Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/p/python-deeptools/python-deeptools_3.5.0-1_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/python-deeptools-3.5.0-1f6go5zyr/python-deeptools_3.5.0-1_all.buildinfo Get source package info: python-deeptools=3.5.0-1 Source URL: http://snapshot.notset.fr/mr/package/python-deeptools/3.5.0-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.2-4 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.47 bash=5.0-7 binutils=2.35-3 binutils-common=2.35-3 binutils-x86-64-linux-gnu=2.35-3 bsdextrautils=2.36-3 bsdutils=1:2.36-3 build-essential=12.8 bzip2=1.0.8-4 ca-certificates=20200601 coreutils=8.32-3 cpp=4:10.1.0-1 cpp-10=10.2.0-8 dash=0.5.10.2-7 debconf=1.5.74 debhelper=13.2.1 debianutils=4.11.1 dh-autoreconf=19 dh-python=4.20200804 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 docutils-common=0.16+dfsg-3 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13-5 file=1:5.38-5 findutils=4.7.0-1 fonts-lyx=2.3.5.2-1 g++=4:10.1.0-1 g++-10=10.2.0-8 gcc=4:10.1.0-1 gcc-10=10.2.0-8 gcc-10-base=10.2.0-8 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.4-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.58 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libasan6=10.2.0-8 libatomic1=10.2.0-8 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3 libaudit1=1:2.8.5-3+b1 libbigwig0=0.4.4+dfsg-2 libbinutils=2.35-3 libblas3=3.9.0-3 libblkid1=2.36-3 libbrotli1=1.0.9-2 libbsd0=0.10.0-1 libbz2-1.0=1.0.8-4 libc-bin=2.31-3 libc-dev-bin=2.31-3 libc6=2.31-3 libc6-dev=2.31-3 libcap-ng0=0.7.9-2.2 libcc1-0=10.2.0-8 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35-3 libctf0=2.35-3 libcurl3-gnutls=7.72.0-1 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.253 libdebhelper-perl=13.2.1 libdeflate0=1.6-1 libdpkg-perl=1.20.5 libelf1=0.181-1 libexpat1=2.2.9-1 libffi7=3.3-4 libfile-stripnondeterminism-perl=1.9.0-1 libfreetype6=2.10.2+dfsg-3 libgcc-10-dev=10.2.0-8 libgcc-s1=10.2.0-8 libgcrypt20=1.8.6-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgfortran5=10.2.0-8 libglib2.0-0=2.66.0-2 libgmp10=2:6.2.0+dfsg-6 libgnutls30=3.6.15-4 libgomp1=10.2.0-8 libgpg-error0=1.38-2 libgssapi-krb5-2=1.17-10 libhogweed6=3.6-2 libhts3=1.10.2-5 libicu67=67.1-4 libidn2-0=2.3.0-1 libimagequant0=2.12.2-1.1 libisl22=0.22.1-1 libitm1=10.2.0-8 libjbig0=2.1-3.1+b2 libjpeg62-turbo=1:2.0.5-1.1 libjs-jquery=3.5.1+dfsg-4 libjs-jquery-ui=1.12.1+dfsg-5 libjs-sphinxdoc=3.2.1-1 libjs-underscore=1.9.1~dfsg-1 libk5crypto3=1.17-10 libkeyutils1=1.6.1-2 libkrb5-3=1.17-10 libkrb5support0=1.17-10 liblapack3=3.9.0-3 liblbfgsb0=3.0+dfsg.3-9 liblcms2-2=2.9-4+b1 libldap-2.4-2=2.4.53+dfsg-1 liblsan0=10.2.0-8 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.38-5 libmagic1=1:5.38-5 libmount1=2.36-3 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncursesw6=6.2-1 libnettle8=3.6-2 libnghttp2-14=1.41.0-3 libp11-kit0=0.23.21-2 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpcre2-8-0=10.34-7 libpcre3=2:8.39-13 libperl5.30=5.30.3-4 libpipeline1=1.5.3-1 libpng16-16=1.6.37-3 libpsl5=0.21.0-1.1 libpython3-stdlib=3.8.2-3 libpython3.8=3.8.6~rc1-2 libpython3.8-minimal=3.8.6~rc1-2 libpython3.8-stdlib=3.8.6~rc1-2 libquadmath0=10.2.0-8 libreadline8=8.0-4 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.4.3-1+b1 libselinux1=3.1-2 libsigsegv2=2.12-2 libsmartcols1=2.36-3 libsqlite3-0=3.33.0-1 libssh2-1=1.8.0-2.1 libssl1.1=1.1.1g-1 libstdc++-10-dev=10.2.0-8 libstdc++6=10.2.0-8 libsub-override-perl=0.09-2 libsystemd0=246.5-1 libtasn1-6=4.16.0-2 libtiff5=4.1.0+git191117-2 libtinfo6=6.2-1 libtool=2.4.6-14 libtsan0=10.2.0-8 libubsan1=10.2.0-8 libuchardet0=0.0.7-1 libudev1=246.5-1 libunistring2=0.9.10-4 libuuid1=2.36-3 libwebp6=0.6.1-2+b1 libwebpdemux2=0.6.1-2+b1 libwebpmux3=0.6.1-2+b1 libxau6=1:1.0.8-1+b2 libxcb1=1.14-2 libxdmcp6=1:1.1.2-3 libxml2=2.9.10+dfsg-6 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.8.7-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 mime-support=3.64 ncurses-base=6.2-1 ncurses-bin=6.2-1 node-jquery=3.5.1+dfsg-4 openssl=1.1.1g-1 patch=2.7.6-6 perl=5.30.3-4 perl-base=5.30.3-4 perl-modules-5.30=5.30.3-4 po-debconf=1.0.21 python-babel-localedata=2.8.0+dfsg.1-4 python-matplotlib-data=3.3.0-3 python3=3.8.2-3 python3-alabaster=0.7.8-1.1 python3-all=3.8.2-3 python3-attr=19.3.0-5 python3-babel=2.8.0+dfsg.1-4 python3-certifi=2020.6.20-1 python3-chardet=3.0.4-7 python3-cycler=0.10.0-3 python3-dateutil=2.8.1-4 python3-decorator=4.4.2-2 python3-deeptoolsintervals=0.1.9-3 python3-distutils=3.8.5-1 python3-docutils=0.16+dfsg-3 python3-idna=2.10-1 python3-imagesize=1.2.0-2 python3-importlib-metadata=1.6.0-2 python3-ipython-genutils=0.2.0-3 python3-jinja2=2.11.2-1 python3-jsonschema=3.2.0-3 python3-jupyter-core=4.6.3-4 python3-kiwisolver=1.2.0-1 python3-lib2to3=3.8.5-1 python3-markupsafe=1.1.1-1+b1 python3-matplotlib=3.3.0-3 python3-minimal=3.8.2-3 python3-more-itertools=4.2.0-3 python3-nbformat=5.0.7-1 python3-nose=1.3.7-7 python3-numpy=1:1.19.2-1 python3-numpydoc=1.1.0-3 python3-packaging=20.4-1 python3-pil=7.2.0-1 python3-pkg-resources=49.3.1-2 python3-plotly=4.9.0+dfsg-1 python3-py2bit=0.3.0-5 python3-pybigwig=0.3.17-1+b2 python3-pygments=2.3.1+dfsg-4 python3-pyparsing=2.4.7-1 python3-pyrsistent=0.15.5-1+b1 python3-pysam=0.15.4+ds-3 python3-requests=2.23.0+dfsg-2 python3-retrying=1.3.3-4 python3-roman=2.0.0-5 python3-scipy=1.5.2-2 python3-setuptools=49.3.1-2 python3-six=1.15.0-1 python3-sphinx=3.2.1-1 python3-traitlets=5.0.4-1 python3-tz=2020.1-2 python3-urllib3=1.25.9-1 python3-zipp=1.0.0-3 python3.8=3.8.6~rc1-2 python3.8-minimal=3.8.6~rc1-2 readline-common=8.0-4 sed=4.7-1 sensible-utils=0.0.12+nmu1 sgml-base=1.30 sphinx-common=3.2.1-1 sysvinit-utils=2.96-5 tar=1.30+dfsg-7 ttf-bitstream-vera=1.10-8 tzdata=2020a-1 util-linux=2.36-3 xml-core=0.18+nmu1 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20200917T150130Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d python-deeptools=3.5.0-1 && mkdir -p /build/python-deeptools-gv9wEp && dpkg-source --no-check -x /*.dsc /build/python-deeptools-gv9wEp/python-deeptools-3.5.0 && chown -R builduser:builduser /build/python-deeptools-gv9wEp" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/python-deeptools-gv9wEp/python-deeptools-3.5.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1600161031" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/python-deeptools-gv9wEp /tmp/python-deeptools-3.5.0-1f6go5zyr bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20200917T150130Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.SZ6eO5it_F as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.SZ6eO5it_F Reading package lists... Building dependency tree... util-linux is already the newest version (2.36-3). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 132 kB of archives. After this operation, 393 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20200917T150130Z unstable/main amd64 libfakeroot amd64 1.24-1 [45.7 kB] Get:2 http://snapshot.notset.fr/archive/debian/20200917T150130Z unstable/main amd64 fakeroot amd64 1.24-1 [85.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 132 kB in 0s (1050 kB/s) Selecting previously unselected package libfakeroot:amd64. (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 ... 