python-pybedtools →
0.7.10-2 →
armhf → 2018-06-24 12:19:35
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-02
+==============================================================================+
| python-pybedtools 0.7.10-2 (armhf) Sun, 24 Jun 2018 11:42:58 +0000 |
+==============================================================================+
Package: python-pybedtools
Version: 0.7.10-2
Source Version: 0.7.10-2
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-ad1263d2-992d-4b34-bfa9-3f14a0553f1e' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [10.8 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.6 MB]
Fetched 23.4 MB in 26s (886 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'python-pybedtools' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/python-pybedtools.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/python-pybedtools.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 12.5 MB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main python-pybedtools 0.7.10-2 (dsc) [2316 B]
Get:2 http://172.17.0.1/private buster-staging/main python-pybedtools 0.7.10-2 (tar) [12.4 MB]
Get:3 http://172.17.0.1/private buster-staging/main python-pybedtools 0.7.10-2 (diff) [28.7 kB]
Fetched 12.5 MB in 1s (9872 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/python-pybedtools-OnjI8l/python-pybedtools-0.7.10' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/python-pybedtools-OnjI8l' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-V4IjSF/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-V4IjSF/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-V4IjSF/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Packages [435 B]
Fetched 2111 B in 1s (2822 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n libexpat1
libnss-systemd libpam-systemd libsasl2-modules libssl1.1 openssl
systemd-sysv
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 19 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15728 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 10), dh-python, bedtools, python3, python3-all-dev, python3-setuptools, python3-pysam, python3-matplotlib, python3-nose, python3-numpy, python3-numpydoc, python3-pandas, python3-yaml, python3-tk, python3-sphinx, cython, r-base-core, zlib1g-dev
Filtered Build-Depends: debhelper (>= 10), dh-python, bedtools, python3, python3-all-dev, python3-setuptools, python3-pysam, python3-matplotlib, python3-nose, python3-numpy, python3-numpydoc, python3-pandas, python3-yaml, python3-tk, python3-sphinx, cython, r-base-core, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-python-pybedtools-dummy' in '/<<BUILDDIR>>/resolver-V4IjSF/apt_archive/sbuild-build-depends-python-pybedtools-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-python-pybedtools-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Sources [588 B]
Get:5 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ Packages [672 B]
Fetched 2593 B in 1s (3777 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install python-pybedtools build dependencies (apt-based resolver)
-----------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
dbus dbus-user-session e2fsprogs-l10n libnss-systemd libpam-systemd
libsasl2-modules systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bedtools blt bsdmainutils cython
debhelper dh-autoreconf dh-python dh-strip-nondeterminism docutils-common
dwz file fontconfig fontconfig-config fonts-lyx gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libblas3 libbsd0 libcairo2
libcroco3 libcurl3-gnutls libcurl4 libdatrie1 libelf1 libexpat1-dev
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
libgfortran4 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b
libhts2 libice6 libicu-le-hb0 libicu60 libjbig0 libjpeg62-turbo libjs-jquery
libjs-jquery-ui libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1
libkrb5-3 libkrb5support0 liblapack3 libmagic-mgc libmagic1 libmpdec2
libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpsl5 libpython-stdlib
libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib
libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.6
libpython3.6-dev libpython3.6-minimal libpython3.6-stdlib librtmp1
libsigsegv2 libsm6 libssh2-1 libtcl8.6 libthai-data libthai0 libtiff5
libtimedate-perl libtk8.6 libtool libx11-6 libx11-data libxau6
libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2
libxrender1 libxss1 libxt6 libyaml-0-2 m4 man-db mime-support po-debconf
python python-babel-localedata python-matplotlib-data python-minimal python2
python2-minimal python2.7 python2.7-minimal python3 python3-alabaster
python3-all python3-all-dev python3-babel python3-certifi python3-chardet
python3-cycler python3-dateutil python3-dev python3-distutils
python3-docutils python3-idna python3-imagesize python3-jinja2
python3-kiwisolver python3-lib2to3 python3-markupsafe python3-matplotlib
python3-minimal python3-nose python3-numpy python3-numpydoc
python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources
python3-pygments python3-pyparsing python3-pysam python3-requests
python3-roman python3-setuptools python3-six python3-sphinx python3-tk
python3-tz python3-urllib3 python3-yaml python3.6 python3.6-dev
python3.6-minimal r-base-core sgml-base sphinx-common tk8.6-blt2.5
ttf-bitstream-vera ucf unzip x11-common xdg-utils xml-core zip zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc blt-demo wamerican | wordlist
whois vacation cython-doc dh-make gettext-doc libasprintf-dev
libgettextpo-dev groff krb5-doc krb5-user libjs-jquery-ui-docs tcl8.6 tk8.6
libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less
www-browser libmail-box-perl python-doc python-tk python2-doc python2.7-doc
binfmt-support python3-doc python3-venv python-cycler-doc docutils-doc
fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french
texlive-latex-base texlive-latex-recommended python-jinja2-doc dvipng ffmpeg
gir1.2-gtk-3.0 ghostscript inkscape ipython3 librsvg2-common
python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo
python3-gobject python3-pyqt4 python3-scipy python3-sip python3-tornado
texlive-extra-utils texlive-latex-extra ttf-staypuft python-nose-doc
gfortran python-numpy-doc python3-numpy-dbg python-pandas-doc
python-pyparsing-doc python3-cryptography python3-openssl python3-socks
python-setuptools-doc python3-sphinx-rtd-theme libjs-mathjax
texlive-fonts-recommended texlive-generic-extra latexmk imagemagick-6.q16
sphinx-doc tix python3-tk-dbg python3.6-venv python3.6-doc ess r-doc-info
| r-doc-pdf r-mathlib r-base-html sgml-base-doc
Recommended packages:
python-dev curl | wget | lynx libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs javascript-common krb5-locales publicsuffix
libltdl-dev libmail-sendmail-perl python3-pil python3-scipy python3-numexpr
python3-tables python3-bs4 python3-html5lib python3-lxml r-recommended
r-base-dev r-doc-html libfile-mimeinfo-perl libnet-dbus-perl
libx11-protocol-perl x11-utils x11-xserver-utils
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bedtools blt bsdmainutils cython
debhelper dh-autoreconf dh-python dh-strip-nondeterminism docutils-common
dwz file fontconfig fontconfig-config fonts-lyx gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libblas3 libbsd0 libcairo2
libcroco3 libcurl3-gnutls libcurl4 libdatrie1 libelf1 libexpat1-dev
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
libgfortran4 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b
libhts2 libice6 libicu-le-hb0 libicu60 libjbig0 libjpeg62-turbo libjs-jquery
libjs-jquery-ui libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1
libkrb5-3 libkrb5support0 liblapack3 libmagic-mgc libmagic1 libmpdec2
libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpsl5 libpython-stdlib
libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib
libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.6
libpython3.6-dev libpython3.6-minimal libpython3.6-stdlib librtmp1
libsigsegv2 libsm6 libssh2-1 libtcl8.6 libthai-data libthai0 libtiff5
libtimedate-perl libtk8.6 libtool libx11-6 libx11-data libxau6
libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2
libxrender1 libxss1 libxt6 libyaml-0-2 m4 man-db mime-support po-debconf
python python-babel-localedata python-matplotlib-data python-minimal python2
python2-minimal python2.7 python2.7-minimal python3 python3-alabaster
python3-all python3-all-dev python3-babel python3-certifi python3-chardet
python3-cycler python3-dateutil python3-dev python3-distutils
python3-docutils python3-idna python3-imagesize python3-jinja2
python3-kiwisolver python3-lib2to3 python3-markupsafe python3-matplotlib
python3-minimal python3-nose python3-numpy python3-numpydoc
python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources
python3-pygments python3-pyparsing python3-pysam python3-requests
python3-roman python3-setuptools python3-six python3-sphinx python3-tk
python3-tz python3-urllib3 python3-yaml python3.6 python3.6-dev
python3.6-minimal r-base-core sbuild-build-depends-python-pybedtools-dummy
sgml-base sphinx-common tk8.6-blt2.5 ttf-bitstream-vera ucf unzip x11-common
xdg-utils xml-core zip zlib1g-dev
0 upgraded, 171 newly installed, 0 to remove and 19 not upgraded.
Need to get 134 MB/137 MB of archives.
After this operation, 377 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-V4IjSF/apt_archive ./ sbuild-build-depends-python-pybedtools-dummy 0.invalid.0 [956 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.9.1-1 [104 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-10 [1005 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.0-1 [24.6 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.3-2 [1146 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libx11-data all 2:1.6.5-1 [292 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libx11-6 armhf 2:1.6.5-1 [683 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libpython2.7-minimal armhf 2.7.15-1 [393 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf python2.7-minimal armhf 2.7.15-1 [1077 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf python2-minimal armhf 2.7.15-3 [41.3 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf python-minimal armhf 2.7.15-3 [20.9 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf mime-support all 3.61 [37.1 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libpython2.7-stdlib armhf 2.7.15-1 [1841 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf python2.7 armhf 2.7.15-1 [298 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf libpython2-stdlib armhf 2.7.15-3 [20.7 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf libpython-stdlib armhf 2.7.15-3 [20.7 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf python2 armhf 2.7.15-3 [41.5 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf python armhf 2.7.15-3 [22.7 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf libpython3.6-minimal armhf 3.6.6~rc1-4 [565 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf python3.6-minimal armhf 3.6.6~rc1-4 [1381 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf python3-minimal armhf 3.6.5-3 [36.2 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf libmpdec2 armhf 2.4.2-2 [67.2 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf libpython3.6-stdlib armhf 3.6.6~rc1-4 [1637 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf python3.6 armhf 3.6.6~rc1-4 [234 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libpython3-stdlib armhf 3.6.5-3 [19.7 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf python3 armhf 3.6.5-3 [24.1 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf sgml-base all 1.29 [14.8 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.33-3 [234 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.33-3 [106 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.33-3 [64.7 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-6 [117 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.15.1-3.1 [736 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-6 [434 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf bedtools armhf 2.26.0+dfsg-5 [476 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf libtcl8.6 armhf 8.6.8+dfsg-4 [863 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf ttf-bitstream-vera all 1.10-8 [352 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf fontconfig-config all 2.13.0-5 [280 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf libfontconfig1 armhf 2.13.0-5 [325 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libxft2 armhf 2.3.2-2 [49.3 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf libtk8.6 armhf 8.6.8-4 [657 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-4 [468 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf blt armhf 2.5.3+dfsg-4 [14.8 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf cython armhf 0.26.1-0.4 [1747 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-2.1 [547 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.60-1 [95.6 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.042-1 [20.1 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.042-1 [12.1 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.170-0.4 [160 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-2 [67.4 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.56.1-2 [2754 kB]
