up libexpat1:arm64 (2.2.6-2+deb10u1) ... Setting up python3.7-minimal (3.7.3-2+deb10u1) ... 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 ... 20063 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.7.3-1_arm64.deb ... Unpacking python3-minimal (3.7.3-1) ... Selecting previously unselected package mime-support. Preparing to unpack .../1-mime-support_3.62_all.deb ... Unpacking mime-support (3.62) ... Selecting previously unselected package libmpdec2:arm64. Preparing to unpack .../2-libmpdec2_2.4.2-2_arm64.deb ... Unpacking libmpdec2:arm64 (2.4.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package libreadline7:arm64. Preparing to unpack .../4-libreadline7_7.0-5_arm64.deb ... Unpacking libreadline7:arm64 (7.0-5) ... Selecting previously unselected package libpython3.7-stdlib:arm64. Preparing to unpack .../5-libpython3.7-stdlib_3.7.3-2+deb10u1_arm64.deb ... Unpacking libpython3.7-stdlib:arm64 (3.7.3-2+deb10u1) ... Selecting previously unselected package python3.7. Preparing to unpack .../6-python3.7_3.7.3-2+deb10u1_arm64.deb ... Unpacking python3.7 (3.7.3-2+deb10u1) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../7-libpython3-stdlib_3.7.3-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.7.3-1) ... Setting up python3-minimal (3.7.3-1) ... 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 ... 20524 files and directories currently installed.) Preparing to unpack .../000-python3_3.7.3-1_arm64.deb ... Unpacking python3 (3.7.3-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.29_all.deb ... Unpacking sgml-base (1.29) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../002-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../003-libmagic-mgc_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../004-libmagic1_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking libmagic1:arm64 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../005-file_1%3a5.35-4+deb10u1_arm64.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../006-gettext-base_0.19.8.1-9_arm64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../007-libsigsegv2_2.12-2_arm64.deb ... Unpacking libsigsegv2:arm64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../008-m4_1.4.18-2_arm64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. 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Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../016-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../017-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../018-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../019-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../020-libelf1_0.176-1.1_arm64.deb ... Unpacking libelf1:arm64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../021-dwz_0.12-3_arm64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:arm64. Preparing to unpack .../022-libglib2.0-0_2.58.3-2+deb10u2_arm64.deb ... Unpacking libglib2.0-0:arm64 (2.58.3-2+deb10u2) ... Selecting previously unselected package libicu63:arm64. Preparing to unpack .../023-libicu63_63.1-6+deb10u1_arm64.deb ... Unpacking libicu63:arm64 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../024-libxml2_2.9.4+dfsg1-7+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:arm64. Preparing to unpack .../025-libcroco3_0.6.12-3_arm64.deb ... Unpacking libcroco3:arm64 (0.6.12-3) ... Selecting previously unselected package libncurses6:arm64. Preparing to unpack .../026-libncurses6_6.1+20181013-2+deb10u2_arm64.deb ... Unpacking libncurses6:arm64 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package gettext. Preparing to unpack .../027-gettext_0.19.8.1-9_arm64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../028-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 .../029-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../030-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package python3-lib2to3. Preparing to unpack .../031-python3-lib2to3_3.7.3-1_all.deb ... Unpacking python3-lib2to3 (3.7.3-1) ... Selecting previously unselected package python3-distutils. Preparing to unpack .../032-python3-distutils_3.7.3-1_all.deb ... Unpacking python3-distutils (3.7.3-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../033-dh-python_3.20190308_all.deb ... Unpacking dh-python (3.20190308) ... Selecting previously unselected package xml-core. Preparing to unpack .../034-xml-core_0.18+nmu1_all.deb ... Unpacking xml-core (0.18+nmu1) ... Selecting previously unselected package docutils-common. Preparing to unpack .../035-docutils-common_0.14+dfsg-4_all.deb ... Unpacking docutils-common (0.14+dfsg-4) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../036-libgfortran5_8.3.0-6_arm64.deb ... Unpacking libgfortran5:arm64 (8.3.0-6) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../037-libblas3_3.8.0-2_arm64.deb ... Unpacking libblas3:arm64 (3.8.0-2) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../038-libkeyutils1_1.6-6_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6-6) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../039-libkrb5support0_1.17-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.17-3) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../040-libk5crypto3_1.17-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.17-3) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../041-libkrb5-3_1.17-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../042-libgssapi-krb5-2_1.17-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.17-3) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../043-libsasl2-modules-db_2.1.27+dfsg-1+deb10u1_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../044-libsasl2-2_2.1.27+dfsg-1+deb10u1_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.27+dfsg-1+deb10u1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../045-libldap-common_2.4.47+dfsg-3+deb10u2_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libldap-2.4-2:arm64. Preparing to unpack .../046-libldap-2.4-2_2.4.47+dfsg-3+deb10u2_arm64.deb ... Unpacking libldap-2.4-2:arm64 (2.4.47+dfsg-3+deb10u2) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../047-libnghttp2-14_1.36.0-2+deb10u1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.36.0-2+deb10u1) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../048-libpsl5_0.20.2-2_arm64.deb ... Unpacking libpsl5:arm64 (0.20.2-2) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../049-librtmp1_2.4+20151223.gitfa8646d.1-2_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2) ... 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Unpacking python3-pyvcf (0.6.8+git20170215.476169c-1) ... Selecting previously unselected package python3-urllib3. Preparing to unpack .../108-python3-urllib3_1.24.1-1_all.deb ... Unpacking python3-urllib3 (1.24.1-1) ... Selecting previously unselected package python3-requests. Preparing to unpack .../109-python3-requests_2.21.0-1_all.deb ... Unpacking python3-requests (2.21.0-1) ... Selecting previously unselected package sphinx-common. Preparing to unpack .../110-sphinx-common_1.8.4-1_all.deb ... Unpacking sphinx-common (1.8.4-1) ... Selecting previously unselected package python3-sphinx. Preparing to unpack .../111-python3-sphinx_1.8.4-1_all.deb ... Unpacking python3-sphinx (1.8.4-1) ... Selecting previously unselected package python3-toolz. Preparing to unpack .../112-python3-toolz_0.9.0-1_all.deb ... Unpacking python3-toolz (0.9.0-1) ... Selecting previously unselected package python3-tornado. Preparing to unpack .../113-python3-tornado_5.1.1-4_arm64.deb ... Unpacking python3-tornado (5.1.1-4) ... Selecting previously unselected package python3-yaml. Preparing to unpack .../114-python3-yaml_3.13-2_arm64.deb ... Unpacking python3-yaml (3.13-2) ... Setting up libpipeline1:arm64 (1.5.1-2) ... Setting up liblcms2-2:arm64 (2.9-3) ... Setting up libkeyutils1:arm64 (1.6-6) ... Setting up libpsl5:arm64 (0.20.2-2) ... Setting up mime-support (3.62) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libyaml-0-2:arm64 (0.2.1-1) ... Setting up libglib2.0-0:arm64 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libnghttp2-14:arm64 (1.36.0-2+deb10u1) ... Setting up libmagic1:arm64 (1:5.35-4+deb10u1) ... Setting up libdeflate0:arm64 (1.2-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u2) ... Setting up libjbig0:arm64 (2.1-3.1+b2) ... Setting up libicu63:arm64 (63.1-6+deb10u1) ... Setting up python-babel-localedata (2.6.0+dfsg.1-1) ... Setting up libkrb5support0:arm64 (1.17-3) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-1+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libjpeg62-turbo:arm64 (1:1.5.2-2+b1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:arm64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:arm64 (2.12-2) ... Setting up libimagequant0:arm64 (2.12.2-1.1) ... Setting up libpng16-16:arm64 (1.6.36-6) ... Setting up autopoint (0.19.8.1-9) ... Setting up libwebp6:arm64 (0.6.1-2) ... Setting up libk5crypto3:arm64 (1.17-3) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-1+deb10u1) ... Setting up libgfortran5:arm64 (8.3.0-6) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:arm64 (0.0.6-3) ... Setting up libssh2-1:arm64 (1.8.0-2.1) ... Setting up sgml-base (1.29) ... Setting up libkrb5-3:arm64 (1.17-3) ... Setting up libtiff5:arm64 (4.1.0+git191117-2~deb10u1) ... Setting up libmpdec2:arm64 (2.4.2-2) ... Setting up libjs-jquery (3.3.1~dfsg-3) ... Setting up openssl (1.1.1d-0+deb10u3) ... Setting up libwebpmux3:arm64 (0.6.1-2) ... Setting up libbsd0:arm64 (0.9.1-2) ... Setting up libelf1:arm64 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libxml2:arm64 (2.9.4+dfsg1-7+b3) ... Setting up libreadline7:arm64 (7.0-5) ... Setting up libjs-underscore (1.9.1~dfsg-1) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libpython3.7-stdlib:arm64 (3.7.3-2+deb10u1) ... Setting up libtool (2.4.6-9) ... Setting up libwebpdemux2:arm64 (0.6.1-2) ... Setting up libldap-2.4-2:arm64 (2.4.47+dfsg-3+deb10u2) ... Setting up m4 (1.4.18-2) ... Setting up ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 128 added, 0 removed; done. Setting up libblas3:arm64 (3.8.0-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libfreetype6:arm64 (2.9.1-3+deb10u1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:arm64 (1.17-3) ... Setting up libcroco3:arm64 (0.6.12-3) ... Setting up libjs-sphinxdoc (1.8.4-1) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up xml-core (0.18+nmu1) ... Setting up libpython3-stdlib:arm64 (3.7.3-1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3.7 (3.7.3-2+deb10u1) ... Setting up liblapack3:arm64 (3.8.0-2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up libcurl3-gnutls:arm64 (7.64.0-4+deb10u1) ... Setting up python3 (3.7.3-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-markupsafe (1.1.0-1) ... Setting up python3-tz (2019.1-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-six (1.12.0-1) ... Setting up python3-simplejson (3.16.0-1) ... Setting up python3-pil:arm64 (5.4.1-2+deb10u1) ... Setting up python3-roman (2.0.0-3) ... Setting up python3-jinja2 (2.10-2) ... Setting up python3-pygments (2.3.1+dfsg-1) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up sphinx-common (1.8.4-1) ... Setting up python3-reportlab-accel:arm64 (3.5.13-1+deb10u1) ... Setting up python3-idna (2.6-1) ... Setting up python3-urllib3 (1.24.1-1) ... Setting up python3-reportlab (3.5.13-1+deb10u1) ... Setting up python3-toolz (0.9.0-1) ... Setting up python3-dateutil (2.7.3-3) ... Setting up python3-argcomplete (1.8.1-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python3-logbook (1.4.3-1) ... Setting up python3-imagesize (1.0.0-1) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up python3-pyfaidx (0.5.5.2-1) ... Setting up python3-tornado (5.1.1-4) ... Setting up python3-argh (0.26.2-1) ... Setting up python3-setuptools (40.8.0-1) ... Setting up libhts2:arm64 (1.9-11) ... Setting up python3-gffutils (0.9-1) ... Setting up python3-babel (2.6.0+dfsg.1-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-pbr (4.2.0-5) ... update-alternatives: using /usr/bin/python3-pbr to provide /usr/bin/pbr (pbr) in auto mode Setting up python3-alabaster (0.7.8-1) ... Setting up po-debconf (1.0.21) ... Setting up python3-all (3.7.3-1) ... Setting up python3-yaml (3.13-2) ... Setting up python3-mock (2.0.0-4) ... Setting up python3-packaging (19.0-1) ... Setting up python3-chardet (3.0.4-3) ... Setting up python3-pyvcf (0.6.8+git20170215.476169c-1) ... Setting up python3-requests (2.21.0-1) ... Setting up python3-numpy (1:1.16.2-1) ... Setting up python3-biopython (1.73+dfsg-1) ... Setting up python3-pysam (0.15.2+ds-2) ... Setting up python3-pandas-lib (0.23.3+dfsg-3) ... Setting up python3-cyvcf2 (0.10.4-1) ... Setting up python3-pandas (0.23.3+dfsg-3) ... Setting up python3-pybedtools (0.8.0-1) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... Processing triggers for sgml-base (1.29) ... Setting up docutils-common (0.14+dfsg-4) ... Processing triggers for sgml-base (1.29) ... Setting up python3-docutils (0.14+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 (1.8.4-1) ... update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-apidoc to provide /usr/bin/sphinx-apidoc (sphinx-apidoc) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-autogen to provide /usr/bin/sphinx-autogen (sphinx-autogen) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-build to provide /usr/bin/sphinx-build (sphinx-build) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-quickstart to provide /usr/bin/sphinx-quickstart (sphinx-quickstart) in auto mode Processing triggers for ca-certificates (20190110) ... 