4576 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.24-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.24-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.24-1_amd64.deb ... Unpacking fakeroot (1.24-1) ... Setting up libfakeroot:amd64 (1.24-1) ... Setting up fakeroot (1.24-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-3) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20200917T150130Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.SZ6eO5it_F Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20200917T150130Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 21s (1082 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.SZ6eO5it_F I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d python-deeptools=3.5.0-1 && mkdir -p /build/python-deeptools-gv9wEp && dpkg-source --no-check -x /*.dsc /build/python-deeptools-gv9wEp/python-deeptools-3.5.0 && chown -R builduser:builduser /build/python-deeptools-gv9wEp"' exec /tmp/mmdebstrap.SZ6eO5it_F Reading package lists... NOTICE: 'python-deeptools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/python-deeptools.git Please use: git clone https://salsa.debian.org/med-team/python-deeptools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 24.6 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main python-deeptools 3.5.0-1 (dsc) [2399 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main python-deeptools 3.5.0-1 (tar) [24.6 MB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main python-deeptools 3.5.0-1 (diff) [5724 B] Fetched 24.6 MB in 20s (1228 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'python-deeptools_3.5.0-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting python-deeptools in /build/python-deeptools-gv9wEp/python-deeptools-3.5.0 dpkg-source: info: unpacking python-deeptools_3.5.0.orig.tar.xz dpkg-source: info: unpacking python-deeptools_3.5.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying tmp_inhibit_test_readFiltering.patch dpkg-source: info: applying python2to3_for_executables.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/python-deeptools-gv9wEp/python-deeptools-3.5.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1600161031" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.SZ6eO5it_F dpkg-buildpackage: info: source package python-deeptools dpkg-buildpackage: info: source version 3.5.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-source: info: using options from python-deeptools-3.5.0/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0' dh_auto_clean install -d /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/.debhelper/generated/_source/home pybuild --clean --test-nose -i python{version} -p 3.8 I: pybuild base:217: python3.8 setup.py clean running clean removing '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.8' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; rm -rf .pytest_cache deeptools/__pycache__ make[1]: Leaving directory '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-deeptools.substvars debian/files rm -fr -- debian/python3-deeptools/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary-indep dh binary-indep --with python3 --buildsystem=pybuild dh_update_autotools_config -i -O--buildsystem=pybuild dh_autoreconf -i -O--buildsystem=pybuild dh_auto_configure -i -O--buildsystem=pybuild install -d /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/.debhelper/generated/_source/home pybuild --configure --test-nose -i python{version} -p 3.8 I: pybuild base:217: python3.8 setup.py config running config dh_auto_build -i -O--buildsystem=pybuild pybuild --build --test-nose -i python{version} -p 3.8 I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/multiBigwigSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/writeBedGraph.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/countReadsPerBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/computeMatrixOperations.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/sumCoveragePerBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/deeptools_list_tools.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/__init__.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/misc.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotProfile.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/writeBedGraph_bam_and_bw.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/bamCompare.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotFingerprint.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/bigwigCompare.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/deepBlue.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/getScaleFactor.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/parserCommon.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/bamCoverage.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/correctGCBias.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotPCA.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/computeGCBias.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/getScorePerBigWigBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/heatmapper.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/mapReduce.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/estimateReadFiltering.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/_version.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/computeMatrix.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotEnrichment.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/correlation.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/utilities.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/SES_scaleFactor.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/bamHandler.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotCoverage.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotHeatmap.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/alignmentSieve.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/cm.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/getRatio.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/heatmapper_utilities.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/getFragmentAndReadSize.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/bamPEFragmentSize.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/correlation_heatmap.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/plotCorrelation.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools copying deeptools/multiBamSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_countReadsPerBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_writeBedGraph.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/__init__.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_readFiltering.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/testskip_heatmapper_images.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_computeMatrixOperations.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_bigwigCompare_and_multiBigwigSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_plotCoverage.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_bamCoverage_and_bamCompare.