Get:58 http://172.17.0.1/private buster-staging/main armhf libharfbuzz0b armhf 1.7.6-1+b1 [799 kB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libicu-le-hb0 armhf 1.0.3+git161113-5 [12.8 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf libicu60 armhf 60.2-6 [7789 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-7 [602 kB]
Get:62 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-6 [1218 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf debhelper all 11.3.2 [994 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf dh-python all 3.20180326 [93.2 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf xml-core all 0.18 [23.4 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf docutils-common all 0.14+dfsg-3 [204 kB]
Get:69 http://172.17.0.1/private buster-staging/main armhf fontconfig armhf 2.13.0-5 [403 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf fonts-lyx all 2.3.0-2 [198 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf libgfortran4 armhf 7.3.0-19 [191 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf libblas3 armhf 3.8.0-1 [103 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf libcairo2 armhf 1.15.10-3 [575 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf libnghttp2-14 armhf 1.32.0-1 [71.7 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf libpsl5 armhf 0.20.2-1 [52.5 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2 [54.0 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf libcurl3-gnutls armhf 7.60.0-2 [279 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf libcurl4 armhf 7.60.0-2 [281 kB]
Get:79 http://172.17.0.1/private buster-staging/main armhf libdatrie1 armhf 0.2.12-1 [35.8 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libfribidi0 armhf 0.19.7-2 [44.1 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libhts2 armhf 1.7-2 [259 kB]
Get:82 http://172.17.0.1/private buster-staging/main armhf libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB]
Get:83 http://172.17.0.1/private buster-staging/main armhf libjs-underscore all 1.8.3~dfsg-1 [63.8 kB]
Get:84 http://172.17.0.1/private buster-staging/main armhf libjs-sphinxdoc all 1.7.5-3 [90.5 kB]
Get:85 http://172.17.0.1/private buster-staging/main armhf liblapack3 armhf 3.8.0-1 [1518 kB]
Get:86 http://172.17.0.1/private buster-staging/main armhf libpango-1.0-0 armhf 1.42.0-1 [158 kB]
Get:87 http://172.17.0.1/private buster-staging/main armhf libpangoft2-1.0-0 armhf 1.42.0-1 [53.2 kB]
Get:88 http://172.17.0.1/private buster-staging/main armhf libpangocairo-1.0-0 armhf 1.42.0-1 [43.3 kB]
Get:89 http://172.17.0.1/private buster-staging/main armhf libpaper1 armhf 1.1.24+nmu5 [20.8 kB]
Get:90 http://172.17.0.1/private buster-staging/main armhf libpaper-utils armhf 1.1.24+nmu5 [17.2 kB]
Get:91 http://172.17.0.1/private buster-staging/main armhf libpython3.6 armhf 3.6.6~rc1-4 [1185 kB]
Get:92 http://172.17.0.1/private buster-staging/main armhf libpython3.6-dev armhf 3.6.6~rc1-4 [43.7 MB]
Get:93 http://172.17.0.1/private buster-staging/main armhf libpython3-dev armhf 3.6.5-3 [19.7 kB]
Get:94 http://172.17.0.1/private buster-staging/main armhf libpython3-all-dev armhf 3.6.5-3 [1064 B]
Get:95 http://172.17.0.1/private buster-staging/main armhf libtiff5 armhf 4.0.9-5 [224 kB]
Get:96 http://172.17.0.1/private buster-staging/main armhf libyaml-0-2 armhf 0.1.7-2 [39.9 kB]
Get:97 http://172.17.0.1/private buster-staging/main armhf python-babel-localedata all 2.4.0+dfsg.1-2 [3415 kB]
Get:98 http://172.17.0.1/private buster-staging/main armhf python-matplotlib-data all 2.2.2-4 [4123 kB]
Get:99 http://172.17.0.1/private buster-staging/main armhf python3-lib2to3 all 3.6.6~rc1-3 [79.1 kB]
Get:100 http://172.17.0.1/private buster-staging/main armhf python3-distutils all 3.6.6~rc1-3 [144 kB]
Get:101 http://172.17.0.1/private buster-staging/main armhf python3-all armhf 3.6.5-3 [1064 B]
Get:102 http://172.17.0.1/private buster-staging/main armhf python3.6-dev armhf 3.6.6~rc1-4 [508 kB]
Get:103 http://172.17.0.1/private buster-staging/main armhf python3-dev armhf 3.6.5-3 [1268 B]
Get:104 http://172.17.0.1/private buster-staging/main armhf python3-all-dev armhf 3.6.5-3 [1064 B]
Get:105 http://172.17.0.1/private buster-staging/main armhf python3-pkg-resources all 39.2.0-1 [142 kB]
Get:106 http://172.17.0.1/private buster-staging/main armhf python3-tz all 2018.4-1 [26.9 kB]
Get:107 http://172.17.0.1/private buster-staging/main armhf python3-babel all 2.4.0+dfsg.1-2 [83.7 kB]
Get:108 http://172.17.0.1/private buster-staging/main armhf python3-certifi all 2018.1.18-3 [144 kB]
Get:109 http://172.17.0.1/private buster-staging/main armhf python3-chardet all 3.0.4-1 [80.2 kB]
Get:110 http://172.17.0.1/private buster-staging/main armhf python3-six all 1.11.0-2 [15.2 kB]
Get:111 http://172.17.0.1/private buster-staging/main armhf python3-cycler all 0.10.0-1 [7556 B]
Get:112 http://172.17.0.1/private buster-staging/main armhf python3-dateutil all 2.6.1-1 [52.8 kB]
Get:113 http://172.17.0.1/private buster-staging/main armhf python3-roman all 2.0.0-3 [8768 B]
Get:114 http://172.17.0.1/private buster-staging/main armhf python3-docutils all 0.14+dfsg-3 [377 kB]
Get:115 http://172.17.0.1/private buster-staging/main armhf python3-idna all 2.6-1 [34.3 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf python3-imagesize all 1.0.0-1 [4960 B]
Get:117 http://172.17.0.1/private buster-staging/main armhf python3-markupsafe armhf 1.0-1+b1 [14.1 kB]
Get:118 http://172.17.0.1/private buster-staging/main armhf python3-jinja2 all 2.10-1 [106 kB]
Get:119 http://172.17.0.1/private buster-staging/main armhf python3-kiwisolver armhf 1.0.1-2 [56.2 kB]
Get:120 http://172.17.0.1/private buster-staging/main armhf python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB]
Get:121 http://172.17.0.1/private buster-staging/main armhf python3-numpy armhf 1:1.14.4-1 [1785 kB]
Get:122 http://172.17.0.1/private buster-staging/main armhf python3-matplotlib armhf 2.2.2-4 [4996 kB]
Get:123 http://172.17.0.1/private buster-staging/main armhf python3-nose all 1.3.7-4 [132 kB]
Get:124 http://172.17.0.1/private buster-staging/main armhf python3-pygments all 2.2.0+dfsg-1 [588 kB]
Get:125 http://172.17.0.1/private buster-staging/main armhf python3-alabaster all 0.7.8-1 [18.4 kB]
Get:126 http://172.17.0.1/private buster-staging/main armhf python3-urllib3 all 1.22-1 [97.9 kB]
Get:127 http://172.17.0.1/private buster-staging/main armhf python3-requests all 2.18.4-2 [77.1 kB]
Get:128 http://172.17.0.1/private buster-staging/main armhf python3-packaging all 17.1-1 [18.3 kB]
Get:129 http://172.17.0.1/private buster-staging/main armhf sphinx-common all 1.7.5-3 [435 kB]
Get:130 http://172.17.0.1/private buster-staging/main armhf python3-sphinx all 1.7.5-3 [446 kB]
Get:131 http://172.17.0.1/private buster-staging/main armhf python3-numpydoc all 0.7.0-1 [18.3 kB]
Get:132 http://172.17.0.1/private buster-staging/main armhf python3-pandas-lib armhf 0.22.0-8 [2574 kB]
Get:133 http://172.17.0.1/private buster-staging/main armhf python3-pandas all 0.22.0-8 [2777 kB]
Get:134 http://172.17.0.1/private buster-staging/main armhf python3-pysam armhf 0.14+ds-2+rpi1 [1406 kB]
Get:135 http://172.17.0.1/private buster-staging/main armhf python3-setuptools all 39.2.0-1 [292 kB]
Get:136 http://172.17.0.1/private buster-staging/main armhf python3-tk armhf 3.6.6~rc1-3 [98.1 kB]
Get:137 http://172.17.0.1/private buster-staging/main armhf python3-yaml armhf 3.12-1+b1 [146 kB]
Get:138 http://172.17.0.1/private buster-staging/main armhf zip armhf 3.0-11 [212 kB]
Get:139 http://172.17.0.1/private buster-staging/main armhf unzip armhf 6.0-21 [149 kB]
Get:140 http://172.17.0.1/private buster-staging/main armhf xdg-utils all 1.1.3-1 [73.3 kB]
Get:141 http://172.17.0.1/private buster-staging/main armhf r-base-core armhf 3.5.0-5 [23.6 MB]
Get:142 http://172.17.0.1/private buster-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 134 MB in 13s (10.2 MB/s)
Selecting previously unselected package libbsd0:armhf.
(Reading database ... 15728 files and directories currently installed.)
Preparing to unpack .../00-libbsd0_0.9.1-1_armhf.deb ...
Unpacking libbsd0:armhf (0.9.1-1) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../01-bsdmainutils_11.1.2_armhf.deb ...
Unpacking bsdmainutils (11.1.2) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../02-groff-base_1.22.3-10_armhf.deb ...
Unpacking groff-base (1.22.3-10) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../03-libpipeline1_1.5.0-1_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.0-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../04-man-db_2.8.3-2_armhf.deb ...
Unpacking man-db (2.8.3-2) ...
Selecting previously unselected package libxau6:armhf.
Preparing to unpack .../05-libxau6_1%3a1.0.8-1+b2_armhf.deb ...
Unpacking libxau6:armhf (1:1.0.8-1+b2) ...
Selecting previously unselected package libxdmcp6:armhf.
Preparing to unpack .../06-libxdmcp6_1%3a1.1.2-3_armhf.deb ...
Unpacking libxdmcp6:armhf (1:1.1.2-3) ...
Selecting previously unselected package libxcb1:armhf.
Preparing to unpack .../07-libxcb1_1.13-1_armhf.deb ...
Unpacking libxcb1:armhf (1.13-1) ...
Selecting previously unselected package libx11-data.
Preparing to unpack .../08-libx11-data_2%3a1.6.5-1_all.deb ...
Unpacking libx11-data (2:1.6.5-1) ...
Selecting previously unselected package libx11-6:armhf.
Preparing to unpack .../09-libx11-6_2%3a1.6.5-1_armhf.deb ...
Unpacking libx11-6:armhf (2:1.6.5-1) ...
Selecting previously unselected package libxext6:armhf.
Preparing to unpack .../10-libxext6_2%3a1.3.3-1+b2_armhf.deb ...
Unpacking libxext6:armhf (2:1.3.3-1+b2) ...
Selecting previously unselected package x11-common.
Preparing to unpack .../11-x11-common_1%3a7.7+19_all.deb ...
Unpacking x11-common (1:7.7+19) ...
Selecting previously unselected package libxss1:armhf.
Preparing to unpack .../12-libxss1_1%3a1.2.2-1_armhf.deb ...
Unpacking libxss1:armhf (1:1.2.2-1) ...
Selecting previously unselected package libpython2.7-minimal:armhf.
Preparing to unpack .../13-libpython2.7-minimal_2.7.15-1_armhf.deb ...
Unpacking libpython2.7-minimal:armhf (2.7.15-1) ...
Selecting previously unselected package python2.7-minimal.
Preparing to unpack .../14-python2.7-minimal_2.7.15-1_armhf.deb ...
Unpacking python2.7-minimal (2.7.15-1) ...
Selecting previously unselected package python2-minimal.
Preparing to unpack .../15-python2-minimal_2.7.15-3_armhf.deb ...
Unpacking python2-minimal (2.7.15-3) ...
Selecting previously unselected package python-minimal.
Preparing to unpack .../16-python-minimal_2.7.15-3_armhf.deb ...
Unpacking python-minimal (2.7.15-3) ...
Selecting previously unselected package mime-support.
Preparing to unpack .../17-mime-support_3.61_all.deb ...
Unpacking mime-support (3.61) ...
Selecting previously unselected package libpython2.7-stdlib:armhf.
Preparing to unpack .../18-libpython2.7-stdlib_2.7.15-1_armhf.deb ...
Unpacking libpython2.7-stdlib:armhf (2.7.15-1) ...
Selecting previously unselected package python2.7.
Preparing to unpack .../19-python2.7_2.7.15-1_armhf.deb ...
Unpacking python2.7 (2.7.15-1) ...
Selecting previously unselected package libpython2-stdlib:armhf.
Preparing to unpack .../20-libpython2-stdlib_2.7.15-3_armhf.deb ...
Unpacking libpython2-stdlib:armhf (2.7.15-3) ...
Selecting previously unselected package libpython-stdlib:armhf.
Preparing to unpack .../21-libpython-stdlib_2.7.15-3_armhf.deb ...