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... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/bcbio-1.1.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package bcbio dpkg-buildpackage: info: source version 1.1.2-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 dpkg-source: info: using options from bcbio-1.1.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ fakeroot debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/bcbio-1.1.2' dh_auto_clean pybuild --clean -i python{version} -p 3.7 I: pybuild base:217: python3.7 setup.py clean running clean removing '/build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build' (and everything under it) 'build/bdist.linux-arm64' does not exist -- can't clean it 'build/scripts-3.7' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; rm -f bcbio/pipeline/version.py rm -f debian/*.1 make[1]: Leaving directory '/build/bcbio-1.1.2' 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-bcbio.substvars debian/bcbio.substvars debian/bcbio-doc.substvars debian/files rm -fr -- debian/python3-bcbio/ debian/tmp/ debian/bcbio/ debian/bcbio-doc/ 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 build dh build --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild pybuild --configure -i python{version} -p 3.7 I: pybuild base:217: python3.7 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/build/bcbio-1.1.2' dh_auto_build pybuild --build -i python{version} -p 3.7 I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio copying bcbio/utils.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio copying bcbio/setpath.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio copying bcbio/install.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio copying bcbio/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit copying tests/unit/test_alignprep.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit copying tests/unit/data.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit copying tests/unit/conftest.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit copying tests/unit/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration copying tests/integration/test_pipeline.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration copying tests/integration/test_automated_analysis.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration copying tests/integration/test_SequencingDump.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration copying tests/integration/test_S3_pipelines.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration copying tests/integration/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/upload copying tests/unit/upload/test_upload.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/upload copying tests/unit/upload/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/upload creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/rnaseq copying tests/unit/rnaseq/test_ericscript.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/rnaseq copying tests/unit/rnaseq/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/rnaseq creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline copying tests/unit/pipeline/test_rnaseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline copying tests/unit/pipeline/test_datadict.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline copying tests/unit/pipeline/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/ngsalign copying tests/unit/ngsalign/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/ngsalign creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/distributed copying tests/unit/distributed/test_transaction.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/distributed copying tests/unit/distributed/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/distributed creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/rnaseq copying tests/integration/rnaseq/test_ericscript.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/rnaseq copying tests/integration/rnaseq/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/rnaseq creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow copying bcbio/workflow/xprize.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow copying bcbio/workflow/template.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow copying bcbio/workflow/stormseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow copying bcbio/workflow/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/vfilter.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/vcfutils.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/vcfanno.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/varscan.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/vardict.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/validateplot.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/validate.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/strelka2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/split.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/smcounter2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/sentieon.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/scalpel.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/samtools.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/recalibrate.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/realign.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/qsnp.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/prioritize.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/population.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/ploidy.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/platypus.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/pisces.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/peddy.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/octopus.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/normalize.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/naming.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/mutect2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/mutect.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/multi.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/joint.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/germline.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/genotype.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/gatkjoint.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/gatkfilter.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/gatk.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/freebayes.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/ensemble.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/effects.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/deepvariant.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/damage.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/coverage.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/cortex.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/bedutils.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/bamprep.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/annotation.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation copying bcbio/variation/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload copying bcbio/upload/shared.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload copying bcbio/upload/s3.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload copying bcbio/upload/irods.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload copying bcbio/upload/galaxy.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload copying bcbio/upload/filesystem.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload copying bcbio/upload/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/wham.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/validate.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/titancna.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/shared.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/seq2c.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/regions.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/purple.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/purecn.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/prioritize.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/plot.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/pindel.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/metasv.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/manta.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/lumpy.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/hydra.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/gridss.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/gatkcnv.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/delly.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/convert.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/cnvkit.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/cn_mops.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/battenberg.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/annotate.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural copying bcbio/structural/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/umis.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/sample.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/qc.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/mirge.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/mirdeep.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/group.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna copying bcbio/srna/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server copying bcbio/server/run.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server copying bcbio/server/main.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server copying bcbio/server/background.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server copying bcbio/server/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/variation.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/umi.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/stringtie.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/spikein.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/salmon.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/sailfish.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/rsem.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/rapmap.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/qc.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/pizzly.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/oncofuse.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/kallisto.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/gtf.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/featureCounts.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/express.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/ericscript.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/dexseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/cufflinks.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/cpat.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/count.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/bcbiornaseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/annotate_gtf.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/contamination.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/viral.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/variant.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/umi.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/srna.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/samtools.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/qualimap.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/qsignature.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/preseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/picard.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/multiqc.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/kraken.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/fastqc.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/damage.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/coverage.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/chipseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/atropos.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc copying bcbio/qc/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/versioncheck.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/system.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/programs.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/profile.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/do.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/diagnostics.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/data.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance copying bcbio/provenance/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/version.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/variation.