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_tools.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_heatmapper.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test copying deeptools/test/test_multiBamSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test running egg_info creating deepTools.egg-info writing deepTools.egg-info/PKG-INFO writing dependency_links to deepTools.egg-info/dependency_links.txt writing requirements to deepTools.egg-info/requires.txt writing top-level names to deepTools.egg-info/top_level.txt writing manifest file 'deepTools.egg-info/SOURCES.txt' reading manifest file 'deepTools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'examples/*' warning: no previously-included files found matching 'galaxy/*' warning: no previously-included files found matching 'gallery/*' writing manifest file 'deepTools.egg-info/SOURCES.txt' running build_scripts creating build creating build/scripts-3.8 copying and adjusting bin/bamCompare -> build/scripts-3.8 copying and adjusting bin/bamCoverage -> build/scripts-3.8 copying and adjusting bin/multiBamSummary -> build/scripts-3.8 copying and adjusting bin/plotHeatmap -> build/scripts-3.8 copying and adjusting bin/plotFingerprint -> build/scripts-3.8 copying and adjusting bin/estimateScaleFactor -> build/scripts-3.8 copying and adjusting bin/bamPEFragmentSize -> build/scripts-3.8 copying and adjusting bin/computeMatrix -> build/scripts-3.8 copying and adjusting bin/plotProfile -> build/scripts-3.8 copying and adjusting bin/computeGCBias -> build/scripts-3.8 copying and adjusting bin/correctGCBias -> build/scripts-3.8 copying and adjusting bin/multiBigwigSummary -> build/scripts-3.8 copying and adjusting bin/bigwigCompare -> build/scripts-3.8 copying and adjusting bin/plotCoverage -> build/scripts-3.8 copying and adjusting bin/plotPCA -> build/scripts-3.8 copying and adjusting bin/plotCorrelation -> build/scripts-3.8 copying and adjusting bin/plotEnrichment -> build/scripts-3.8 copying and adjusting bin/deeptools -> build/scripts-3.8 copying and adjusting bin/computeMatrixOperations -> build/scripts-3.8 copying and adjusting bin/estimateReadFiltering -> build/scripts-3.8 copying and adjusting bin/alignmentSieve -> build/scripts-3.8 changing mode of build/scripts-3.8/bamCompare from 644 to 755 changing mode of build/scripts-3.8/bamCoverage from 644 to 755 changing mode of build/scripts-3.8/multiBamSummary from 644 to 755 changing mode of build/scripts-3.8/plotHeatmap from 644 to 755 changing mode of build/scripts-3.8/plotFingerprint from 644 to 755 changing mode of build/scripts-3.8/estimateScaleFactor from 644 to 755 changing mode of build/scripts-3.8/bamPEFragmentSize from 644 to 755 changing mode of build/scripts-3.8/computeMatrix from 644 to 755 changing mode of build/scripts-3.8/plotProfile from 644 to 755 changing mode of build/scripts-3.8/computeGCBias from 644 to 755 changing mode of build/scripts-3.8/correctGCBias from 644 to 755 changing mode of build/scripts-3.8/multiBigwigSummary from 644 to 755 changing mode of build/scripts-3.8/bigwigCompare from 644 to 755 changing mode of build/scripts-3.8/plotCoverage from 644 to 755 changing mode of build/scripts-3.8/plotPCA from 644 to 755 changing mode of build/scripts-3.8/plotCorrelation from 644 to 755 changing mode of build/scripts-3.8/plotEnrichment from 644 to 755 changing mode of build/scripts-3.8/deeptools from 644 to 755 changing mode of build/scripts-3.8/computeMatrixOperations from 644 to 755 changing mode of build/scripts-3.8/estimateReadFiltering from 644 to 755 changing mode of build/scripts-3.8/alignmentSieve from 644 to 755 debian/rules override_dh_auto_test make[1]: Entering directory '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0' PYTHONPATH=/build/python-deeptools-gv9wEp/python-deeptools-3.5.0 nosetests3 -x -v -s deeptools Test minimal command line args for bamCoverage ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_extend ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_extend_and_normalizeUsingRPGC ... normalization: 1x (effective genome size 200) bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 normalization: 1x (effective genome size 200) bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_skipnas ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok deeptools.test.test_bamCoverage_and_bamCompare.test_bam_coverage_filtering ... Specified --scaleFactor: 1.0 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: True region: None bedFile: None minMappingQuality: None ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 Specified --scaleFactor: 1.0 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: True region: None bedFile: None minMappingQuality: None ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test minimal command line args for bamCoverage. The ratio ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test with two different files ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test with different pseudocounts ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Ensure --skipZeroOverZero works in bamCompare ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: True bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test the scale factor functions ... ok Test skipnas ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: True smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test read extension ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: 100 numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 400 ok Test scale factor ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test scale factor ... normalization: CPM normalization: CPM The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 normalization: CPM normalization: CPM The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testB.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: ['chr_cigar'] stepSize: 50 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test --samFlagInclude --samFlagExclude --minMappingQuality --ignoreDuplicates and --blackListFileName ... normalization: 1x (effective genome size 1400) bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.bam'] binLength: 50 numberOfSamples: None blackListFileName: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 normalization: 1x (effective genome size 1400) bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.cram'] binLength: 50 numberOfSamples: None blackListFileName: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok Test -bs 1 --Offset 1 ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1] bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1] ok Test -bs 1 --Offset 1 10 ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1, 10] bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [1, 10] ok Test -bs 1 --Offset -1 ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [-1] bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [-1] ok Test -bs 1 --Offset 20 -4 ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.bam'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [20, -4] bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/testA.cram'] binLength: 1 numberOfSamples: None blackListFileName: None skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: None ignoreDuplicates: False chrsToSkip: [] stepSize: 1 center_read: False samFlag_include: None samFlag_exclude: None minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 filter_strand: None Offset: [20, -4] ok Test --samFlagInclude --samFlagExclude --minMappingQuality --ignoreDuplicates and --blackListFileName ... bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.bam', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering2.