Unpacking libpython-stdlib:armhf (2.7.15-3) ...
Setting up libpython2.7-minimal:armhf (2.7.15-1) ...
Setting up python2.7-minimal (2.7.15-1) ...
Setting up python2-minimal (2.7.15-3) ...
Selecting previously unselected package python2.
(Reading database ... 17434 files and directories currently installed.)
Preparing to unpack .../python2_2.7.15-3_armhf.deb ...
Unpacking python2 (2.7.15-3) ...
Setting up python-minimal (2.7.15-3) ...
Selecting previously unselected package python.
(Reading database ... 17467 files and directories currently installed.)
Preparing to unpack .../0-python_2.7.15-3_armhf.deb ...
Unpacking python (2.7.15-3) ...
Selecting previously unselected package libpython3.6-minimal:armhf.
Preparing to unpack .../1-libpython3.6-minimal_3.6.6~rc1-4_armhf.deb ...
Unpacking libpython3.6-minimal:armhf (3.6.6~rc1-4) ...
Selecting previously unselected package python3.6-minimal.
Preparing to unpack .../2-python3.6-minimal_3.6.6~rc1-4_armhf.deb ...
Unpacking python3.6-minimal (3.6.6~rc1-4) ...
Selecting previously unselected package python3-minimal.
Preparing to unpack .../3-python3-minimal_3.6.5-3_armhf.deb ...
Unpacking python3-minimal (3.6.5-3) ...
Selecting previously unselected package libmpdec2:armhf.
Preparing to unpack .../4-libmpdec2_2.4.2-2_armhf.deb ...
Unpacking libmpdec2:armhf (2.4.2-2) ...
Selecting previously unselected package libpython3.6-stdlib:armhf.
Preparing to unpack .../5-libpython3.6-stdlib_3.6.6~rc1-4_armhf.deb ...
Unpacking libpython3.6-stdlib:armhf (3.6.6~rc1-4) ...
Selecting previously unselected package python3.6.
Preparing to unpack .../6-python3.6_3.6.6~rc1-4_armhf.deb ...
Unpacking python3.6 (3.6.6~rc1-4) ...
Selecting previously unselected package libpython3-stdlib:armhf.
Preparing to unpack .../7-libpython3-stdlib_3.6.5-3_armhf.deb ...
Unpacking libpython3-stdlib:armhf (3.6.5-3) ...
Setting up libpython3.6-minimal:armhf (3.6.6~rc1-4) ...
Setting up python3.6-minimal (3.6.6~rc1-4) ...
Setting up python3-minimal (3.6.5-3) ...
Selecting previously unselected package python3.
(Reading database ... 18119 files and directories currently installed.)
Preparing to unpack .../000-python3_3.6.5-3_armhf.deb ...
Unpacking python3 (3.6.5-3) ...
Selecting previously unselected package sgml-base.
Preparing to unpack .../001-sgml-base_1.29_all.deb ...
Unpacking sgml-base (1.29) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../002-libmagic-mgc_1%3a5.33-3_armhf.deb ...
Unpacking libmagic-mgc (1:5.33-3) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../003-libmagic1_1%3a5.33-3_armhf.deb ...
Unpacking libmagic1:armhf (1:5.33-3) ...
Selecting previously unselected package file.
Preparing to unpack .../004-file_1%3a5.33-3_armhf.deb ...
Unpacking file (1:5.33-3) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../005-gettext-base_0.19.8.1-6_armhf.deb ...
Unpacking gettext-base (0.19.8.1-6) ...
Selecting previously unselected package libkeyutils1:armhf.
Preparing to unpack .../006-libkeyutils1_1.5.9-9.2_armhf.deb ...
Unpacking libkeyutils1:armhf (1.5.9-9.2) ...
Selecting previously unselected package ucf.
Preparing to unpack .../007-ucf_3.0038_all.deb ...
Moving old data out of the way
Unpacking ucf (3.0038) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../008-libsigsegv2_2.12-2_armhf.deb ...
Unpacking libsigsegv2:armhf (2.12-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../009-m4_1.4.18-1_armhf.deb ...
Unpacking m4 (1.4.18-1) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../010-autoconf_2.69-11_all.deb ...
Unpacking autoconf (2.69-11) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../011-autotools-dev_20180224.1_all.deb ...
Unpacking autotools-dev (20180224.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../012-automake_1%3a1.15.1-3.1_all.deb ...
Unpacking automake (1:1.15.1-3.1) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../013-autopoint_0.19.8.1-6_all.deb ...
Unpacking autopoint (0.19.8.1-6) ...
Selecting previously unselected package bedtools.
Preparing to unpack .../014-bedtools_2.26.0+dfsg-5_armhf.deb ...
Unpacking bedtools (2.26.0+dfsg-5) ...
Selecting previously unselected package libtcl8.6:armhf.
Preparing to unpack .../015-libtcl8.6_8.6.8+dfsg-4_armhf.deb ...
Unpacking libtcl8.6:armhf (8.6.8+dfsg-4) ...
Selecting previously unselected package libfreetype6:armhf.
Preparing to unpack .../016-libfreetype6_2.8.1-2_armhf.deb ...
Unpacking libfreetype6:armhf (2.8.1-2) ...
Selecting previously unselected package ttf-bitstream-vera.
Preparing to unpack .../017-ttf-bitstream-vera_1.10-8_all.deb ...
Unpacking ttf-bitstream-vera (1.10-8) ...
Selecting previously unselected package fontconfig-config.
Preparing to unpack .../018-fontconfig-config_2.13.0-5_all.deb ...
Unpacking fontconfig-config (2.13.0-5) ...
Selecting previously unselected package libfontconfig1:armhf.
Preparing to unpack .../019-libfontconfig1_2.13.0-5_armhf.deb ...
Unpacking libfontconfig1:armhf (2.13.0-5) ...
Selecting previously unselected package libxrender1:armhf.
Preparing to unpack .../020-libxrender1_1%3a0.9.10-1_armhf.deb ...
Unpacking libxrender1:armhf (1:0.9.10-1) ...
Selecting previously unselected package libxft2:armhf.
Preparing to unpack .../021-libxft2_2.3.2-2_armhf.deb ...
Unpacking libxft2:armhf (2.3.2-2) ...
Selecting previously unselected package libtk8.6:armhf.
Preparing to unpack .../022-libtk8.6_8.6.8-4_armhf.deb ...
Unpacking libtk8.6:armhf (8.6.8-4) ...
Selecting previously unselected package tk8.6-blt2.5.
Preparing to unpack .../023-tk8.6-blt2.5_2.5.3+dfsg-4_armhf.deb ...
Unpacking tk8.6-blt2.5 (2.5.3+dfsg-4) ...
Selecting previously unselected package blt.
Preparing to unpack .../024-blt_2.5.3+dfsg-4_armhf.deb ...
Unpacking blt (2.5.3+dfsg-4) ...
Selecting previously unselected package cython.
Preparing to unpack .../025-cython_0.26.1-0.4_armhf.deb ...
Unpacking cython (0.26.1-0.4) ...
Selecting previously unselected package libtool.
Preparing to unpack .../026-libtool_2.4.6-2.1_all.deb ...
Unpacking libtool (2.4.6-2.1) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../027-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../028-libarchive-zip-perl_1.60-1_all.deb ...
Unpacking libarchive-zip-perl (1.60-1) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../029-libfile-stripnondeterminism-perl_0.042-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (0.042-1) ...
Selecting previously unselected package libtimedate-perl.
Preparing to unpack .../030-libtimedate-perl_2.3000-2_all.deb ...
Unpacking libtimedate-perl (2.3000-2) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../031-dh-strip-nondeterminism_0.042-1_all.deb ...
Unpacking dh-strip-nondeterminism (0.042-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../032-libelf1_0.170-0.4_armhf.deb ...
Unpacking libelf1:armhf (0.170-0.4) ...
Selecting previously unselected package dwz.
Preparing to unpack .../033-dwz_0.12-2_armhf.deb ...
Unpacking dwz (0.12-2) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../034-libglib2.0-0_2.56.1-2_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.56.1-2) ...
Selecting previously unselected package libgraphite2-3:armhf.
Preparing to unpack .../035-libgraphite2-3_1.3.11-2_armhf.deb ...
Unpacking libgraphite2-3:armhf (1.3.11-2) ...
Selecting previously unselected package libharfbuzz0b:armhf.
Preparing to unpack .../036-libharfbuzz0b_1.7.6-1+b1_armhf.deb ...
Unpacking libharfbuzz0b:armhf (1.7.6-1+b1) ...
Selecting previously unselected package libicu-le-hb0:armhf.
Preparing to unpack .../037-libicu-le-hb0_1.0.3+git161113-5_armhf.deb ...
Unpacking libicu-le-hb0:armhf (1.0.3+git161113-5) ...
Selecting previously unselected package libicu60:armhf.
Preparing to unpack .../038-libicu60_60.2-6_armhf.deb ...
Unpacking libicu60:armhf (60.2-6) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../039-libxml2_2.9.4+dfsg1-7_armhf.deb ...
Unpacking libxml2:armhf (2.9.4+dfsg1-7) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../040-libcroco3_0.6.12-2_armhf.deb ...
Unpacking libcroco3:armhf (0.6.12-2) ...
Selecting previously unselected package gettext.
Preparing to unpack .../041-gettext_0.19.8.1-6_armhf.deb ...
Unpacking gettext (0.19.8.1-6) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../042-intltool-debian_0.35.0+20060710.4_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.4) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../043-po-debconf_1.0.20_all.deb ...
Unpacking po-debconf (1.0.20) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../044-debhelper_11.3.2_all.deb ...
Unpacking debhelper (11.3.2) ...
Selecting previously unselected package dh-python.
Preparing to unpack .../045-dh-python_3.20180326_all.deb ...
Unpacking dh-python (3.20180326) ...
Selecting previously unselected package xml-core.
Preparing to unpack .../046-xml-core_0.18_all.deb ...
Unpacking xml-core (0.18) ...
Selecting previously unselected package docutils-common.
Preparing to unpack .../047-docutils-common_0.14+dfsg-3_all.deb ...
Unpacking docutils-common (0.14+dfsg-3) ...
Selecting previously unselected package fontconfig.
Preparing to unpack .../048-fontconfig_2.13.0-5_armhf.deb ...
Unpacking fontconfig (2.13.0-5) ...
Selecting previously unselected package fonts-lyx.
Preparing to unpack .../049-fonts-lyx_2.3.0-2_all.deb ...
Unpacking fonts-lyx (2.3.0-2) ...
Selecting previously unselected package libgfortran4:armhf.
Preparing to unpack .../050-libgfortran4_7.3.0-19_armhf.deb ...
Unpacking libgfortran4:armhf (7.3.0-19) ...
Selecting previously unselected package libblas3:armhf.
Preparing to unpack .../051-libblas3_3.8.0-1_armhf.deb ...
Unpacking libblas3:armhf (3.8.0-1) ...
Selecting previously unselected package libpixman-1-0:armhf.
Preparing to unpack .../052-libpixman-1-0_0.34.0-2_armhf.deb ...
Unpacking libpixman-1-0:armhf (0.34.0-2) ...
Selecting previously unselected package libxcb-render0:armhf.
Preparing to unpack .../053-libxcb-render0_1.13-1_armhf.deb ...
Unpacking libxcb-render0:armhf (1.13-1) ...
Selecting previously unselected package libxcb-shm0:armhf.
Preparing to unpack .../054-libxcb-shm0_1.13-1_armhf.deb ...
Unpacking libxcb-shm0:armhf (1.13-1) ...
Selecting previously unselected package libcairo2:armhf.
Preparing to unpack .../055-libcairo2_1.15.10-3_armhf.deb ...
Unpacking libcairo2:armhf (1.15.10-3) ...
Selecting previously unselected package libkrb5support0:armhf.
Preparing to unpack .../056-libkrb5support0_1.16-2_armhf.deb ...
Unpacking libkrb5support0:armhf (1.16-2) ...
Selecting previously unselected package libk5crypto3:armhf.