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/tools.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/sra.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/shared.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/sample.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/run_info.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/rnaseq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/region.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/qcsummary.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/merge.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/main.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/genome.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/fastq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/datadict.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/config_utils.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/cleanbam.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/archive.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/alignment.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline copying bcbio/pipeline/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard copying bcbio/picard/utils.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard copying bcbio/picard/metrics.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard copying bcbio/picard/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/tophat.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/star.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/snap.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/rtg.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/postalign.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/novoalign.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/mosaik.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/minimap2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/hisat2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bwa.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bowtie2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bowtie.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bbmap.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/alignprep.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/log copying bcbio/log/logbook_zmqpush.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/log copying bcbio/log/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/log creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina copying bcbio/illumina/transfer.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina copying bcbio/illumina/samplesheet.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina copying bcbio/illumina/machine.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina copying bcbio/illumina/flowcell.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina copying bcbio/illumina/demultiplex.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina copying bcbio/illumina/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hmmer copying bcbio/hmmer/search.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hmmer copying bcbio/hmmer/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hmmer creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla copying bcbio/hla/optitype.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla copying bcbio/hla/groups.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla copying bcbio/hla/bwakit.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla copying bcbio/hla/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/theta.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/phylowgs.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/loh.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/chromhacks.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/bubbletree.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph copying bcbio/graph/graph.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph copying bcbio/graph/collectl.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph copying bcbio/graph/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy copying bcbio/galaxy/nglims.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy copying bcbio/galaxy/loc.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy copying bcbio/galaxy/api.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy copying bcbio/galaxy/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/transaction.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/split.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/runfn.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/resources.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/prun.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/objectstore.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/multitasks.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/multi.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/ipythontasks.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/ipython.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/clusterk.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/clargs.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed copying bcbio/distributed/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/workflow.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/tool.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/main.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/inspect.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/hpc.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/defs.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/cwlutils.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/create.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl copying bcbio/cwl/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq copying bcbio/chipseq/peaks.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq copying bcbio/chipseq/macs2.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq copying bcbio/chipseq/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad copying bcbio/broad/picardrun.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad copying bcbio/broad/metrics.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad copying bcbio/broad/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bed copying bcbio/bed/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bed creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/trim.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/skewer.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/ref.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/readstats.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/fastq.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/fasta.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/cram.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/coverage.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/counts.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/callable.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam copying bcbio/bam/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/run.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/__init__.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate running egg_info creating bcbio_nextgen.egg-info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data creating /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/10x_v2-cb1.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/10x_v2-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/dropseq-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-cb1.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/icell8-cb1.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/icell8-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiagen_smallRNA_umi-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb1.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb2.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb3.txt.gz -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-transform.json -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis running build_scripts creating build creating build/scripts-3.7 copying and adjusting scripts/bcbio_nextgen.py -> build/scripts-3.7 copying and adjusting scripts/bcbio_setup_genome.py -> build/scripts-3.7 copying and adjusting scripts/bcbio_prepare_samples.py -> build/scripts-3.7 copying and adjusting scripts/bcbio_fastq_umi_prep.py -> build/scripts-3.7 copying and adjusting scripts/cwltool2wdl.py -> build/scripts-3.7 changing mode of build/scripts-3.7/bcbio_nextgen.py from 644 to 755 changing mode of build/scripts-3.7/bcbio_setup_genome.py from 644 to 755 changing mode of build/scripts-3.7/bcbio_prepare_samples.py from 644 to 755 changing mode of build/scripts-3.7/bcbio_fastq_umi_prep.py from 644 to 755 changing mode of build/scripts-3.7/cwltool2wdl.py from 644 to 755 PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -bhtml docs build/html # HTML generator Running Sphinx v1.8.4 making output directory... building [mo]: targets for 0 po files that are out of date building [html]: targets for 16 source files that are out of date updating environment: 16 added, 0 changed, 0 removed reading sources... [ 6%] contents/citations reading sources... [ 12%] contents/cloud reading sources... [ 18%] contents/code reading sources... [ 25%] contents/configuration reading sources... [ 31%] contents/cwl reading sources... [ 37%] contents/installation reading sources... [ 43%] contents/internals reading sources... [ 50%] contents/introduction reading sources... [ 56%] contents/outputs reading sources... [ 62%] contents/parallel reading sources... [ 68%] contents/pipelines reading sources... [ 75%] contents/presentations reading sources... [ 81%] contents/sequencer reading sources... [ 87%] contents/teaching reading sources... [ 93%] contents/testing reading sources... [100%] index /build/bcbio-1.1.2/docs/contents/cloud.rst:4: WARNING: Duplicate explicit target name: "google pipelines api". /build/bcbio-1.1.2/docs/contents/cloud.rst:363: WARNING: Inline literal start-string without end-string. /build/bcbio-1.1.2/docs/contents/cloud.rst:363: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/bcbio-1.1.2/docs/contents/cloud.rst:363: WARNING: Unexpected indentation. /build/bcbio-1.1.2/docs/contents/cloud.rst:365: WARNING: Definition list ends without a blank line; unexpected unindent. /build/bcbio-1.1.2/docs/contents/cloud.rst:365: WARNING: Inline literal start-string without end-string. /build/bcbio-1.1.2/docs/contents/cloud.rst:365: WARNING: Inline interpreted text or phrase reference start-string without end-string. /build/bcbio-1.1.2/docs/contents/cloud.rst:123: WARNING: duplicate label data preparation, other instance in /build/bcbio-1.1.2/docs/contents/cloud.rst /build/bcbio-1.1.2/docs/contents/code.rst:319: WARNING: duplicate label data, other instance in /build/bcbio-1.1.2/docs/contents/citations.rst /build/bcbio-1.1.2/docs/contents/configuration.rst:617: WARNING: Bullet list ends without a blank line; unexpected unindent. /build/bcbio-1.1.2/docs/contents/configuration.rst:475: WARNING: Unknown target name: " atropos". /build/bcbio-1.1.2/docs/contents/configuration.rst:709: WARNING: Unknown target name: "dbscsnv". /build/bcbio-1.1.2/docs/contents/cwl.rst:4: WARNING: Duplicate explicit target name: "local installation of bcbio". /build/bcbio-1.1.2/docs/contents/cwl.rst:234: WARNING: Title underline too short. Running with Cromwell (local, HPC, cloud) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/bcbio-1.1.2/docs/contents/cwl.rst:234: WARNING: Title underline too short. Running with Cromwell (local, HPC, cloud) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/bcbio-1.1.2/docs/contents/cwl.rst:4: WARNING: Duplicate explicit target name: "cromwell". /build/bcbio-1.1.2/docs/contents/cwl.rst:4: WARNING: Duplicate explicit target name: "bcbio-vm". /build/bcbio-1.1.2/docs/contents/cwl.rst:4: WARNING: Duplicate explicit target name: "bcbio_resources". /build/bcbio-1.1.2/docs/contents/cwl.rst:4: WARNING: Duplicate explicit target name: "bcbio-vm". /build/bcbio-1.1.2/docs/contents/installation.rst:286: WARNING: Title underline too short. GATK or Java Errors ~~~~~~~~~~~~~~~~~~ /build/bcbio-1.1.2/docs/contents/installation.rst:286: WARNING: Title underline too short. GATK or Java Errors ~~~~~~~~~~~~~~~~~~ /build/bcbio-1.1.2/docs/contents/installation.rst:338: WARNING: Unknown target name: "packages-conda.yaml". /build/bcbio-1.1.2/docs/contents/installation.rst:2: WARNING: duplicate label installation, other instance in /build/bcbio-1.1.2/docs/contents/cwl.rst /build/bcbio-1.1.2/docs/contents/installation.rst:201: WARNING: duplicate label extra software, other instance in /build/bcbio-1.1.2/docs/contents/cloud.rst /build/bcbio-1.1.2/docs/contents/internals.rst:5: WARNING: duplicate label overview, other instance in /build/bcbio-1.1.2/docs/contents/code.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:43: WARNING: duplicate label variant calling, other instance in /build/bcbio-1.1.2/docs/contents/configuration.