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 bamFilesList: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.cram', '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering2.cram'] binLength: 50 numberOfSamples: 0 blackListFileName: ['/build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_data/test_filtering.blacklist.bed'] skipZeroOverZero: False bed_and_bin: False genomeChunkSize: None defaultFragmentLength: read length numberOfProcessors: 1 verbose: False region: None bedFile: None minMappingQuality: 5 ignoreDuplicates: True chrsToSkip: [] stepSize: 50 center_read: False samFlag_include: 512 samFlag_exclude: 256 minFragmentLength: 0 maxFragmentLength: 0 zerosToNans: False smoothLength: None save_data: False out_file_for_raw_data: None maxPairedFragmentLength: 1000 ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_bigwigCompare ... ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_bigwigCompare_skipnas ... ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_bigwigCompare_skipZeroOverZero ... ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_multiBigwigSummary ... The following chromosome names did not match between the bigwig files chromosome length chr_cigar 200 Number of bins found: 4 ok Test multiBigwigSummary raw counts output ... The following chromosome names did not match between the bigwig files chromosome length chr_cigar 200 *Warning* The resulting bed file does not contain information for the chromosomes that were not common between the bigwig files Number of bins found: 4 ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_multiBigwigSummary_gtf ... Number of bins found: 2 ok deeptools.test.test_bigwigCompare_and_multiBigwigSummary.test_multiBigwigSummary_metagene ... Number of bins found: 2 ok computeMatrixOperations relabel ... ok computeMatrixOperations subset ... ok computeMatrixOperations cbind ... ok computeMatrixOperations filterStrand ... ok computeMatrixOperations rbind ... ok computeMatrixOperations rbind with different groups ... ok computeMatrixOperations sort ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_bed_file ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_countReadsInRegions_min_mapping_quality ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_count_reads_in_region ... ok In this case when read extension is smaller than read length ... *WARNING*: read extension is smaller than read length (read length = 50). Reads will not be extended. ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_count_reads_in_region_ignore_bed_regions ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_count_reads_in_region_ignore_duplicates ... ok count the reads over the whole region ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_ignore_duplicates ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_large_bin ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_sam_flag_exclude ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_sam_flag_include ... ok The bamFile1 contains a read at position 10 ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBin.test_get_coverage_of_region_zeros_to_nan ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_bed_file ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_countReadsInRegions_min_mapping_quality ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_count_reads_in_region ... ok In this case when read extension is smaller than read length ... *WARNING*: read extension is smaller than read length (read length = 50). Reads will not be extended. ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_count_reads_in_region_ignore_bed_regions ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_count_reads_in_region_ignore_duplicates ... ok count the reads over the whole region ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_ignore_duplicates ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_large_bin ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_sam_flag_exclude ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_sam_flag_include ... ok The bamFile1 contains a read at position 10 ... ok deeptools.test.test_countReadsPerBin.TestCountReadsPerBinCRAM.test_get_coverage_of_region_zeros_to_nan ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point_center ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point_tes ... ok deeptools.test.test_heatmapper.test_computeMatrix_reference_point_missing_data_as_zero ... ok deeptools.test.test_heatmapper.test_computeMatrix_scale_regions ... ok deeptools.test.test_heatmapper.test_computeMatrix_multiple_bed ... ok deeptools.test.test_heatmapper.test_computeMatrix_region_extend_over_chr_end ... ok deeptools.test.test_heatmapper.test_computeMatrix_unscaled ... ok deeptools.test.test_heatmapper.test_computeMatrix_gtf ... ok deeptools.test.test_heatmapper.test_computeMatrix_metagene ... ok deeptools.test.test_heatmapper.test_chopRegions_body ... ok deeptools.test.test_heatmapper.test_chopRegions_TSS ... ok deeptools.test.test_heatmapper.test_chopRegions_TES ... ok deeptools.test.test_heatmapper.test_chopRegionsFromMiddle ... ok deeptools.test.test_multiBamSummary.test_multiBamSummary_gtf ... Number of bins found: 2 Number of bins found: 2 ok deeptools.test.test_multiBamSummary.test_multiBamSummary_metagene ... Number of bins found: 2 Number of bins found: 2 ok deeptools.test.test_multiBamSummary.test_multiBamSummary_scalingFactors ... The following chromosome names did not match between the the bam files chromosome length chr_cigar 200 Number of bins found: 4 /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/deeptools/test/test_multiBamSummary.py:54: ResourceWarning: unclosed file <_io.TextIOWrapper name='/tmp/test.scalingFactors.txt' mode='r' encoding='UTF-8'> ok deeptools.test.test_plotCoverage.test_plotCoverage_default ... ok Minimal testing ... ok --minMappingQuality 10 --samFlagExclude 512 --ignoreDuplicates -bl ... ok Test alignmentSieve with the --BED option ... [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_en7_6z6n.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_72d6z5fy.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_f8jmgrsw.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_h1tl_o4r.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_avyq_x3x.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_tt16kevd.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_bc8kt7ob.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_74ml7iwq.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_4eljky05.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_nbmmq7wp.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_dtqhyk69.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ir3qoxlo.