Preparing to unpack .../057-libk5crypto3_1.16-2_armhf.deb ...
Unpacking libk5crypto3:armhf (1.16-2) ...
Selecting previously unselected package libkrb5-3:armhf.
Preparing to unpack .../058-libkrb5-3_1.16-2_armhf.deb ...
Unpacking libkrb5-3:armhf (1.16-2) ...
Selecting previously unselected package libgssapi-krb5-2:armhf.
Preparing to unpack .../059-libgssapi-krb5-2_1.16-2_armhf.deb ...
Unpacking libgssapi-krb5-2:armhf (1.16-2) ...
Selecting previously unselected package libnghttp2-14:armhf.
Preparing to unpack .../060-libnghttp2-14_1.32.0-1_armhf.deb ...
Unpacking libnghttp2-14:armhf (1.32.0-1) ...
Selecting previously unselected package libpsl5:armhf.
Preparing to unpack .../061-libpsl5_0.20.2-1_armhf.deb ...
Unpacking libpsl5:armhf (0.20.2-1) ...
Selecting previously unselected package librtmp1:armhf.
Preparing to unpack .../062-librtmp1_2.4+20151223.gitfa8646d.1-2_armhf.deb ...
Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2) ...
Selecting previously unselected package libssh2-1:armhf.
Preparing to unpack .../063-libssh2-1_1.8.0-1_armhf.deb ...
Unpacking libssh2-1:armhf (1.8.0-1) ...
Selecting previously unselected package libcurl3-gnutls:armhf.
Preparing to unpack .../064-libcurl3-gnutls_7.60.0-2_armhf.deb ...
Unpacking libcurl3-gnutls:armhf (7.60.0-2) ...
Selecting previously unselected package libcurl4:armhf.
Preparing to unpack .../065-libcurl4_7.60.0-2_armhf.deb ...
Unpacking libcurl4:armhf (7.60.0-2) ...
Selecting previously unselected package libdatrie1:armhf.
Preparing to unpack .../066-libdatrie1_0.2.12-1_armhf.deb ...
Unpacking libdatrie1:armhf (0.2.12-1) ...
Selecting previously unselected package libexpat1-dev:armhf.
Preparing to unpack .../067-libexpat1-dev_2.2.5-3_armhf.deb ...
Unpacking libexpat1-dev:armhf (2.2.5-3) ...
Selecting previously unselected package libfribidi0:armhf.
Preparing to unpack .../068-libfribidi0_0.19.7-2_armhf.deb ...
Unpacking libfribidi0:armhf (0.19.7-2) ...
Selecting previously unselected package libhts2:armhf.
Preparing to unpack .../069-libhts2_1.7-2_armhf.deb ...
Unpacking libhts2:armhf (1.7-2) ...
Selecting previously unselected package libice6:armhf.
Preparing to unpack .../070-libice6_2%3a1.0.9-2_armhf.deb ...
Unpacking libice6:armhf (2:1.0.9-2) ...
Selecting previously unselected package libjbig0:armhf.
Preparing to unpack .../071-libjbig0_2.1-3.1+b2_armhf.deb ...
Unpacking libjbig0:armhf (2.1-3.1+b2) ...
Selecting previously unselected package libjpeg62-turbo:armhf.
Preparing to unpack .../072-libjpeg62-turbo_1%3a1.5.2-2+b1_armhf.deb ...
Unpacking libjpeg62-turbo:armhf (1:1.5.2-2+b1) ...
Selecting previously unselected package libjs-jquery.
Preparing to unpack .../073-libjs-jquery_3.2.1-1_all.deb ...
Unpacking libjs-jquery (3.2.1-1) ...
Selecting previously unselected package libjs-jquery-ui.
Preparing to unpack .../074-libjs-jquery-ui_1.12.1+dfsg-5_all.deb ...
Unpacking libjs-jquery-ui (1.12.1+dfsg-5) ...
Selecting previously unselected package libjs-underscore.
Preparing to unpack .../075-libjs-underscore_1.8.3~dfsg-1_all.deb ...
Unpacking libjs-underscore (1.8.3~dfsg-1) ...
Selecting previously unselected package libjs-sphinxdoc.
Preparing to unpack .../076-libjs-sphinxdoc_1.7.5-3_all.deb ...
Unpacking libjs-sphinxdoc (1.7.5-3) ...
Selecting previously unselected package liblapack3:armhf.
Preparing to unpack .../077-liblapack3_3.8.0-1_armhf.deb ...
Unpacking liblapack3:armhf (3.8.0-1) ...
Selecting previously unselected package libthai-data.
Preparing to unpack .../078-libthai-data_0.1.27-2_all.deb ...
Unpacking libthai-data (0.1.27-2) ...
Selecting previously unselected package libthai0:armhf.
Preparing to unpack .../079-libthai0_0.1.27-2_armhf.deb ...
Unpacking libthai0:armhf (0.1.27-2) ...
Selecting previously unselected package libpango-1.0-0:armhf.
Preparing to unpack .../080-libpango-1.0-0_1.42.0-1_armhf.deb ...
Unpacking libpango-1.0-0:armhf (1.42.0-1) ...
Selecting previously unselected package libpangoft2-1.0-0:armhf.
Preparing to unpack .../081-libpangoft2-1.0-0_1.42.0-1_armhf.deb ...
Unpacking libpangoft2-1.0-0:armhf (1.42.0-1) ...
Selecting previously unselected package libpangocairo-1.0-0:armhf.
Preparing to unpack .../082-libpangocairo-1.0-0_1.42.0-1_armhf.deb ...
Unpacking libpangocairo-1.0-0:armhf (1.42.0-1) ...
Selecting previously unselected package libpaper1:armhf.
Preparing to unpack .../083-libpaper1_1.1.24+nmu5_armhf.deb ...
Unpacking libpaper1:armhf (1.1.24+nmu5) ...
Selecting previously unselected package libpaper-utils.
Preparing to unpack .../084-libpaper-utils_1.1.24+nmu5_armhf.deb ...
Unpacking libpaper-utils (1.1.24+nmu5) ...
Selecting previously unselected package libpython3.6:armhf.
Preparing to unpack .../085-libpython3.6_3.6.6~rc1-4_armhf.deb ...
Unpacking libpython3.6:armhf (3.6.6~rc1-4) ...
Selecting previously unselected package libpython3.6-dev:armhf.
Preparing to unpack .../086-libpython3.6-dev_3.6.6~rc1-4_armhf.deb ...
Unpacking libpython3.6-dev:armhf (3.6.6~rc1-4) ...
Selecting previously unselected package libpython3-dev:armhf.
Preparing to unpack .../087-libpython3-dev_3.6.5-3_armhf.deb ...
Unpacking libpython3-dev:armhf (3.6.5-3) ...
Selecting previously unselected package libpython3-all-dev:armhf.
Preparing to unpack .../088-libpython3-all-dev_3.6.5-3_armhf.deb ...
Unpacking libpython3-all-dev:armhf (3.6.5-3) ...
Selecting previously unselected package libsm6:armhf.
Preparing to unpack .../089-libsm6_2%3a1.2.2-1+b3_armhf.deb ...
Unpacking libsm6:armhf (2:1.2.2-1+b3) ...
Selecting previously unselected package libtiff5:armhf.
Preparing to unpack .../090-libtiff5_4.0.9-5_armhf.deb ...
Unpacking libtiff5:armhf (4.0.9-5) ...
Selecting previously unselected package libxt6:armhf.
Preparing to unpack .../091-libxt6_1%3a1.1.5-1_armhf.deb ...
Unpacking libxt6:armhf (1:1.1.5-1) ...
Selecting previously unselected package libyaml-0-2:armhf.
Preparing to unpack .../092-libyaml-0-2_0.1.7-2_armhf.deb ...
Unpacking libyaml-0-2:armhf (0.1.7-2) ...
Selecting previously unselected package python-babel-localedata.
Preparing to unpack .../093-python-babel-localedata_2.4.0+dfsg.1-2_all.deb ...
Unpacking python-babel-localedata (2.4.0+dfsg.1-2) ...
Selecting previously unselected package python-matplotlib-data.
Preparing to unpack .../094-python-matplotlib-data_2.2.2-4_all.deb ...
Unpacking python-matplotlib-data (2.2.2-4) ...
Selecting previously unselected package python3-lib2to3.
Preparing to unpack .../095-python3-lib2to3_3.6.6~rc1-3_all.deb ...
Unpacking python3-lib2to3 (3.6.6~rc1-3) ...
Selecting previously unselected package python3-distutils.
Preparing to unpack .../096-python3-distutils_3.6.6~rc1-3_all.deb ...
Unpacking python3-distutils (3.6.6~rc1-3) ...
Selecting previously unselected package python3-all.
Preparing to unpack .../097-python3-all_3.6.5-3_armhf.deb ...
Unpacking python3-all (3.6.5-3) ...
Selecting previously unselected package python3.6-dev.
Preparing to unpack .../098-python3.6-dev_3.6.6~rc1-4_armhf.deb ...
Unpacking python3.6-dev (3.6.6~rc1-4) ...
Selecting previously unselected package python3-dev.
Preparing to unpack .../099-python3-dev_3.6.5-3_armhf.deb ...
Unpacking python3-dev (3.6.5-3) ...
Selecting previously unselected package python3-all-dev.
Preparing to unpack .../100-python3-all-dev_3.6.5-3_armhf.deb ...
Unpacking python3-all-dev (3.6.5-3) ...
Selecting previously unselected package python3-pkg-resources.
Preparing to unpack .../101-python3-pkg-resources_39.2.0-1_all.deb ...
Unpacking python3-pkg-resources (39.2.0-1) ...
Selecting previously unselected package python3-tz.
Preparing to unpack .../102-python3-tz_2018.4-1_all.deb ...
Unpacking python3-tz (2018.4-1) ...
Selecting previously unselected package python3-babel.
Preparing to unpack .../103-python3-babel_2.4.0+dfsg.1-2_all.deb ...
Unpacking python3-babel (2.4.0+dfsg.1-2) ...
Selecting previously unselected package python3-certifi.
Preparing to unpack .../104-python3-certifi_2018.1.18-3_all.deb ...
Unpacking python3-certifi (2018.1.18-3) ...
Selecting previously unselected package python3-chardet.
Preparing to unpack .../105-python3-chardet_3.0.4-1_all.deb ...
Unpacking python3-chardet (3.0.4-1) ...
Selecting previously unselected package python3-six.
Preparing to unpack .../106-python3-six_1.11.0-2_all.deb ...
Unpacking python3-six (1.11.0-2) ...
Selecting previously unselected package python3-cycler.
Preparing to unpack .../107-python3-cycler_0.10.0-1_all.deb ...
Unpacking python3-cycler (0.10.0-1) ...
Selecting previously unselected package python3-dateutil.
Preparing to unpack .../108-python3-dateutil_2.6.1-1_all.deb ...
Unpacking python3-dateutil (2.6.1-1) ...
Selecting previously unselected package python3-roman.
Preparing to unpack .../109-python3-roman_2.0.0-3_all.deb ...
Unpacking python3-roman (2.0.0-3) ...
Selecting previously unselected package python3-docutils.
Preparing to unpack .../110-python3-docutils_0.14+dfsg-3_all.deb ...
Unpacking python3-docutils (0.14+dfsg-3) ...
Selecting previously unselected package python3-idna.
Preparing to unpack .../111-python3-idna_2.6-1_all.deb ...
Unpacking python3-idna (2.6-1) ...
Selecting previously unselected package python3-imagesize.
Preparing to unpack .../112-python3-imagesize_1.0.0-1_all.deb ...
Unpacking python3-imagesize (1.0.0-1) ...
Selecting previously unselected package python3-markupsafe.
Preparing to unpack .../113-python3-markupsafe_1.0-1+b1_armhf.deb ...
Unpacking python3-markupsafe (1.0-1+b1) ...
Selecting previously unselected package python3-jinja2.
Preparing to unpack .../114-python3-jinja2_2.10-1_all.deb ...