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:46: WARNING: duplicate label project directory, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:60: WARNING: duplicate label sample directories, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:67: WARNING: duplicate label project directory, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:85: WARNING: duplicate label sample directories, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:92: WARNING: duplicate label small rna-seq, other instance in /build/bcbio-1.1.2/docs/contents/citations.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:95: WARNING: duplicate label project directory, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:118: WARNING: duplicate label sample directories, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/parallel.rst:187: WARNING: duplicate label troubleshooting, other instance in /build/bcbio-1.1.2/docs/contents/installation.rst /build/bcbio-1.1.2/docs/contents/pipelines.rst:4: WARNING: Duplicate explicit target name: "this paper". /build/bcbio-1.1.2/docs/contents/pipelines.rst:414: WARNING: Literal block expected; none found. /build/bcbio-1.1.2/docs/contents/pipelines.rst:4: WARNING: Duplicate explicit target name: "here". /build/bcbio-1.1.2/docs/contents/pipelines.rst:4: WARNING: duplicate label pipelines, other instance in /build/bcbio-1.1.2/docs/contents/pipelines.rst /build/bcbio-1.1.2/docs/contents/pipelines.rst:262: WARNING: duplicate label structural variant calling, other instance in /build/bcbio-1.1.2/docs/contents/configuration.rst /build/bcbio-1.1.2/docs/contents/pipelines.rst:300: WARNING: duplicate label rna-seq, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/pipelines.rst:344: WARNING: duplicate label fast rna-seq, other instance in /build/bcbio-1.1.2/docs/contents/configuration.rst /build/bcbio-1.1.2/docs/contents/pipelines.rst:482: WARNING: duplicate label configuration, other instance in /build/bcbio-1.1.2/docs/contents/configuration.rst /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "video". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "video". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "video". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "video". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: 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/build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "slides". /build/bcbio-1.1.2/docs/contents/presentations.rst:2: WARNING: Duplicate explicit target name: "conference website". /build/bcbio-1.1.2/docs/contents/sequencer.rst:17: WARNING: duplicate label overview, other instance in 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[ 6%] contents/citations writing output... [ 12%] contents/cloud writing output... [ 18%] contents/code writing output... [ 25%] contents/configuration writing output... [ 31%] contents/cwl writing output... [ 37%] contents/installation writing output... [ 43%] contents/internals writing output... [ 50%] contents/introduction writing output... [ 56%] contents/outputs writing output... [ 62%] contents/parallel writing output... [ 68%] contents/pipelines writing output... [ 75%] contents/presentations writing output... [ 81%] contents/sequencer writing output... [ 87%] contents/teaching writing output... [ 93%] contents/testing writing output... [100%] index generating indices... genindex writing additional pages... search copying images... [ 33%] contents/images/variant-calling-overview.png copying images... [ 66%] contents/images/parallel-clustertypes.png copying images... [100%] contents/images/github.png copying static files... WARNING: html_static_path entry '/build/bcbio-1.1.2/docs/_static' does not exist done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 86 warnings. The HTML pages are in build/html. PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -bman docs build/man # Manpage generator Running Sphinx v1.8.4 making output directory... building [mo]: targets for 0 po files that are out of date building [man]: all manpages updating environment: 16 added, 0 changed, 0 removed reading sources... [ 6%] contents/citations reading sources... [ 12%] contents/cloud reading sources... [ 18%] contents/code reading sources... [ 25%] contents/configuration reading sources... [ 31%] contents/cwl reading sources... [ 37%] contents/installation reading sources... [ 43%] contents/internals reading sources... [ 50%] contents/introduction reading sources... [ 56%] contents/outputs reading sources... 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GATK or Java Errors ~~~~~~~~~~~~~~~~~~ /build/bcbio-1.1.2/docs/contents/installation.rst:338: WARNING: Unknown target name: "packages-conda.yaml". /build/bcbio-1.1.2/docs/contents/installation.rst:2: WARNING: duplicate label installation, other instance in /build/bcbio-1.1.2/docs/contents/cwl.rst /build/bcbio-1.1.2/docs/contents/installation.rst:201: WARNING: duplicate label extra software, other instance in /build/bcbio-1.1.2/docs/contents/cloud.rst /build/bcbio-1.1.2/docs/contents/internals.rst:5: WARNING: duplicate label overview, other instance in /build/bcbio-1.1.2/docs/contents/code.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:43: WARNING: duplicate label variant calling, other instance in /build/bcbio-1.1.2/docs/contents/configuration.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:46: WARNING: duplicate label project directory, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst /build/bcbio-1.1.2/docs/contents/outputs.rst:60: WARNING: duplicate label sample 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/build/bcbio-1.1.2/docs/contents/internals.rst /build/bcbio-1.1.2/docs/contents/teaching.rst:38: WARNING: Inline literal start-string without end-string. /build/bcbio-1.1.2/docs/contents/teaching.rst:92: WARNING: Inline literal start-string without end-string. /build/bcbio-1.1.2/docs/contents/teaching.rst:4: WARNING: duplicate label teaching, other instance in /build/bcbio-1.1.2/docs/contents/teaching.rst /build/bcbio-1.1.2/docs/contents/testing.rst:2: WARNING: duplicate label getting started, other instance in /build/bcbio-1.1.2/docs/contents/cwl.rst /build/bcbio-1.1.2/docs/contents/testing.rst:5: WARNING: duplicate label overview, other instance in /build/bcbio-1.1.2/docs/contents/sequencer.rst /build/bcbio-1.1.2/docs/contents/testing.rst:33: WARNING: duplicate label project directory, other instance in /build/bcbio-1.1.2/docs/contents/outputs.rst looking for now-outdated files... none found pickling environment... done checking consistency... /build/bcbio-1.1.2/docs/contents/sequencer.rst: WARNING: document isn't included in any toctree done writing... bcbio_nextgen.1 { contents/introduction contents/installation contents/pipelines contents/testing contents/configuration contents/parallel contents/cwl contents/cloud contents/outputs contents/code contents/internals contents/presentations contents/teaching contents/citations } build succeeded, 85 warnings. The manual pages are in build/man. make[1]: Leaving directory '/build/bcbio-1.1.2' dh_auto_test -O--buildsystem=pybuild pybuild --test -i python{version} -p 3.7 I: pybuild base:217: cd /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build; python3.7 -m unittest discover -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python3,sphinxdoc --buildsystem=pybuild dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/python3-bcbio.substvars debian/bcbio.substvars debian/bcbio-doc.substvars rm -fr -- debian/.debhelper/generated/python3-bcbio/ debian/python3-bcbio/ debian/tmp/ debian/.debhelper/generated/bcbio/ debian/bcbio/ debian/.debhelper/generated/bcbio-doc/ debian/bcbio-doc/ dh_installdirs -O--buildsystem=pybuild install -d debian/python3-bcbio install -d debian/bcbio install -d debian/bcbio-doc install -d debian/bcbio-doc/usr/share/doc/bcbio-doc rm -f debian/bcbio-doc.debhelper.log debian/bcbio.debhelper.log debian/python3-bcbio.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/build/bcbio-1.1.2' dh_auto_install pybuild --install -i python{version} -p 3.7 --dest-dir /build/bcbio-1.1.2/debian/tmp I: pybuild base:217: /usr/bin/python3 setup.py install --root /build/bcbio-1.1.2/debian/python3-bcbio running install running build running build_py copying bcbio/pipeline/version.py -> /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline running egg_info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' running build_scripts running install_lib creating /build/bcbio-1.1.2/debian/python3-bcbio/usr creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7 creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/rnaseq/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/rnaseq/test_ericscript.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/test_S3_pipelines.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/test_SequencingDump.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/test_automated_analysis.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/integration/test_pipeline.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/distributed/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/distributed/test_transaction.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/distributed creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/ngsalign/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/ngsalign creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline/test_datadict.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/pipeline/test_rnaseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/rnaseq/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/rnaseq/test_ericscript.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/rnaseq creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/upload/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/upload/test_upload.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/conftest.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/data.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/tests/unit/test_alignprep.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/__pycache__/install.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/__pycache__/utils.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/__pycache__/setpath.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/__pycache__ creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/surecell-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/surecell-cb3.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/surecell-cb2.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/surecell-cb1.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/qiagen_smallRNA_umi-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/icell8-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/icell8-cb1.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-scrb-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-scrb-cb1.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v3-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v2-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/dropseq-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/10x_v2-transform.json -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/data/umis/10x_v2-cb1.txt.gz -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/data/umis creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/coverage.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/callable.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/readstats.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/fastq.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/cram.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/ref.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/callable.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/counts.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/coverage.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/cram.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/fasta.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/fastq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/readstats.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/ref.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/skewer.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bam/trim.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bed creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bed/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/bed/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bed creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad/__pycache__/picardrun.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad/metrics.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/broad/picardrun.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq/macs2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/chipseq/peaks.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/__pycache__/workflow.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/__pycache__/defs.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/__pycache__/create.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/__pycache__/cwlutils.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/create.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/cwlutils.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/defs.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/hpc.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/inspect.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/main.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/tool.