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_66jnb4xc.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_pa1zt6iz.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_54_k0vyl.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_vvpp065k.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_lgfjw8j4.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_utwr7tgx.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_fd4lthgd.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_n8d0zxk7.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_3i721fhr.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_bd5iokng.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_7n6nulls.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_7kcx5l2r.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_zd894emd.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_fi6uy4nb.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_dsjvzgmb.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_f5sz2jk6.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_r6j6ri8i.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_zyfgdikf.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_91zlt7ai.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_sgdiaj9a.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_3s_895vc.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_k9a52etk.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_eec0_xhd.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_75ot9dr8.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_qawt0m_r.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_itdks49w.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_98pevlml.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ur4egziq.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ptbm17lw.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_qk327yhn.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_gqelv11x.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_pnmpsdxr.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_6l2tbw37.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ryz13rm9.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_psjiv8ga.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_737xj7ph.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_5pad0gc9.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_oaa4eybp.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_u7tf5_9p.bam' ok Test filtering a BAM file by MAPQ, flag, and blacklist ... SKIP: Skip this test (see )https://github.com/deeptools/deepTools/issues/903 Test alignmentSieve --BED --shift ... [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_dn0hgix2.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_sbbla0q1.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_o0jzsfa_.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_yrpf4goc.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_9zd8c3fv.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_db2gv42g.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_tdhf1uf4.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ajj210h1.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools__ajmi7ln.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_w0kwdhjs.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_w4a0fc97.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_0ibcjvkb.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_g2ia3vyn.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_251r346r.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_f4pcumh2.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_3psl4dre.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_gz1fntrq.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_m6eavwxx.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_geamxfke.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_34skih9z.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_uq1pk155.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_n6pnidm0.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_udc3lp1u.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_6ayl2g4t.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_s7qc9tn2.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_03sbli94.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_hua3c70t.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_2_4vzi4w.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_fdoomx77.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_it4ny1pn.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_qbjh06y1.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_r9lbeaxh.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_28ji9y_z.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_td8p17v7.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_d91h8yjy.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_ud7q7iu2.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_erfem4yt.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_m_0aov74.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_bm_hv48u.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_pqdbb63n.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_yyf0g22c.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_lzoyj9ib.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_2yqs0tov.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_vr89y0fp.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_m7_a3_5k.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_v6dcpodx.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_7gp8_iqg.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_9cc166jr.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_4wb5i5na.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_n9nqfmmj.bam' [E::idx_find_and_load] Could not retrieve index file for '/tmp/_deeptools_epq09l7x.bam' ok Checks everything that is in /bin/ ... alignmentSieve 3.5.0 plotFingerprint 3.5.0 computeMatrix 3.5.0 plotHeatmap 3.5.0 estimateScaleFactor 3.5.0 bigwigCompare 3.5.0 bamCoverage 3.5.0 bamPEFragmentSize 3.5.0 plotProfile 3.5.0 bamCompare 3.5.0 computeMatrixOperations 3.5.0 plotPCA 3.5.0 deeptools 3.5.0 plotEnrichment 3.5.0 correctGCBias 3.5.0 plotCorrelation 3.5.0 plotCoverage 3.5.0 multiBigwigSummary 3.5.0 multiBamSummary 3.5.0 estimateReadFiltering 3.5.0 computeGCBias 3.5.0 ok The bamFile1 contains a read at position 10 ... ok test_writeBedGraph_worker (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_ignore_duplicates (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_scaling (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_smoothing (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok test_writeBedGraph_worker_zerotonan (deeptools.test.test_writeBedGraph.TestWriteBedGraph) ... ok The bamFile1 contains a read at position 10 ... ok test_writeBedGraph_worker (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_ignore_duplicates (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_scaling (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_smoothing (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok test_writeBedGraph_worker_zerotonan (deeptools.test.test_writeBedGraph.TestWriteBedGraphCRAM) ... ok