Unpacking python3-jinja2 (2.10-1) ...
Selecting previously unselected package python3-kiwisolver.
Preparing to unpack .../115-python3-kiwisolver_1.0.1-2_armhf.deb ...
Unpacking python3-kiwisolver (1.0.1-2) ...
Selecting previously unselected package python3-pyparsing.
Preparing to unpack .../116-python3-pyparsing_2.2.0+dfsg1-2_all.deb ...
Unpacking python3-pyparsing (2.2.0+dfsg1-2) ...
Selecting previously unselected package python3-numpy.
Preparing to unpack .../117-python3-numpy_1%3a1.14.4-1_armhf.deb ...
Unpacking python3-numpy (1:1.14.4-1) ...
Selecting previously unselected package python3-matplotlib.
Preparing to unpack .../118-python3-matplotlib_2.2.2-4_armhf.deb ...
Unpacking python3-matplotlib (2.2.2-4) ...
Selecting previously unselected package python3-nose.
Preparing to unpack .../119-python3-nose_1.3.7-4_all.deb ...
Unpacking python3-nose (1.3.7-4) ...
Selecting previously unselected package python3-pygments.
Preparing to unpack .../120-python3-pygments_2.2.0+dfsg-1_all.deb ...
Unpacking python3-pygments (2.2.0+dfsg-1) ...
Selecting previously unselected package python3-alabaster.
Preparing to unpack .../121-python3-alabaster_0.7.8-1_all.deb ...
Unpacking python3-alabaster (0.7.8-1) ...
Selecting previously unselected package python3-urllib3.
Preparing to unpack .../122-python3-urllib3_1.22-1_all.deb ...
Unpacking python3-urllib3 (1.22-1) ...
Selecting previously unselected package python3-requests.
Preparing to unpack .../123-python3-requests_2.18.4-2_all.deb ...
Unpacking python3-requests (2.18.4-2) ...
Selecting previously unselected package python3-packaging.
Preparing to unpack .../124-python3-packaging_17.1-1_all.deb ...
Unpacking python3-packaging (17.1-1) ...
Selecting previously unselected package sphinx-common.
Preparing to unpack .../125-sphinx-common_1.7.5-3_all.deb ...
Unpacking sphinx-common (1.7.5-3) ...
Selecting previously unselected package python3-sphinx.
Preparing to unpack .../126-python3-sphinx_1.7.5-3_all.deb ...
Unpacking python3-sphinx (1.7.5-3) ...
Selecting previously unselected package python3-numpydoc.
Preparing to unpack .../127-python3-numpydoc_0.7.0-1_all.deb ...
Unpacking python3-numpydoc (0.7.0-1) ...
Selecting previously unselected package python3-pandas-lib.
Preparing to unpack .../128-python3-pandas-lib_0.22.0-8_armhf.deb ...
Unpacking python3-pandas-lib (0.22.0-8) ...
Selecting previously unselected package python3-pandas.
Preparing to unpack .../129-python3-pandas_0.22.0-8_all.deb ...
Unpacking python3-pandas (0.22.0-8) ...
Selecting previously unselected package python3-pysam.
Preparing to unpack .../130-python3-pysam_0.14+ds-2+rpi1_armhf.deb ...
Unpacking python3-pysam (0.14+ds-2+rpi1) ...
Selecting previously unselected package python3-setuptools.
Preparing to unpack .../131-python3-setuptools_39.2.0-1_all.deb ...
Unpacking python3-setuptools (39.2.0-1) ...
Selecting previously unselected package python3-tk:armhf.
Preparing to unpack .../132-python3-tk_3.6.6~rc1-3_armhf.deb ...
Unpacking python3-tk:armhf (3.6.6~rc1-3) ...
Selecting previously unselected package python3-yaml.
Preparing to unpack .../133-python3-yaml_3.12-1+b1_armhf.deb ...
Unpacking python3-yaml (3.12-1+b1) ...
Selecting previously unselected package zip.
Preparing to unpack .../134-zip_3.0-11_armhf.deb ...
Unpacking zip (3.0-11) ...
Selecting previously unselected package unzip.
Preparing to unpack .../135-unzip_6.0-21_armhf.deb ...
Unpacking unzip (6.0-21) ...
Selecting previously unselected package xdg-utils.
Preparing to unpack .../136-xdg-utils_1.1.3-1_all.deb ...
Unpacking xdg-utils (1.1.3-1) ...
Selecting previously unselected package r-base-core.
Preparing to unpack .../137-r-base-core_3.5.0-5_armhf.deb ...
Unpacking r-base-core (3.5.0-5) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../138-zlib1g-dev_1%3a1.2.11.dfsg-1_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Selecting previously unselected package sbuild-build-depends-python-pybedtools-dummy.
Preparing to unpack .../139-sbuild-build-depends-python-pybedtools-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-python-pybedtools-dummy (0.invalid.0) ...
Setting up libjs-jquery (3.2.1-1) ...
Setting up libjpeg62-turbo:armhf (1:1.5.2-2+b1) ...
Setting up libarchive-zip-perl (1.60-1) ...
Setting up libnghttp2-14:armhf (1.32.0-1) ...
Setting up bedtools (2.26.0+dfsg-5) ...
Setting up libjs-underscore (1.8.3~dfsg-1) ...
Setting up mime-support (3.61) ...
Installing new version of config file /etc/mime.types ...
Setting up libgfortran4:armhf (7.3.0-19) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libpsl5:armhf (0.20.2-1) ...
Setting up libelf1:armhf (0.170-0.4) ...
Setting up groff-base (1.22.3-10) ...
Setting up libglib2.0-0:armhf (2.56.1-2) ...
No schema files found: removed existing output file.
Setting up unzip (6.0-21) ...
Setting up libjs-sphinxdoc (1.7.5-3) ...
Setting up libdatrie1:armhf (0.2.12-1) ...
Setting up libtiff5:armhf (4.0.9-5) ...
Setting up gettext-base (0.19.8.1-6) ...
Setting up libpipeline1:armhf (1.5.0-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2) ...
Setting up m4 (1.4.18-1) ...
Setting up sgml-base (1.29) ...
Setting up libbsd0:armhf (0.9.1-1) ...
Setting up ucf (3.0038) ...
Setting up zip (3.0-11) ...
Setting up libfreetype6:armhf (2.8.1-2) ...
Setting up libmagic-mgc (1:5.33-3) ...
Setting up libmagic1:armhf (1:5.33-3) ...
Setting up libgraphite2-3:armhf (1.3.11-2) ...
Setting up libyaml-0-2:armhf (0.1.7-2) ...
Setting up libpixman-1-0:armhf (0.34.0-2) ...
Setting up libblas3:armhf (3.8.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
Setting up libssh2-1:armhf (1.8.0-1) ...
Processing triggers for libc-bin (2.27-3+rpi1) ...
Setting up dwz (0.12-2) ...
Setting up autotools-dev (20180224.1) ...
Setting up python-babel-localedata (2.4.0+dfsg.1-2) ...
Setting up libjs-jquery-ui (1.12.1+dfsg-5) ...
Processing triggers for systemd (238-4) ...
Setting up sphinx-common (1.7.5-3) ...
Setting up libfribidi0:armhf (0.19.7-2) ...
Setting up libexpat1-dev:armhf (2.2.5-3) ...
Setting up ttf-bitstream-vera (1.10-8) ...
Setting up libtcl8.6:armhf (8.6.8+dfsg-4) ...
Setting up libthai-data (0.1.27-2) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up xml-core (0.18) ...
Setting up libkeyutils1:armhf (1.5.9-9.2) ...
Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up x11-common (1:7.7+19) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
Running in chroot, ignoring request.
All runlevel operations denied by policy
invoke-rc.d: policy-rc.d denied execution of restart.
Setting up xdg-utils (1.1.3-1) ...
Setting up libx11-data (2:1.6.5-1) ...
Setting up libpython2.7-stdlib:armhf (2.7.15-1) ...
Setting up libxau6:armhf (1:1.0.8-1+b2) ...
Setting up autopoint (0.19.8.1-6) ...
Setting up libmpdec2:armhf (2.4.2-2) ...
Setting up fonts-lyx (2.3.0-2) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1) ...
Setting up libfile-stripnondeterminism-perl (0.042-1) ...
Setting up libpaper1:armhf (1.1.24+nmu5) ...
Creating config file /etc/papersize with new version
Setting up libpython3.6-stdlib:armhf (3.6.6~rc1-4) ...
Setting up libpaper-utils (1.1.24+nmu5) ...
Setting up fontconfig-config (2.13.0-5) ...
Installing new version of config file /etc/fonts/fonts.conf ...
Setting up python3.6 (3.6.6~rc1-4) ...
Setting up python-matplotlib-data (2.2.2-4) ...
Setting up liblapack3:armhf (3.8.0-1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up python2.7 (2.7.15-1) ...
Setting up libharfbuzz0b:armhf (1.7.6-1+b1) ...
Setting up autoconf (2.69-11) ...
Setting up libthai0:armhf (0.1.27-2) ...
Setting up file (1:5.33-3) ...
Setting up libkrb5support0:armhf (1.16-2) ...
Setting up automake (1:1.15.1-3.1) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up libice6:armhf (2:1.0.9-2) ...
Setting up man-db (2.8.3-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libpython2-stdlib:armhf (2.7.15-3) ...
Setting up libxcb1:armhf (1.13-1) ...
Setting up libpython3.6:armhf (3.6.6~rc1-4) ...
Setting up libtool (2.4.6-2.1) ...
Setting up libpython3-stdlib:armhf (3.6.5-3) ...
Setting up libfontconfig1:armhf (2.13.0-5) ...
Setting up libsm6:armhf (2:1.2.2-1+b3) ...
Setting up libk5crypto3:armhf (1.16-2) ...
Setting up libxcb-render0:armhf (1.13-1) ...
Setting up python3 (3.6.5-3) ...
Setting up python3-numpy (1:1.14.4-1) ...
Setting up python3-alabaster (0.7.8-1) ...
Setting up python3-idna (2.6-1) ...
Setting up python3-six (1.11.0-2) ...
Setting up libx11-6:armhf (2:1.6.5-1) ...
Setting up python3-pyparsing (2.2.0+dfsg1-2) ...
Setting up python3-cycler (0.10.0-1) ...
Setting up python3-certifi (2018.1.18-3) ...
Setting up python3-pkg-resources (39.2.0-1) ...
Setting up libpython3.6-dev:armhf (3.6.6~rc1-4) ...
Setting up python2 (2.7.15-3) ...
Setting up python3-markupsafe (1.0-1+b1) ...
Setting up python3-pandas-lib (0.22.0-8) ...
Setting up libpython-stdlib:armhf (2.7.15-3) ...
Setting up python3-nose (1.3.7-4) ...
Setting up python3-chardet (3.0.4-1) ...
Setting up python3-jinja2 (2.10-1) ...
Setting up libxcb-shm0:armhf (1.13-1) ...
Setting up libxt6:armhf (1:1.1.5-1) ...
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up python3-urllib3 (1.22-1) ...
Setting up libkrb5-3:armhf (1.16-2) ...
Setting up python3-packaging (17.1-1) ...
Setting up libxft2:armhf (2.3.2-2) ...
Setting up python3.6-dev (3.6.6~rc1-4) ...
Setting up python3-lib2to3 (3.6.6~rc1-3) ...
Setting up dh-python (3.20180326) ...
Setting up python3-tz (2018.4-1) ...
Setting up python3-distutils (3.6.6~rc1-3) ...
Setting up python (2.7.15-3) ...
Setting up fontconfig (2.13.0-5) ...
Regenerating fonts cache... done.
Setting up python3-dateutil (2.6.1-1) ...
Setting up libpython3-dev:armhf (3.6.5-3) ...
Setting up python3-pygments (2.2.0+dfsg-1) ...
Setting up python3-yaml (3.12-1+b1) ...
Setting up python3-roman (2.0.0-3) ...