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/cwl/workflow.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__pycache__/split.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__pycache__/resources.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__pycache__/multi.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__pycache__/objectstore.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__pycache__/transaction.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/clargs.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/clusterk.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/ipython.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/ipythontasks.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/multi.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/multitasks.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/objectstore.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/prun.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/resources.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/runfn.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/split.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/distributed/transaction.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy/api.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy/loc.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/galaxy/nglims.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph/collectl.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/graph/graph.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__pycache__/theta.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__pycache__/phylowgs.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__pycache__/loh.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__pycache__/chromhacks.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__pycache__/bubbletree.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/bubbletree.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/chromhacks.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/loh.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/phylowgs.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/heterogeneity/theta.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/__pycache__/optitype.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/__pycache__/groups.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/__pycache__/bwakit.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/bwakit.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/groups.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hla/optitype.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hmmer/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hmmer/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/hmmer/search.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/__pycache__/flowcell.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/demultiplex.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/flowcell.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/machine.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/samplesheet.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/illumina/transfer.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/log/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/log/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/log/logbook_zmqpush.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/hisat2.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/star.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/snap.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/minimap2.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/tophat.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/bowtie.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/bbmap.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/novoalign.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/bwa.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/postalign.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/rtg.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/alignprep.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/bowtie2.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/alignprep.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/bbmap.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/bowtie.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/bowtie2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/bwa.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/hisat2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/minimap2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/mosaik.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/novoalign.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/postalign.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/rtg.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/snap.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/star.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/ngsalign/tophat.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard/metrics.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/picard/utils.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/version.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/fastq.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/qcsummary.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/run_info.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/merge.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/version.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/genome.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/alignment.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/region.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/shared.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/tools.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/datadict.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/config_utils.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__pycache__ creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate/__pycache__/run.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/disambiguate/run.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/alignment.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/archive.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/cleanbam.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/config_utils.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/datadict.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/fastq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/genome.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/main.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/merge.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/qcsummary.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/region.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/rnaseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/run_info.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/sample.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/shared.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/sra.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/tools.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/pipeline/variation.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/data.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/versioncheck.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/system.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/programs.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/diagnostics.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/do.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/data.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/diagnostics.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/do.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/profile.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/programs.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/system.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/provenance/versioncheck.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/__pycache__/variant.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/__pycache__/viral.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/atropos.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/chipseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/coverage.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/damage.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/fastqc.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/kraken.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/multiqc.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/picard.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/preseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/qsignature.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/qualimap.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/samtools.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/srna.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/umi.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/variant.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/viral.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/qc/contamination.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/__pycache__/ericscript.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/__pycache__/gtf.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/annotate_gtf.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/bcbiornaseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/count.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/cpat.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/cufflinks.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/dexseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/ericscript.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/express.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/featureCounts.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/gtf.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/kallisto.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/oncofuse.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/pizzly.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/qc.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/rapmap.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/rsem.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/sailfish.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/salmon.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/spikein.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/stringtie.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/umi.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/rnaseq/variation.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server/background.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server/main.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/server/run.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/group.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/mirdeep.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/mirge.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/qc.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/sample.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/srna/umis.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/wham.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/convert.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/validate.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/titancna.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/seq2c.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/purple.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/purecn.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/prioritize.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/metasv.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/manta.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/lumpy.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/gridss.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/delly.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/plot.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/annotate.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/cnvkit.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/gatkcnv.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/regions.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/shared.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/cn_mops.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/battenberg.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/annotate.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/battenberg.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/cn_mops.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/cnvkit.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/convert.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/delly.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/gatkcnv.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/gridss.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/hydra.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/lumpy.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/manta.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/metasv.