Test a simple plot generated using a matrix from ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_rename_labels ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_scale_regions ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_multi_bigwig_pergroup ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_multiple_colors_muti_scales ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_multiple_colormap_no_boxes ... ok deeptools.test.testskip_heatmapper_images.test_plotHeatmap_interpolation ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_heatmap ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_overlapped_lines ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_multibigwig ... ok deeptools.test.testskip_heatmapper_images.test_plotProfiler_multibigwig_pergroup ... ok ---------------------------------------------------------------------- Ran 108 tests in 30.360s OK (SKIP=1) MainProcess, processing 3 (7786.5 per sec) reads @ 3R:0-200 MainProcess countReadsInRegions_worker: processing 4 (5668.0 per sec) @ 3R:0-200 MainProcess, processing 3 (7013.9 per sec) reads @ 3R:0-200 MainProcess countReadsInRegions_worker: processing 4 (5509.8 per sec) @ 3R:0-200 Due to filtering, 50.0% of the aforementioned alignments will be used 1.0 Due to filtering, 50.0% of the aforementioned alignments will be used 1.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 97 alignments, of which 4 are completely within a blacklist region. Due to filtering, 86.02150537634408% of the aforementioned alignments will be used 80.0 There are 193 alignments, of which 7 are completely within a blacklist region. Due to filtering, 72.58064516129032% of the aforementioned alignments will be used 135.0 There are 97 alignments, of which 4 are completely within a blacklist region. Due to filtering, 86.02150537634408% of the aforementioned alignments will be used 80.0 sample mean std min 25% 50% 75% max test1.bam 4.90 5.63 0 0.0 3.0 8.0 25 test2.bam 6.56 6.63 0 0.0 5.0 11.0 25 sample mean std min 25% 50% 75% max test1.cram 4.90 5.63 0 0.0 3.0 8.0 25 test2.cram 6.56 6.63 0 0.0 5.0 11.0 25 alignmentSieve plotFingerprint computeMatrix plotHeatmap estimateScaleFactor bigwigCompare bamCoverage bamPEFragmentSize plotProfile bamCompare computeMatrixOperations plotPCA deeptools plotEnrichment correctGCBias plotCorrelation plotCoverage multiBigwigSummary multiBamSummary estimateReadFiltering computeGCBias make[1]: Leaving directory '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0' create-stamp debian/debhelper-build-stamp dh_testroot -i -O--buildsystem=pybuild dh_prep -i -O--buildsystem=pybuild rm -f -- debian/python3-deeptools.substvars rm -fr -- debian/.debhelper/generated/python3-deeptools/ debian/python3-deeptools/ debian/tmp/ dh_auto_install -i -O--buildsystem=pybuild install -d /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools pybuild --install --test-nose -i python{version} -p 3.8 --dest-dir /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools I: pybuild base:217: /usr/bin/python3 setup.py install --root /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools running install running build running build_py running egg_info writing deepTools.egg-info/PKG-INFO writing dependency_links to deepTools.egg-info/dependency_links.txt writing requirements to deepTools.egg-info/requires.txt writing top-level names to deepTools.egg-info/top_level.txt reading manifest file 'deepTools.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'examples/*' warning: no previously-included files found matching 'galaxy/*' warning: no previously-included files found matching 'gallery/*' writing manifest file 'deepTools.egg-info/SOURCES.txt' running build_scripts running install_lib creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8 creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/multiBigwigSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/writeBedGraph.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/countReadsPerBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/computeMatrixOperations.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/sumCoveragePerBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/deeptools_list_tools.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/__init__.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/misc.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotProfile.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/writeBedGraph_bam_and_bw.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/bamCompare.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotFingerprint.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/bigwigCompare.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/deepBlue.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/getScaleFactor.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/parserCommon.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/bamCoverage.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/correctGCBias.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotPCA.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/computeGCBias.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/getScorePerBigWigBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/heatmapper.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_countReadsPerBin.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_writeBedGraph.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/__init__.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_readFiltering.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/testskip_heatmapper_images.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_computeMatrixOperations.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_bigwigCompare_and_multiBigwigSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_plotCoverage.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_bamCoverage_and_bamCompare.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_tools.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_heatmapper.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/test/test_multiBamSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/mapReduce.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/estimateReadFiltering.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/_version.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/computeMatrix.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotEnrichment.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/correlation.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/utilities.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/SES_scaleFactor.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/bamHandler.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotCoverage.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotHeatmap.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/alignmentSieve.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/cm.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/getRatio.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/heatmapper_utilities.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/getFragmentAndReadSize.