Setting up python3-kiwisolver (1.0.1-2) ...
Setting up python3-imagesize (1.0.0-1) ...
Setting up libxext6:armhf (2:1.3.3-1+b2) ...
Setting up libxss1:armhf (1:1.2.2-1) ...
Setting up python3-dev (3.6.5-3) ...
Setting up cython (0.26.1-0.4) ...
Setting up python3-babel (2.4.0+dfsg.1-2) ...
update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode
Setting up libgssapi-krb5-2:armhf (1.16-2) ...
Setting up libpython3-all-dev:armhf (3.6.5-3) ...
Setting up python3-all (3.6.5-3) ...
Setting up libpango-1.0-0:armhf (1.42.0-1) ...
Setting up python3-requests (2.18.4-2) ...
Setting up python3-pandas (0.22.0-8) ...
Setting up python3-setuptools (39.2.0-1) ...
Setting up python3-matplotlib (2.2.2-4) ...
Setting up libcairo2:armhf (1.15.10-3) ...
Setting up python3-all-dev (3.6.5-3) ...
Setting up libcurl3-gnutls:armhf (7.60.0-2) ...
Setting up libtk8.6:armhf (8.6.8-4) ...
Setting up libcurl4:armhf (7.60.0-2) ...
Setting up libpangoft2-1.0-0:armhf (1.42.0-1) ...
Setting up tk8.6-blt2.5 (2.5.3+dfsg-4) ...
Setting up libhts2:armhf (1.7-2) ...
Setting up blt (2.5.3+dfsg-4) ...
Setting up libpangocairo-1.0-0:armhf (1.42.0-1) ...
Setting up python3-pysam (0.14+ds-2+rpi1) ...
Setting up python3-tk:armhf (3.6.6~rc1-3) ...
Processing triggers for sgml-base (1.29) ...
Setting up docutils-common (0.14+dfsg-3) ...
Processing triggers for sgml-base (1.29) ...
Setting up python3-docutils (0.14+dfsg-3) ...
update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode
update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode
Setting up python3-sphinx (1.7.5-3) ...
Setting up python3-numpydoc (0.7.0-1) ...
Setting up libicu-le-hb0:armhf (1.0.3+git161113-5) ...
Setting up libicu60:armhf (60.2-6) ...
Setting up r-base-core (3.5.0-5) ...
Creating config file /etc/R/Renviron with new version
Setting up libxml2:armhf (2.9.4+dfsg1-7) ...
Setting up libcroco3:armhf (0.6.12-2) ...
Setting up gettext (0.19.8.1-6) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.20) ...
Setting up debhelper (11.3.2) ...
Setting up dh-autoreconf (19) ...
Setting up dh-strip-nondeterminism (0.042-1) ...
Setting up sbuild-build-depends-python-pybedtools-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.27-3+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.30-21+rpi1 dpkg-dev_1.19.0.5 g++-7_7.3.0-19 gcc-7_7.3.0-19 libc6-dev_2.27-3+rpi1 libstdc++-7-dev_7.3.0-19 libstdc++6_8.1.0-8+rpi1 linux-libc-dev_4.16.12-1+rpi1
Package versions: adduser_3.117 apt_1.6.1 autoconf_2.69-11 automake_1:1.15.1-3.1 autopoint_0.19.8.1-6 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_4.4.18-3 bedtools_2.26.0+dfsg-5 binutils_2.30-21+rpi1 binutils-arm-linux-gnueabihf_2.30-21+rpi1 binutils-common_2.30-21+rpi1 blt_2.5.3+dfsg-4 bsdmainutils_11.1.2 bsdutils_1:2.32-0.1 build-essential_12.5 bzip2_1.0.6-8.1 ca-certificates_20170717 coreutils_8.28-1 cpio_2.12+dfsg-6 cpp_4:7.3.0-3+rpi1 cpp-7_7.3.0-19 cython_0.26.1-0.4 dash_0.5.8-2.10 dbus_1.12.8-3 dbus-user-session_1.12.8-3 debconf_1.5.67 debhelper_11.3.2 debianutils_4.8.6 dh-autoreconf_19 dh-python_3.20180326 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dirmngr_2.2.8-1 dmsetup_2:1.02.145-4.1+b4 docutils-common_0.14+dfsg-3 dpkg_1.19.0.5 dpkg-dev_1.19.0.5 dwz_0.12-2 e2fslibs_1.44.2-1 e2fsprogs_1.44.2-1 e2fsprogs-l10n_1.44.2-1 fakeroot_1.22-2 fdisk_2.32-0.1 file_1:5.33-3 findutils_4.6.0+git+20171230-2 fontconfig_2.13.0-5 fontconfig-config_2.13.0-5 fonts-lyx_2.3.0-2 g++_4:7.3.0-3+rpi1 g++-7_7.3.0-19 gcc_4:7.3.0-3+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.4-2+rpi1+b7 gcc-5-base_5.5.0-8 gcc-7_7.3.0-19 gcc-7-base_7.3.0-19 gcc-8-base_8.1.0-8+rpi1 gettext_0.19.8.1-6 gettext-base_0.19.8.1-6 gnupg_2.2.8-1 gnupg-agent_2.2.8-1 gnupg-l10n_2.2.8-1 gnupg-utils_2.2.8-1 gpg_2.2.8-1 gpg-agent_2.2.8-1 gpg-wks-client_2.2.8-1 gpg-wks-server_2.2.8-1 gpgconf_2.2.8-1 gpgsm_2.2.8-1 gpgv_2.2.8-1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5 hostname_3.20 inetutils-ping_2:1.9.4-3 init-system-helpers_1.51 initramfs-tools_0.130 initramfs-tools-core_0.130 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-11+rpi1 kmod_25-1 libacl1_2.2.52-3 libapparmor1_2.12-4 libapt-pkg5.0_1.6.1 libarchive-zip-perl_1.60-1 libargon2-0_0~20161029-2 libasan4_7.3.0-19 libassuan0_2.5.1-2 libatomic1_8.1.0-8+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.8.3-1 libaudit1_1:2.8.3-1 libbinutils_2.30-21+rpi1 libblas3_3.8.0-1 libblkid1_2.32-0.1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.27-3+rpi1 libc-dev-bin_2.27-3+rpi1 libc6_2.27-3+rpi1 libc6-dev_2.27-3+rpi1 libcairo2_1.15.10-3 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-8+rpi1 libcilkrts5_7.3.0-19 libcom-err2_1.44.2-1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.2-1 libcryptsetup4_2:1.7.5-1 libcurl3-gnutls_7.60.0-2 libcurl4_7.60.0-2 libdatrie1_0.2.12-1 libdb5.3_5.3.28-13.1 libdbus-1-3_1.12.8-3 libdebconfclient0_0.243 libdevmapper1.02.1_2:1.02.145-4.1+b4 libdpkg-perl_1.19.0.5 libdrm-common_2.4.92-1+rpi1 libdrm2_2.4.92-1+rpi1 libelf1_0.170-0.4 libexpat1_2.2.5-3 libexpat1-dev_2.2.5-3 libext2fs2_1.44.2-1 libfakeroot_1.22-2 libfdisk1_2.32-0.1 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.042-1 libfontconfig1_2.13.0-5 libfreetype6_2.8.1-2 libfribidi0_0.19.7-2 libgcc-7-dev_7.3.0-19 libgcc1_1:8.1.0-8+rpi1 libgcrypt20_1.8.3-1 libgdbm-compat4_1.14.1-6 libgdbm3_1.8.3-14 libgdbm5_1.14.1-6 libgfortran4_7.3.0-19 libglib2.0-0_2.56.1-2 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1 libgomp1_8.1.0-8+rpi1 libgpg-error0_1.31-1 libgraphite2-3_1.3.11-2 libgssapi-krb5-2_1.16-2 libharfbuzz0b_1.7.6-1+b1 libhogweed4_3.4-1 libhts2_1.7-2 libice6_2:1.0.9-2 libicu-le-hb0_1.0.3+git161113-5 libicu60_60.2-6 libidn11_1.33-2.2 libidn2-0_2.0.4-1.1 libip4tc0_1.6.2-1 libisl19_0.19-1 libjbig0_2.1-3.1+b2 libjpeg62-turbo_1:1.5.2-2+b1 libjs-jquery_3.2.1-1 libjs-jquery-ui_1.12.1+dfsg-5 libjs-sphinxdoc_1.7.5-3 libjs-underscore_1.8.3~dfsg-1 libjson-c3_0.12.1-1.3 libk5crypto3_1.16-2 libkeyutils1_1.5.9-9.2 libklibc_2.0.4-11+rpi1 libkmod2_25-1 libkrb5-3_1.16-2 libkrb5support0_1.16-2 libksba8_1.3.5-2 liblapack3_3.8.0-1 libldap-2.4-2_2.4.46+dfsg-5+rpi1 libldap-common_2.4.46+dfsg-5+rpi1 liblz4-1_1.8.2-1+rpi1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-3 libmagic1_1:5.33-3 libmount1_2.32-0.1 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-1 libncurses5_6.1+20180210-4 libncurses6_6.1+20180210-4 libncursesw5_6.1+20180210-4 libncursesw6_6.1+20180210-4 libnettle6_3.4-1 libnghttp2-14_1.32.0-1 libnpth0_1.5-4 libnss-systemd_238-4 libp11-kit0_0.23.12-2 libpam-modules_1.1.8-3.7 libpam-modules-bin_1.1.8-3.7 libpam-runtime_1.1.8-3.7 libpam-systemd_238-4 libpam0g_1.1.8-3.7 libpango-1.0-0_1.42.0-1 libpangocairo-1.0-0_1.42.0-1 libpangoft2-1.0-0_1.42.0-1 libpaper-utils_1.1.24+nmu5 libpaper1_1.1.24+nmu5 libpcre3_2:8.39-9 libperl5.24_5.24.1-7 libperl5.26_5.26.2-6 libpipeline1_1.5.0-1 libpixman-1-0_0.34.0-2 libplymouth4_0.9.3-3 libpng16-16_1.6.34-1 libprocps7_2:3.3.15-2 libpsl5_0.20.2-1 libpython-stdlib_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7-minimal_2.7.15-1 libpython2.7-stdlib_2.7.15-1 libpython3-all-dev_3.6.5-3 libpython3-dev_3.6.5-3 libpython3-stdlib_3.6.5-3 libpython3.6_3.6.6~rc1-4 libpython3.6-dev_3.6.6~rc1-4 libpython3.6-minimal_3.6.6~rc1-4 libpython3.6-stdlib_3.6.6~rc1-4 libreadline7_7.0-5 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1 libseccomp2_2.3.3-2 libselinux1_2.8-1 libsemanage-common_2.8-1 libsemanage1_2.8-1 libsepol1_2.8-1 libsigsegv2_2.12-2 libsm6_2:1.2.2-1+b3 libsmartcols1_2.32-0.1 libsqlite3-0_3.24.0-1 libss2_1.44.2-1 libssh2-1_1.8.0-1 libssl1.1_1.1.0h-4 libstdc++-7-dev_7.3.0-19 libstdc++6_8.1.0-8+rpi1 libsystemd0_238-4 libtasn1-6_4.13-3 libtcl8.6_8.6.8+dfsg-4 libthai-data_0.1.27-2 libthai0_0.1.27-2 libtiff5_4.0.9-5 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-4 libtinfo6_6.1+20180210-4 libtk8.6_8.6.8-4 libtool_2.4.6-2.1 libubsan0_7.3.0-19 libudev1_238-4 libunistring2_0.9.8-1 libustr-1.0-1_1.0.4-6 libuuid1_2.32-0.1 libx11-6_2:1.6.5-1 libx11-data_2:1.6.5-1 libxau6_1:1.0.8-1+b2 libxcb-render0_1.13-1 libxcb-shm0_1.13-1 libxcb1_1.13-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxft2_2.3.2-2 libxml2_2.9.4+dfsg1-7 libxrender1_1:0.9.10-1 libxss1_1:1.2.2-1 libxt6_1:1.1.5-1 libyaml-0-2_0.1.7-2 libzstd1_1.3.4+dfsg-3+rpi1 linux-base_4.5 linux-libc-dev_4.16.12-1+rpi1 login_1:4.5-1 lsb-base_9.20170808+rpi1 m4_1.4.18-1 make_4.1-9.1 makedev_2.3.1-93 man-db_2.8.3-2 mawk_1.3.3-17 mime-support_3.61 mount_2.32-0.1 multiarch-support_2.27-3+rpi1 nano_2.9.8-1 ncurses-base_6.1+20180210-4 ncurses-bin_6.1+20180210-4 netbase_5.4 openssl_1.1.0h-4 passwd_1:4.5-1 patch_2.7.6-2 perl_5.26.2-6 perl-base_5.26.2-6 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.2-6 pinentry-curses_1.1.0-1 plymouth_0.9.3-3 po-debconf_1.0.20 procps_2:3.3.15-2 python_2.7.15-3 python-babel-localedata_2.4.0+dfsg.1-2 python-matplotlib-data_2.2.2-4 python-minimal_2.7.15-3 python2_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-1 python2.7-minimal_2.7.15-1 python3_3.6.5-3 python3-alabaster_0.7.8-1 python3-all_3.6.5-3 python3-all-dev_3.6.5-3 python3-babel_2.4.0+dfsg.1-2 python3-certifi_2018.1.18-3 python3-chardet_3.0.4-1 python3-cycler_0.10.0-1 python3-dateutil_2.6.1-1 python3-dev_3.6.5-3 python3-distutils_3.6.6~rc1-3 python3-docutils_0.14+dfsg-3 python3-idna_2.6-1 python3-imagesize_1.0.0-1 python3-jinja2_2.10-1 python3-kiwisolver_1.0.1-2 python3-lib2to3_3.6.6~rc1-3 python3-markupsafe_1.0-1+b1 python3-matplotlib_2.2.2-4 python3-minimal_3.6.5-3 python3-nose_1.3.7-4 python3-numpy_1:1.14.4-1 python3-numpydoc_0.7.0-1 python3-packaging_17.1-1 python3-pandas_0.22.0-8 python3-pandas-lib_0.22.0-8 python3-pkg-resources_39.2.0-1 python3-pygments_2.2.0+dfsg-1 python3-pyparsing_2.2.0+dfsg1-2 python3-pysam_0.14+ds-2+rpi1 python3-requests_2.18.4-2 python3-roman_2.0.0-3 python3-setuptools_39.2.0-1 python3-six_1.11.0-2 python3-sphinx_1.7.5-3 python3-tk_3.6.6~rc1-3 python3-tz_2018.4-1 python3-urllib3_1.22-1 python3-yaml_3.12-1+b1 python3.6_3.6.6~rc1-4 python3.6-dev_3.6.6~rc1-4 python3.6-minimal_3.6.6~rc1-4 r-base-core_3.5.0-5 raspbian-archive-keyring_20120528.2 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-python-pybedtools-dummy_0.invalid.0 sed_4.4-2 sensible-utils_0.0.12 sgml-base_1.29 sphinx-common_1.7.5-3 systemd_238-4 systemd-sysv_238-4 sysvinit-utils_2.88dsf-59.10 tar_1.30+dfsg-2 tk8.6-blt2.5_2.5.3+dfsg-4 ttf-bitstream-vera_1.10-8 tzdata_2018e-1 ucf_3.0038 udev_238-4 unzip_6.0-21 util-linux_2.32-0.1 x11-common_1:7.7+19 xdg-utils_1.1.3-1 xml-core_0.18 xz-utils_5.2.2-1.3 zip_3.0-11 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Nov 9 11:12:00 2017 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tillea@rki.de"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./python-pybedtools_0.7.10-2.dsc
dpkg-source: info: extracting python-pybedtools in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking python-pybedtools_0.7.10.orig.tar.gz
dpkg-source: info: unpacking python-pybedtools_0.7.10-2.debian.tar.xz
dpkg-source: info: applying spelling
dpkg-source: info: applying enable-package-data
dpkg-source: info: applying disable-write-version
dpkg-source: info: applying disable-test-156
dpkg-source: info: applying rename-scripts
dpkg-source: info: applying c8dff864dbc942bb7adb3e719b0702f7e3989d36.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-ad1263d2-992d-4b34-bfa9-3f14a0553f1e
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package python-pybedtools
dpkg-buildpackage: info: source version 0.7.10-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build python-pybedtools-0.7.10
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --with python3,sphinxdoc --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:217: python3.6 setup.py clean
running clean
dh_clean -O--buildsystem=pybuild
debian/rules build-arch
dh build-arch --with python3,sphinxdoc --buildsystem=pybuild
dh_update_autotools_config -a -O--buildsystem=pybuild
dh_autoreconf -a -O--buildsystem=pybuild
dh_auto_configure -a -O--buildsystem=pybuild
I: pybuild base:217: python3.6 setup.py config
warning: cbedtools.pyx:766:16: Unreachable code
Processing pybedtools/_Window.pyx
Processing pybedtools/cbedtools.pyx
Processing pybedtools/featurefuncs.pyx
Cythonizing sources
running config
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build
I: pybuild base:217: /usr/bin/python3 setup.py build
pybedtools/_Window.pyx has not changed
pybedtools/cbedtools.pyx has not changed
pybedtools/featurefuncs.pyx has not changed
Cythonizing sources