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/pindel.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/plot.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/prioritize.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/purecn.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/purple.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/regions.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/seq2c.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/shared.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/titancna.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/validate.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/structural/wham.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__pycache__/irods.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__pycache__/s3.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__pycache__/galaxy.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__pycache__/filesystem.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__pycache__/shared.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/filesystem.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/galaxy.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/irods.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/s3.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/upload/shared.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/peddy.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/damage.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/cortex.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/validate.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/validateplot.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/normalize.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/naming.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/vcfanno.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/effects.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/population.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/multi.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/germline.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/vfilter.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/gatkfilter.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/annotation.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/gatk.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/genotype.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/ploidy.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/gatkjoint.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/joint.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/realign.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/bamprep.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/sentieon.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/bedutils.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/coverage.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/vcfutils.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/annotation.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/bamprep.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/bedutils.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/cortex.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/coverage.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/damage.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/deepvariant.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/effects.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/ensemble.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/freebayes.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/gatk.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/gatkfilter.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/gatkjoint.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/genotype.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/germline.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/joint.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/multi.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/mutect.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/mutect2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/naming.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/normalize.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/octopus.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/peddy.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/pisces.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/platypus.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/ploidy.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/population.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/prioritize.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/qsnp.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/realign.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/recalibrate.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/samtools.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/scalpel.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/sentieon.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/smcounter2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/split.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/strelka2.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/validate.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/validateplot.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/vardict.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/varscan.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/vcfanno.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/vcfutils.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/variation/vfilter.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/__pycache__/template.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/__pycache__/stormseq.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/__pycache__/xprize.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/__pycache__/__init__.cpython-37.pyc -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/__pycache__ copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/stormseq.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/template.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/workflow/xprize.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/__init__.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/install.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/setpath.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio copying /build/bcbio-1.1.2/.pybuild/cpython3_3.7_bcbio/build/bcbio/utils.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/rnaseq/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/rnaseq/test_ericscript.py to test_ericscript.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/test_S3_pipelines.py to test_S3_pipelines.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/test_SequencingDump.py to test_SequencingDump.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/test_automated_analysis.py to test_automated_analysis.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/integration/test_pipeline.py to test_pipeline.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/distributed/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/distributed/test_transaction.py to test_transaction.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/ngsalign/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline/test_datadict.py to test_datadict.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/pipeline/test_rnaseq.py to test_rnaseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/rnaseq/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/rnaseq/test_ericscript.py to test_ericscript.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/upload/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/upload/test_upload.py to test_upload.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/conftest.py to conftest.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/data.py to data.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/tests/unit/test_alignprep.py to test_alignprep.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/callable.py to callable.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/counts.py to counts.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/coverage.py to coverage.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/cram.py to cram.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/fasta.py to fasta.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/fastq.py to fastq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/readstats.py to readstats.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/ref.py to ref.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/skewer.py to skewer.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bam/trim.py to trim.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/bed/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad/metrics.py to metrics.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/broad/picardrun.py to picardrun.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq/macs2.py to macs2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/chipseq/peaks.py to peaks.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/create.py to create.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/cwlutils.py to cwlutils.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/defs.py to defs.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/hpc.py to hpc.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/inspect.py to inspect.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/main.py to main.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/tool.py to tool.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/cwl/workflow.py to workflow.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/clargs.py to clargs.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/clusterk.py to clusterk.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/ipython.py to ipython.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/ipythontasks.py to ipythontasks.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/multi.py to multi.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/multitasks.py to multitasks.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/objectstore.py to objectstore.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/prun.py to prun.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/resources.py to resources.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/runfn.py to runfn.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/split.py to split.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/distributed/transaction.py to transaction.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy/api.py to api.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy/loc.py to loc.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/galaxy/nglims.py to nglims.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph/collectl.py to collectl.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/graph/graph.py to graph.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/bubbletree.py to bubbletree.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/chromhacks.py to chromhacks.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/loh.py to loh.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/phylowgs.py to phylowgs.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/heterogeneity/theta.py to theta.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/bwakit.py to bwakit.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/groups.py to groups.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hla/optitype.py to optitype.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/hmmer/search.py to search.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/demultiplex.py to demultiplex.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/flowcell.py to flowcell.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/machine.py to machine.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/samplesheet.py to samplesheet.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/illumina/transfer.py to transfer.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/log/logbook_zmqpush.py to logbook_zmqpush.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/alignprep.py to alignprep.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/bbmap.py to bbmap.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/bowtie.py to bowtie.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/bowtie2.py to bowtie2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/bwa.py to bwa.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/hisat2.py to hisat2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/minimap2.py to minimap2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/mosaik.py to mosaik.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/novoalign.py to novoalign.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/postalign.py to postalign.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/rtg.py to rtg.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/snap.py to snap.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/star.py to star.