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/bamPEFragmentSize.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/correlation_heatmap.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/plotCorrelation.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools copying /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/.pybuild/cpython3_3.8_deeptools/build/deeptools/multiBamSummary.py -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/multiBigwigSummary.py to multiBigwigSummary.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/writeBedGraph.py to writeBedGraph.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/countReadsPerBin.py to countReadsPerBin.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/computeMatrixOperations.py to computeMatrixOperations.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/sumCoveragePerBin.py to sumCoveragePerBin.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/deeptools_list_tools.py to deeptools_list_tools.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/__init__.py to __init__.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/misc.py to misc.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotProfile.py to plotProfile.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/writeBedGraph_bam_and_bw.py to writeBedGraph_bam_and_bw.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/bamCompare.py to bamCompare.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotFingerprint.py to plotFingerprint.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/bigwigCompare.py to bigwigCompare.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/deepBlue.py to deepBlue.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/getScaleFactor.py to getScaleFactor.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/parserCommon.py to parserCommon.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/bamCoverage.py to bamCoverage.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/correctGCBias.py to correctGCBias.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotPCA.py to plotPCA.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/computeGCBias.py to computeGCBias.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/getScorePerBigWigBin.py to getScorePerBigWigBin.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/heatmapper.py to heatmapper.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_countReadsPerBin.py to test_countReadsPerBin.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_writeBedGraph.py to test_writeBedGraph.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/__init__.py to __init__.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_readFiltering.py to test_readFiltering.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/testskip_heatmapper_images.py to testskip_heatmapper_images.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_computeMatrixOperations.py to test_computeMatrixOperations.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_bigwigCompare_and_multiBigwigSummary.py to test_bigwigCompare_and_multiBigwigSummary.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_plotCoverage.py to test_plotCoverage.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_bamCoverage_and_bamCompare.py to test_bamCoverage_and_bamCompare.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_tools.py to test_tools.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_heatmapper.py to test_heatmapper.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/test/test_multiBamSummary.py to test_multiBamSummary.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/mapReduce.py to mapReduce.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/estimateReadFiltering.py to estimateReadFiltering.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/_version.py to _version.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/computeMatrix.py to computeMatrix.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotEnrichment.py to plotEnrichment.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/correlation.py to correlation.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/utilities.py to utilities.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/SES_scaleFactor.py to SES_scaleFactor.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/bamHandler.py to bamHandler.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotCoverage.py to plotCoverage.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotHeatmap.py to plotHeatmap.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/alignmentSieve.py to alignmentSieve.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/cm.py to cm.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/getRatio.py to getRatio.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/heatmapper_utilities.py to heatmapper_utilities.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/getFragmentAndReadSize.py to getFragmentAndReadSize.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/bamPEFragmentSize.py to bamPEFragmentSize.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/correlation_heatmap.py to correlation_heatmap.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/plotCorrelation.py to plotCorrelation.cpython-38.pyc byte-compiling /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deeptools/multiBamSummary.py to multiBamSummary.cpython-38.pyc running install_egg_info Copying deepTools.egg-info to /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/lib/python3.8/dist-packages/deepTools-3.5.0.egg-info Skipping SOURCES.txt running install_scripts creating /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/alignmentSieve -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotFingerprint -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/computeMatrix -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotHeatmap -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/estimateScaleFactor -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/bigwigCompare -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/bamCoverage -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/bamPEFragmentSize -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotProfile -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/bamCompare -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/computeMatrixOperations -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotPCA -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/deeptools -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotEnrichment -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/correctGCBias -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotCorrelation -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/plotCoverage -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/multiBigwigSummary -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/multiBamSummary -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/estimateReadFiltering -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin copying build/scripts-3.8/computeGCBias -> /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/alignmentSieve to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotFingerprint to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/computeMatrix to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotHeatmap to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/estimateScaleFactor to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bigwigCompare to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bamCoverage to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bamPEFragmentSize to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotProfile to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/bamCompare to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/computeMatrixOperations to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotPCA to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/deeptools to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotEnrichment to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/correctGCBias to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotCorrelation to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/plotCoverage to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/multiBigwigSummary to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/multiBamSummary to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/estimateReadFiltering to 755 changing mode of /build/python-deeptools-gv9wEp/python-deeptools-3.5.0/debian/python3-deeptools/usr/bin/computeGCBias to 755 dh_installdocs -i -O--buildsystem=pybuild install -d debian/python3-deeptools/usr/share/doc/python3-deeptools install -d debian/.debhelper/generated/python3-deeptools install -p -m0644 debian/TODO debian/python3-deeptools/usr/share/doc/python3-deeptools/TODO.Debian install -p -m0644 debian/copyright debian/python3-deeptools/usr/share/doc/python3-deeptools/copyright dh_installchangelogs -i -O--buildsystem=pybuild install -p -m0644 debian/changelog debian/python3-deeptools/usr/share/doc/python3-deeptools/changelog.Debian install -p -m0644 ./CHANGES.txt debian/python3-deeptools/usr/share/doc/python3-deeptools/changelog dh_python3 -i -O--buildsystem=pybuild D: dh_python3 dh_python3:161: version: 4.20200804 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '-i', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:163: options: {'guess_deps': True, 'skip_private': False, 'verbose': False, 'arch': False, 'package': None, 'no_package': None, 'compile_all': False, 'vrange': None, 'regexpr': None, 'accept_upstream_versions': False, 'depends': None, 'depends_section': None, 'recommends': None, 'recommends_section': None, 'suggests': None, 'suggests_section': None, 'requires': None, 'shebang': None, 'ignore_shebangs': False, 'clean_dbg_pkg': True, 'no_ext_rename': False, 'no_shebang_rewrite': False, 'O': '--buildsystem=pybuild'} D: dh_python3 dh_python3:164: args: [] D: dh_python3 dh_python3:165: supported Python versions: 3.8 (default=3.8) D: dh_python3 debhelper:152: source=python-deeptools, binary packages=['python3-deeptools'] D: dh_python3 dh_python3:183: processing package python3-deeptools... D: dh_python3 fs:49: moving files from debian/python3-deeptools/usr/lib/python3.8/dist-packages to debian/python3-deeptools/usr/lib/python3/dist-packages/ D: dh_python3 fs:260: package python3-deeptools details = {'requires.txt': {'debian/python3-deeptools/usr/lib/python3/dist-packages/deepTools-3.5.0.egg-info/requires.txt'}, 'egg-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3, /usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-deeptools D: dh_python3 pydist:142: trying to find dependency for deeptoolsintervals>=0.1.8 (python=None) D: dh_python3 pydist:142: trying to find dependency for matplotlib>=3.1.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for numpy>=1.9.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for numpydoc>=0.5 (python=None) D: dh_python3 pydist:142: trying to find dependency for plotly>=2.0.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for py2bit>=0.2.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for pyBigWig>=0.2.1 (python=None) D: dh_python3 pydist:142: trying to find dependency for pysam>=0.14.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for scipy>=0.17.0 (python=None) D: dh_python3 depends:275: D={'python3-deeptoolsintervals', 'python3-scipy (>=0.17.0)', 'python3-py2bit', 'python3-numpy', 'python3-pybigwig', 'python3-numpydoc', 'python3-pysam (>=0.14.0)', 'python3:any', 'python3-matplotlib (>=2.1.2)', 'python3-plotly (>=2.0.0)'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -i -O--buildsystem=pybuild dh_perl -i -O--buildsystem=pybuild dh_link -i -O--buildsystem=pybuild dh_strip_nondeterminism -i -O--buildsystem=pybuild dh_compress -i -O--buildsystem=pybuild cd debian/python3-deeptools chmod a-x usr/share/doc/python3-deeptools/changelog usr/share/doc/python3-deeptools/changelog.Debian gzip -9nf usr/share/doc/python3-deeptools/changelog usr/share/doc/python3-deeptools/changelog.Debian cd '/build/python-deeptools-gv9wEp/python-deeptools-3.5.0' dh_fixperms -i -O--buildsystem=pybuild find debian/python3-deeptools ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-deeptools/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-deeptools/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-deeptools/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-deeptools -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-deeptools/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-deeptools/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -i -O--buildsystem=pybuild dh_installdeb -i -O--buildsystem=pybuild install -d debian/python3-deeptools/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-deeptools/DEBIAN/postinst cat debian/python3-deeptools.postinst.debhelper >> debian/python3-deeptools/DEBIAN/postinst chmod 0755 -- debian/python3-deeptools/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-deeptools/DEBIAN/prerm cat debian/python3-deeptools.prerm.debhelper >> debian/python3-deeptools/DEBIAN/prerm chmod 0755 -- debian/python3-deeptools/DEBIAN/prerm dh_gencontrol -i -O--buildsystem=pybuild echo misc:Depends= >> debian/python3-deeptools.substvars echo misc:Pre-Depends= >> debian/python3-deeptools.substvars dpkg-gencontrol -ppython3-deeptools -ldebian/changelog -Tdebian/python3-deeptools.substvars -Pdebian/python3-deeptools chmod 0644 -- debian/python3-deeptools/DEBIAN/control dh_md5sums -i -O--buildsystem=pybuild cd debian/python3-deeptools >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/python3-deeptools/DEBIAN/md5sums dh_builddeb -i -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-deeptools .. dpkg-deb: building package 'python3-deeptools' in '../python3-deeptools_3.5.0-1_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../python-deeptools_3.5.0-1_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-source: info: using options from python-deeptools-3.5.0/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/python-deeptools-gv9wEp /tmp/python-deeptools-3.5.0-1f6go5zyr I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.SZ6eO5it_F... I: success in 542.2081 seconds md5: python3-deeptools_3.5.0-1_all.deb: OK sha1: python3-deeptools_3.5.0-1_all.deb: OK sha256: python3-deeptools_3.5.0-1_all.deb: OK Checksums: OK