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/__main__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/bedtool.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/filenames.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/genome_registry.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/helpers.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/logger.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/parallel.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/settings.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/stats.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/version.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/regression_tests.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_cbedtools.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_contrib.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_gzip_support.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_helpers.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_iter.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_len_leak.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_scripts.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/tfuncs.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test1.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/bigbed.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/classifier.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/intersection_matrix.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/long_range_interaction.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/plotting.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/venn_maker.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
copying pybedtools/contrib/bigwig.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/contrib
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/annotate.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/intersection_matrix.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/intron_exon_reads.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/peak_pie.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/py_ms_example.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/venn_gchart.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
copying pybedtools/scripts/venn_mpl.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/scripts
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
running egg_info
creating pybedtools.egg-info
writing pybedtools.egg-info/PKG-INFO
writing dependency_links to pybedtools.egg-info/dependency_links.txt
writing entry points to pybedtools.egg-info/entry_points.txt
writing requirements to pybedtools.egg-info/requires.txt
writing top-level names to pybedtools.egg-info/top_level.txt
writing manifest file 'pybedtools.egg-info/SOURCES.txt'
reading manifest file 'pybedtools.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '__pycache__' found under directory '*'
warning: no previously-included files matching '*.py[co]' found under directory '*'
writing manifest file 'pybedtools.egg-info/SOURCES.txt'
copying pybedtools/_Window.c -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/cbedtools.cxx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/featurefuncs.cxx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/test/data/1000genomes-example.vcf -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/164.gtf -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/BEAF_Kc_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/BEAF_Mbn2_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/CTCF_Kc_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/CTCF_Mbn2_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/Cp190_Kc_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/Cp190_Mbn2_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/SuHw_Kc_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/SuHw_Mbn2_Bushey_2009.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/a.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/a.igv_script -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/a.links.html -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/b.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/bedpe.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/bedpe2.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/c.gff -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/d.gff -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/democonfig.yaml -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/dm3-chr2L-5M-invalid.gff.gz -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/dm3-chr2L-5M.gff.gz -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/exons.gff -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/expand_test.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.1.100.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.1.100.bam.bai -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.50.200.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.50.200.bam.bai -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.gff -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.gff.gz -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.othersort.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.sorted.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/gdc.sorted.bam.bai -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/hg19.gff -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/hg38-base.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/hg38-problem.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/issue_121.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/m1.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/mm9.bed12 -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/multibamcov_test.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/reads.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/rmsk.hg18.chr21.small.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/rmsk.hg18.chr21.small.bed.gz -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/small.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/small.fastq -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/snps.bed.gz -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/tag_test1.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/tag_test2.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/test.fa -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/test.fa.fai -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/test_bedpe.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/test_peaks.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/test_tsses.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/v.vcf -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/vcf-stderr-test.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/vcf-stderr-test.vcf -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/venn.b.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/venn.c.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/x.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/x.bed -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/test/data/y.bam -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/data
copying pybedtools/_Window.pyx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/cbedtools.pyx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/featurefuncs.pyx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/cbedtools.pxd -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools
copying pybedtools/test/gchart-expected.png -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/mpl-expected.png -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/prevent_open_file_regression -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
copying pybedtools/test/test_cases.yaml -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test
running build_ext
building 'pybedtools.cbedtools' extension
creating build
creating build/temp.linux-armhf-3.6
creating build/temp.linux-armhf-3.6/src
creating build/temp.linux-armhf-3.6/pybedtools
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/bedFile.cpp -o build/temp.linux-armhf-3.6/src/bedFile.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/fileType.cpp -o build/temp.linux-armhf-3.6/src/fileType.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/gzstream.cpp -o build/temp.linux-armhf-3.6/src/gzstream.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c pybedtools/cbedtools.cxx -o build/temp.linux-armhf-3.6/pybedtools/cbedtools.o
pybedtools/cbedtools.cxx:8875:12: warning: 'int __pyx_pw_10pybedtools_9cbedtools_8Interval_25__nonzero__(PyObject*)' defined but not used [-Wunused-function]
static int __pyx_pw_10pybedtools_9cbedtools_8Interval_25__nonzero__(PyObject *__pyx_v_self) {
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.6/src/bedFile.o build/temp.linux-armhf-3.6/src/fileType.o build/temp.linux-armhf-3.6/src/gzstream.o build/temp.linux-armhf-3.6/pybedtools/cbedtools.o -lstdc++ -lz -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/cbedtools.cpython-36m-arm-linux-gnueabihf.so
building 'pybedtools.featurefuncs' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/bedFile.cpp -o build/temp.linux-armhf-3.6/src/bedFile.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/fileType.cpp -o build/temp.linux-armhf-3.6/src/fileType.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/gzstream.cpp -o build/temp.linux-armhf-3.6/src/gzstream.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c pybedtools/featurefuncs.cxx -o build/temp.linux-armhf-3.6/pybedtools/featurefuncs.o
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.6/src/bedFile.o build/temp.linux-armhf-3.6/src/fileType.o build/temp.linux-armhf-3.6/src/gzstream.o build/temp.linux-armhf-3.6/pybedtools/featurefuncs.o -lstdc++ -lz -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/featurefuncs.cpython-36m-arm-linux-gnueabihf.so
python3 setup.py develop --user
pybedtools/_Window.pyx has not changed
pybedtools/cbedtools.pyx has not changed
pybedtools/featurefuncs.pyx has not changed
Cythonizing sources
running develop
running egg_info
writing pybedtools.egg-info/PKG-INFO
writing dependency_links to pybedtools.egg-info/dependency_links.txt
writing entry points to pybedtools.egg-info/entry_points.txt
writing requirements to pybedtools.egg-info/requires.txt
writing top-level names to pybedtools.egg-info/top_level.txt
reading manifest file 'pybedtools.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '__pycache__' found under directory '*'
warning: no previously-included files matching '*.py[co]' found under directory '*'
writing manifest file 'pybedtools.egg-info/SOURCES.txt'
running build_ext
building 'pybedtools.cbedtools' extension
creating build/temp.linux-armv7l-3.6
creating build/temp.linux-armv7l-3.6/src
creating build/temp.linux-armv7l-3.6/pybedtools
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/bedFile.cpp -o build/temp.linux-armv7l-3.6/src/bedFile.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/fileType.cpp -o build/temp.linux-armv7l-3.6/src/fileType.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/gzstream.cpp -o build/temp.linux-armv7l-3.6/src/gzstream.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c pybedtools/cbedtools.cxx -o build/temp.linux-armv7l-3.6/pybedtools/cbedtools.o
pybedtools/cbedtools.cxx:8875:12: warning: 'int __pyx_pw_10pybedtools_9cbedtools_8Interval_25__nonzero__(PyObject*)' defined but not used [-Wunused-function]
static int __pyx_pw_10pybedtools_9cbedtools_8Interval_25__nonzero__(PyObject *__pyx_v_self) {
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.6/src/bedFile.o build/temp.linux-armv7l-3.6/src/fileType.o build/temp.linux-armv7l-3.6/src/gzstream.o build/temp.linux-armv7l-3.6/pybedtools/cbedtools.o -lstdc++ -lz -o /<<PKGBUILDDIR>>/pybedtools/cbedtools.cpython-36m-arm-linux-gnueabihf.so
building 'pybedtools.featurefuncs' extension
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/bedFile.cpp -o build/temp.linux-armv7l-3.6/src/bedFile.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/fileType.cpp -o build/temp.linux-armv7l-3.6/src/fileType.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c src/gzstream.cpp -o build/temp.linux-armv7l-3.6/src/gzstream.o
arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Isrc/ -I/usr/include/python3.6m -c pybedtools/featurefuncs.cxx -o build/temp.linux-armv7l-3.6/pybedtools/featurefuncs.o
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.6/src/bedFile.o build/temp.linux-armv7l-3.6/src/fileType.o build/temp.linux-armv7l-3.6/src/gzstream.o build/temp.linux-armv7l-3.6/pybedtools/featurefuncs.o -lstdc++ -lz -o /<<PKGBUILDDIR>>/pybedtools/featurefuncs.cpython-36m-arm-linux-gnueabihf.so
Creating /<<PKGBUILDDIR>>/fakehome/.local/lib/python3.6/site-packages/pybedtools.egg-link (link to .)