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/ngsalign/tophat.py to tophat.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard/metrics.py to metrics.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/picard/utils.py to utils.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/version.py to version.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/disambiguate/run.py to run.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/alignment.py to alignment.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/archive.py to archive.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/cleanbam.py to cleanbam.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/config_utils.py to config_utils.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/datadict.py to datadict.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/fastq.py to fastq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/genome.py to genome.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/main.py to main.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/merge.py to merge.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/qcsummary.py to qcsummary.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/region.py to region.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/rnaseq.py to rnaseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/run_info.py to run_info.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/sample.py to sample.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/shared.py to shared.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/sra.py to sra.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/tools.py to tools.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/pipeline/variation.py to variation.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/data.py to data.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/diagnostics.py to diagnostics.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/do.py to do.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/profile.py to profile.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/programs.py to programs.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/system.py to system.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/provenance/versioncheck.py to versioncheck.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/atropos.py to atropos.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/chipseq.py to chipseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/coverage.py to coverage.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/damage.py to damage.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/fastqc.py to fastqc.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/kraken.py to kraken.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/multiqc.py to multiqc.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/picard.py to picard.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/preseq.py to preseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/qsignature.py to qsignature.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/qualimap.py to qualimap.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/samtools.py to samtools.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/srna.py to srna.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/umi.py to umi.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/variant.py to variant.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/viral.py to viral.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/qc/contamination.py to contamination.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/annotate_gtf.py to annotate_gtf.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/bcbiornaseq.py to bcbiornaseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/count.py to count.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/cpat.py to cpat.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/cufflinks.py to cufflinks.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/dexseq.py to dexseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/ericscript.py to ericscript.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/express.py to express.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/featureCounts.py to featureCounts.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/gtf.py to gtf.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/kallisto.py to kallisto.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/oncofuse.py to oncofuse.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/pizzly.py to pizzly.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/qc.py to qc.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/rapmap.py to rapmap.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/rsem.py to rsem.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/sailfish.py to sailfish.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/salmon.py to salmon.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/spikein.py to spikein.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/stringtie.py to stringtie.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/umi.py to umi.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/rnaseq/variation.py to variation.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server/background.py to background.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server/main.py to main.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/server/run.py to run.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/group.py to group.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/mirdeep.py to mirdeep.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/mirge.py to mirge.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/qc.py to qc.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/sample.py to sample.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/srna/umis.py to umis.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/annotate.py to annotate.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/battenberg.py to battenberg.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/cn_mops.py to cn_mops.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/cnvkit.py to cnvkit.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/convert.py to convert.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/delly.py to delly.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/gatkcnv.py to gatkcnv.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/gridss.py to gridss.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/hydra.py to hydra.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/lumpy.py to lumpy.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/manta.py to manta.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/metasv.py to metasv.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/pindel.py to pindel.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/plot.py to plot.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/prioritize.py to prioritize.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/purecn.py to purecn.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/purple.py to purple.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/regions.py to regions.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/seq2c.py to seq2c.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/shared.py to shared.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/titancna.py to titancna.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/validate.py to validate.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/structural/wham.py to wham.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/filesystem.py to filesystem.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/galaxy.py to galaxy.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/irods.py to irods.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/s3.py to s3.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/upload/shared.py to shared.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/annotation.py to annotation.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/bamprep.py to bamprep.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/bedutils.py to bedutils.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/cortex.py to cortex.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/coverage.py to coverage.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/damage.py to damage.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/deepvariant.py to deepvariant.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/effects.py to effects.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/ensemble.py to ensemble.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/freebayes.py to freebayes.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/gatk.py to gatk.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/gatkfilter.py to gatkfilter.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/gatkjoint.py to gatkjoint.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/genotype.py to genotype.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/germline.py to germline.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/joint.py to joint.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/multi.py to multi.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/mutect.py to mutect.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/mutect2.py to mutect2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/naming.py to naming.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/normalize.py to normalize.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/octopus.py to octopus.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/peddy.py to peddy.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/pisces.py to pisces.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/platypus.py to platypus.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/ploidy.py to ploidy.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/population.py to population.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/prioritize.py to prioritize.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/qsnp.py to qsnp.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/realign.py to realign.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/recalibrate.py to recalibrate.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/samtools.py to samtools.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/scalpel.py to scalpel.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/sentieon.py to sentieon.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/smcounter2.py to smcounter2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/split.py to split.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/strelka2.py to strelka2.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/validate.py to validate.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/validateplot.py to validateplot.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/vardict.py to vardict.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/varscan.py to varscan.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/vcfanno.py to vcfanno.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/vcfutils.py to vcfutils.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/variation/vfilter.py to vfilter.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/stormseq.py to stormseq.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/template.py to template.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/workflow/xprize.py to xprize.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/__init__.py to __init__.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/install.py to install.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/setpath.py to setpath.cpython-37.pyc byte-compiling /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio/utils.py to utils.cpython-37.pyc running install_egg_info Copying bcbio_nextgen.egg-info to /build/bcbio-1.1.2/debian/python3-bcbio/usr/lib/python3.7/dist-packages/bcbio_nextgen-1.1.2.egg-info Skipping SOURCES.txt running install_scripts creating /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin copying build/scripts-3.7/cwltool2wdl.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin copying build/scripts-3.7/bcbio_fastq_umi_prep.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin copying build/scripts-3.7/bcbio_prepare_samples.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin copying build/scripts-3.7/bcbio_setup_genome.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin copying build/scripts-3.7/bcbio_nextgen.py -> /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin changing mode of /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin/cwltool2wdl.py to 755 changing mode of /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin/bcbio_fastq_umi_prep.py to 755 changing mode of /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin/bcbio_prepare_samples.py to 755 changing mode of /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin/bcbio_setup_genome.py to 755 changing mode of /build/bcbio-1.1.2/debian/python3-bcbio/usr/bin/bcbio_nextgen.py to 755 [ -d debian/bcbio ] && mkdir -p debian/bcbio/usr/bin mv debian/python3-bcbio/usr/bin/* debian/bcbio/usr/bin/ # To keep awareness of redundant binaries with different versions of Python #mkdir -p debian/bcbio/usr/bin #rm -rf debian/python-bcbio/usr/bin debian/python3-bcbio/usr/bin make[1]: Leaving directory '/build/bcbio-1.1.2' dh_installdocs -O--buildsystem=pybuild install -d debian/python3-bcbio/usr/share/doc/python3-bcbio install -d debian/.debhelper/generated/python3-bcbio install -p -m0644 debian/README.Debian debian/python3-bcbio/usr/share/doc/python3-bcbio/README.Debian install -p -m0644 debian/copyright debian/python3-bcbio/usr/share/doc/python3-bcbio/copyright install -d debian/bcbio/usr/share/doc/bcbio install -d debian/.debhelper/generated/bcbio install -p -m0644 debian/copyright debian/bcbio/usr/share/doc/bcbio/copyright install -d debian/.debhelper/generated/bcbio-doc cd './build/html//..' && find 'html' \( -type f -or -type l \) -and ! -empty -print0 | LC_ALL=C sort -z | xargs -0 -I {} cp --reflink=auto --parents -dp {} /build/bcbio-1.1.2/debian/bcbio-doc/usr/share/doc/bcbio-doc chown -R 0:0 debian/bcbio-doc/usr/share/doc chmod -R u\+rw,go=rX debian/bcbio-doc/usr/share/doc install -p -m0644 debian/copyright debian/bcbio-doc/usr/share/doc/bcbio-doc/copyright install -d debian/bcbio-doc/usr/share/doc-base/ install -p -m0644 debian/bcbio-doc.doc-base debian/bcbio-doc/usr/share/doc-base/bcbio dh_sphinxdoc -O--buildsystem=pybuild ln -sf ../../../../javascript/sphinxdoc/1.0/doctools.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/doctools.js ln -sf ../../../../javascript/sphinxdoc/1.0/jquery.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/jquery.js ln -sf ../../../../javascript/sphinxdoc/1.0/underscore.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/underscore.js ln -sf ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/searchtools.js ln -sf ../../../../javascript/sphinxdoc/1.0/sidebar.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/sidebar.js rm -rf debian/bcbio-doc/usr/share/doc/bcbio-doc/html/.doctrees rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/.buildinfo rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/websupport.js (grep -a -s -v sphinxdoc:Depends debian/bcbio-doc.substvars; echo "sphinxdoc:Depends=libjs-sphinxdoc (>= 1.0)") > debian/bcbio-doc.substvars.new mv debian/bcbio-doc.substvars.new debian/bcbio-doc.substvars (grep -a -s -v sphinxdoc:Built-Using debian/bcbio-doc.substvars; echo "sphinxdoc:Built-Using=sphinx (= 1.8.4-1)") > debian/bcbio-doc.substvars.new mv debian/bcbio-doc.substvars.new debian/bcbio-doc.substvars dh_installchangelogs -O--buildsystem=pybuild install -p -m0644 debian/changelog debian/bcbio/usr/share/doc/bcbio/changelog.Debian install -p -m0644 ./HISTORY.md debian/bcbio/usr/share/doc/bcbio/changelog install -p -m0644 debian/changelog debian/python3-bcbio/usr/share/doc/python3-bcbio/changelog.Debian install -p -m0644 ./HISTORY.md debian/python3-bcbio/usr/share/doc/python3-bcbio/changelog install -p -m0644 debian/changelog debian/bcbio-doc/usr/share/doc/bcbio-doc/changelog.Debian install -p -m0644 ./HISTORY.md debian/bcbio-doc/usr/share/doc/bcbio-doc/changelog dh_installman -O--buildsystem=pybuild install -d debian/bcbio/usr/share/man/man1/ install -p -m0644 ./build/man/bcbio_nextgen.1 debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 man -l --recode UTF-8 ./debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 > debian/bcbio/usr/share/man/man1/bcbio_nextgen.1.dh-new mv debian/bcbio/usr/share/man/man1/bcbio_nextgen.1.dh-new debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 chmod 0644 -- debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 dh_systemd_enable -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:161: version: 3.20190308 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_python3:166: supported Python versions: 3.7 (default=3.7) D: dh_python3 debhelper:100: skipping package bcbio-doc (missing ${python3:Depends} in Depends) D: dh_python3 debhelper:153: source=bcbio, binary packages=['python3-bcbio', 'bcbio'] D: dh_python3 dh_python3:183: processing package python3-bcbio... D: dh_python3 fs:49: moving files from debian/python3-bcbio/usr/lib/python3.7/dist-packages to debian/python3-bcbio/usr/lib/python3/dist-packages/ D: dh_python3 tools:232: invoking: /usr/bin/python3.7 -c 'import sysconfig as s;print("__SEP__".join(i or "" for i in s.get_config_vars("SOABI", "MULTIARCH", "INCLUDEPY", "LIBPL", "LDLIBRARY")))' D: dh_python3 fs:178: removing dist-packages/tests D: dh_python3 fs:260: package python3-bcbio details = {'requires.txt': set(), 'egg-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:114: generating dependencies for package python3-bcbio D: dh_python3 depends:272: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] D: dh_python3 dh_python3:183: processing package bcbio... D: dh_python3 fs:260: package bcbio details = {'requires.txt': set(), 'egg-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3, /usr/bin/python3, /usr/bin/python3 -Es, /usr/bin/python3 -Es, /usr/bin/python3 -Es}, 'public_vers': set(), 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:114: generating dependencies for package bcbio D: dh_python3 depends:272: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installinit -O--buildsystem=pybuild dh_systemd_start -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild install -d debian/bcbio/usr/share/lintian/overrides install -p -m0644 debian/bcbio.lintian-overrides debian/bcbio/usr/share/lintian/overrides/bcbio install -d debian/bcbio-doc/usr/share/lintian/overrides install -p -m0644 debian/bcbio-doc.lintian-overrides debian/bcbio-doc/usr/share/lintian/overrides/bcbio-doc dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/doctools.js ln -s ../../../../javascript/sphinxdoc/1.0/doctools.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/doctools.js rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/jquery.js ln -s ../../../../javascript/sphinxdoc/1.0/jquery.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/jquery.js rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/underscore.js ln -s ../../../../javascript/sphinxdoc/1.0/underscore.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/underscore.js rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/searchtools.js ln -s ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/searchtools.js rm -f debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/sidebar.js ln -s ../../../../javascript/sphinxdoc/1.0/sidebar.js debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/sidebar.js dh_strip_nondeterminism -O--buildsystem=pybuild Using 1548252297 as canonical time Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/surecell-cb3.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/surecell-cb2.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/surecell-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/icell8-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-scrb-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/10x_v2-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Using 1548252297 as canonical time Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/up.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/up-pressed.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/plus.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/minus.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_images/github.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/file.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/down.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/down-pressed.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/comment.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/comment-close.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_static/comment-bright.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_images/variant-calling-overview.png using File::StripNondeterminism::handlers::png Normalizing debian/bcbio-doc/usr/share/doc/bcbio-doc/html/_images/parallel-clustertypes.png using File::StripNondeterminism::handlers::png dh_compress -O--buildsystem=pybuild cd debian/python3-bcbio cd debian/bcbio cd debian/bcbio-doc chmod a-x usr/share/doc/python3-bcbio/changelog usr/share/doc/python3-bcbio/changelog.Debian chmod a-x usr/share/doc/bcbio/changelog usr/share/doc/bcbio/changelog.Debian usr/share/man/man1/bcbio_nextgen.1 gzip -9nf usr/share/doc/bcbio/changelog usr/share/doc/bcbio/changelog.Debian usr/share/man/man1/bcbio_nextgen.1 gzip -9nf usr/share/doc/python3-bcbio/changelog usr/share/doc/python3-bcbio/changelog.Debian chmod a-x usr/share/doc/bcbio-doc/changelog usr/share/doc/bcbio-doc/changelog.Debian gzip -9nf usr/share/doc/bcbio-doc/changelog usr/share/doc/bcbio-doc/changelog.Debian cd '/build/bcbio-1.1.2' cd '/build/bcbio-1.1.2' cd '/build/bcbio-1.1.2' dh_fixperms -O--buildsystem=pybuild find debian/python3-bcbio -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/bcbio -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/bcbio-doc -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/bcbio-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/bcbio ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/bcbio/usr/share/doc -type f -a -true -a ! -regex 'debian/bcbio/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-bcbio ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/bcbio-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/bcbio-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/bcbio/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/bcbio-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/bcbio/usr/share/man debian/bcbio/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/bcbio-doc/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-bcbio/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-bcbio/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/bcbio -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/bcbio-doc -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-bcbio/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/bcbio/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-bcbio -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-bcbio/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-bcbio/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-bcbio/DEBIAN/postinst cat debian/python3-bcbio.postinst.debhelper >> debian/python3-bcbio/DEBIAN/postinst chmod 0755 -- debian/python3-bcbio/DEBIAN/postinst chown 0:0 -- debian/python3-bcbio/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-bcbio/DEBIAN/prerm cat debian/python3-bcbio.prerm.debhelper >> debian/python3-bcbio/DEBIAN/prerm chmod 0755 -- debian/python3-bcbio/DEBIAN/prerm chown 0:0 -- debian/python3-bcbio/DEBIAN/prerm install -d debian/bcbio/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/bcbio/DEBIAN/postinst cat debian/bcbio.postinst.debhelper >> debian/bcbio/DEBIAN/postinst chmod 0755 -- debian/bcbio/DEBIAN/postinst chown 0:0 -- debian/bcbio/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/bcbio/DEBIAN/prerm cat debian/bcbio.prerm.debhelper >> debian/bcbio/DEBIAN/prerm chmod 0755 -- debian/bcbio/DEBIAN/prerm chown 0:0 -- debian/bcbio/DEBIAN/prerm install -d debian/bcbio-doc/DEBIAN dh_gencontrol -O--buildsystem=pybuild echo misc:Depends= >> debian/python3-bcbio.substvars echo misc:Pre-Depends= >> debian/python3-bcbio.substvars dpkg-gencontrol -ppython3-bcbio -ldebian/changelog -Tdebian/python3-bcbio.substvars -Pdebian/python3-bcbio -UMulti-Arch echo misc:Depends= >> debian/bcbio.substvars echo misc:Pre-Depends= >> debian/bcbio.substvars dpkg-gencontrol -pbcbio -ldebian/changelog -Tdebian/bcbio.substvars -Pdebian/bcbio -UMulti-Arch echo misc:Depends= >> debian/bcbio-doc.substvars echo misc:Pre-Depends= >> debian/bcbio-doc.substvars dpkg-gencontrol -pbcbio-doc -ldebian/changelog -Tdebian/bcbio-doc.substvars -Pdebian/bcbio-doc -UMulti-Arch chmod 0644 -- debian/bcbio/DEBIAN/control chown 0:0 -- debian/bcbio/DEBIAN/control dpkg-gencontrol: warning: package bcbio-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined chmod 0644 -- debian/python3-bcbio/DEBIAN/control chown 0:0 -- debian/python3-bcbio/DEBIAN/control chmod 0644 -- debian/bcbio-doc/DEBIAN/control chown 0:0 -- debian/bcbio-doc/DEBIAN/control dh_md5sums -O--buildsystem=pybuild cd debian/bcbio >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/bcbio-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-bcbio >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/bcbio/DEBIAN/md5sums chown 0:0 -- debian/bcbio/DEBIAN/md5sums chmod 0644 -- debian/bcbio-doc/DEBIAN/md5sums chown 0:0 -- debian/bcbio-doc/DEBIAN/md5sums chmod 0644 -- debian/python3-bcbio/DEBIAN/md5sums chown 0:0 -- debian/python3-bcbio/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --build debian/python3-bcbio .. dpkg-deb --build debian/bcbio .. dpkg-deb --build debian/bcbio-doc .. dpkg-deb: building package 'python3-bcbio' in '../python3-bcbio_1.1.2-3_all.deb'. dpkg-deb: building package 'bcbio-doc' in '../bcbio-doc_1.1.2-3_all.deb'. dpkg-deb: building package 'bcbio' in '../bcbio_1.1.2-3_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../bcbio_1.1.2-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from bcbio-1.1.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/32190 and its subdirectories I: Current time: Sat Aug 28 03:54:25 -12 2021 I: pbuilder-time-stamp: 1630166065