Adding pybedtools 0.7.9 to easy-install.pth file
Installing pybedtools-annotate script to /<<PKGBUILDDIR>>/fakehome/.local/bin
Installing pybedtools-intersection_matrix script to /<<PKGBUILDDIR>>/fakehome/.local/bin
Installing pybedtools-intron_exon_reads script to /<<PKGBUILDDIR>>/fakehome/.local/bin
Installing pybedtools-peak_pie script to /<<PKGBUILDDIR>>/fakehome/.local/bin
Installing pybedtools-venn_gchart script to /<<PKGBUILDDIR>>/fakehome/.local/bin
Installing pybedtools-venn_mpl script to /<<PKGBUILDDIR>>/fakehome/.local/bin
Installed /<<PKGBUILDDIR>>
Processing dependencies for pybedtools==0.7.9
Searching for six==1.11.0
Best match: six 1.11.0
Adding six 1.11.0 to easy-install.pth file
Using /usr/lib/python3/dist-packages
Finished processing dependencies for pybedtools==0.7.9
python3 setup.py build_sphinx
pybedtools/_Window.pyx has not changed
pybedtools/cbedtools.pyx has not changed
pybedtools/featurefuncs.pyx has not changed
Cythonizing sources
running build_sphinx
creating /<<PKGBUILDDIR>>/build/sphinx
creating /<<PKGBUILDDIR>>/build/sphinx/doctrees
creating /<<PKGBUILDDIR>>/build/sphinx/html
Running Sphinx v1.7.5
loading pickled environment... not yet created
[autosummary] generating autosummary for: 3-brief-examples.rst, FAQs.rst, autodoc_source.rst, autodocs/pybedtools.contrib.plotting.Track.rst, changes.rst, create-a-bedtool-tutorial.rst, default-arguments.rst, each.rst, filtering.rst, flow-of-commands.rst, ..., topical-create-a-bedtool.rst, topical-design-principles.rst, topical-documentation-contents.rst, topical-genome.rst, topical-iterators.rst, topical-low-level-ops.rst, topical-random.rst, topical-saving.rst, topical-wrapping.rst, tutorial-contents.rst
[autosummary] generating autosummary for: /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.absolute_distance.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.all_hits.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.annotate.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.any_hits.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.as_intervalfile.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.at.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_bed.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_fastq.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.bed6.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.bedpe_to_bam.rst, ..., /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.helpers.get_tempdir.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.helpers.set_bedtools_path.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.helpers.set_tempdir.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.parallel.parallel_apply.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.scripts.annotate.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.scripts.intersection_matrix.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.scripts.intron_exon_reads.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.scripts.py_ms_example.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.scripts.venn_gchart.rst, /<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.scripts.venn_mpl.rst
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 49 source files that are out of date
updating environment: 166 added, 0 changed, 0 removed
reading sources... [ 0%] 3-brief-examples
reading sources... [ 1%] FAQs
reading sources... [ 1%] autodoc_source
reading sources... [ 2%] autodocs/pybedtools.bedtool.BedTool
reading sources... [ 3%] autodocs/pybedtools.bedtool.BedTool.absolute_distance
reading sources... [ 3%] autodocs/pybedtools.bedtool.BedTool.all_hits
reading sources... [ 4%] autodocs/pybedtools.bedtool.BedTool.annotate
reading sources... [ 4%] autodocs/pybedtools.bedtool.BedTool.any_hits
reading sources... [ 5%] autodocs/pybedtools.bedtool.BedTool.as_intervalfile
reading sources... [ 6%] autodocs/pybedtools.bedtool.BedTool.at
reading sources... [ 6%] autodocs/pybedtools.bedtool.BedTool.bam_to_bed
reading sources... [ 7%] autodocs/pybedtools.bedtool.BedTool.bam_to_fastq
reading sources... [ 7%] autodocs/pybedtools.bedtool.BedTool.bed6
reading sources... [ 8%] autodocs/pybedtools.bedtool.BedTool.bedpe_to_bam
reading sources... [ 9%] autodocs/pybedtools.bedtool.BedTool.bgzip
reading sources... [ 9%] autodocs/pybedtools.bedtool.BedTool.cat
reading sources... [ 10%] autodocs/pybedtools.bedtool.BedTool.closest
reading sources... [ 10%] autodocs/pybedtools.bedtool.BedTool.cluster
reading sources... [ 11%] autodocs/pybedtools.bedtool.BedTool.colormap_normalize
reading sources... [ 12%] autodocs/pybedtools.bedtool.BedTool.complement
reading sources... [ 12%] autodocs/pybedtools.bedtool.BedTool.count
reading sources... [ 13%] autodocs/pybedtools.bedtool.BedTool.count_hits
reading sources... [ 13%] autodocs/pybedtools.bedtool.BedTool.coverage
reading sources... [ 14%] autodocs/pybedtools.bedtool.BedTool.cut
reading sources... [ 15%] autodocs/pybedtools.bedtool.BedTool.each
reading sources... [ 15%] autodocs/pybedtools.bedtool.BedTool.expand
reading sources... [ 16%] autodocs/pybedtools.bedtool.BedTool.field_count
reading sources... [ 16%] autodocs/pybedtools.bedtool.BedTool.file_type
reading sources... [ 17%] autodocs/pybedtools.bedtool.BedTool.filter
reading sources... [ 18%] autodocs/pybedtools.bedtool.BedTool.flank
reading sources... [ 18%] autodocs/pybedtools.bedtool.BedTool.genome_coverage
reading sources... [ 19%] autodocs/pybedtools.bedtool.BedTool.groupby
reading sources... [ 19%] autodocs/pybedtools.bedtool.BedTool.head
reading sources... [ 20%] autodocs/pybedtools.bedtool.BedTool.igv
reading sources... [ 21%] autodocs/pybedtools.bedtool.BedTool.intersect
reading sources... [ 21%] autodocs/pybedtools.bedtool.BedTool.introns
reading sources... [ 22%] autodocs/pybedtools.bedtool.BedTool.jaccard
reading sources... [ 22%] autodocs/pybedtools.bedtool.BedTool.liftover
reading sources... [ 23%] autodocs/pybedtools.bedtool.BedTool.links
reading sources... [ 24%] autodocs/pybedtools.bedtool.BedTool.map
reading sources... [ 24%] autodocs/pybedtools.bedtool.BedTool.mask_fasta
reading sources... [ 25%] autodocs/pybedtools.bedtool.BedTool.merge
reading sources... [ 25%] autodocs/pybedtools.bedtool.BedTool.moveto
reading sources... [ 26%] autodocs/pybedtools.bedtool.BedTool.multi_bam_coverage
reading sources... [ 27%] autodocs/pybedtools.bedtool.BedTool.multi_intersect
reading sources... [ 27%] autodocs/pybedtools.bedtool.BedTool.nucleotide_content
reading sources... [ 28%] autodocs/pybedtools.bedtool.BedTool.overlap
reading sources... [ 28%] autodocs/pybedtools.bedtool.BedTool.pair_to_bed
reading sources... [ 29%] autodocs/pybedtools.bedtool.BedTool.pair_to_pair
reading sources... [ 30%] autodocs/pybedtools.bedtool.BedTool.parallel_apply
reading sources... [ 30%] autodocs/pybedtools.bedtool.BedTool.print_sequence
reading sources... [ 31%] autodocs/pybedtools.bedtool.BedTool.random
reading sources... [ 31%] autodocs/pybedtools.bedtool.BedTool.random_jaccard
reading sources... [ 32%] autodocs/pybedtools.bedtool.BedTool.random_op
reading sources... [ 33%] autodocs/pybedtools.bedtool.BedTool.random_subset
reading sources... [ 33%] autodocs/pybedtools.bedtool.BedTool.randomintersection
reading sources... [ 34%] autodocs/pybedtools.bedtool.BedTool.randomintersection_bp
reading sources... [ 34%] autodocs/pybedtools.bedtool.BedTool.randomstats
reading sources... [ 35%] autodocs/pybedtools.bedtool.BedTool.relative_distance
reading sources... [ 36%] autodocs/pybedtools.bedtool.BedTool.reldist
reading sources... [ 36%] autodocs/pybedtools.bedtool.BedTool.remove_invalid
reading sources... [ 37%] autodocs/pybedtools.bedtool.BedTool.save_seqs
reading sources... [ 37%] autodocs/pybedtools.bedtool.BedTool.saveas
reading sources... [ 38%] autodocs/pybedtools.bedtool.BedTool.seq
reading sources... [ 39%] autodocs/pybedtools.bedtool.BedTool.sequence
reading sources... [ 39%] autodocs/pybedtools.bedtool.BedTool.set_chromsizes
reading sources... [ 40%] autodocs/pybedtools.bedtool.BedTool.shuffle
reading sources... [ 40%] autodocs/pybedtools.bedtool.BedTool.slop
reading sources... [ 41%] autodocs/pybedtools.bedtool.BedTool.sort
reading sources... [ 42%] autodocs/pybedtools.bedtool.BedTool.split
reading sources... [ 42%] autodocs/pybedtools.bedtool.BedTool.subtract
reading sources... [ 43%] autodocs/pybedtools.bedtool.BedTool.tabix
reading sources... [ 43%] autodocs/pybedtools.bedtool.BedTool.tabix_intervals
reading sources... [ 44%] autodocs/pybedtools.bedtool.BedTool.tag_bam
reading sources... [ 45%] autodocs/pybedtools.bedtool.BedTool.to_bam
reading sources... [ 45%] autodocs/pybedtools.bedtool.BedTool.total_coverage
reading sources... [ 46%] autodocs/pybedtools.bedtool.BedTool.truncate_to_chrom
reading sources... [ 46%] autodocs/pybedtools.bedtool.BedTool.union_bedgraphs
reading sources... [ 47%] autodocs/pybedtools.bedtool.BedTool.window
reading sources... [ 48%] autodocs/pybedtools.bedtool.BedTool.window_maker
reading sources... [ 48%] autodocs/pybedtools.bedtool.BedTool.with_attrs
reading sources... [ 49%] autodocs/pybedtools.bedtool.example_bedtool
reading sources... [ 50%] autodocs/pybedtools.cbedtools.Interval
reading sources... [ 50%] autodocs/pybedtools.cbedtools.create_interval_from_list
reading sources... [ 51%] autodocs/pybedtools.contrib.IntersectionMatrix
reading sources... [ 51%] autodocs/pybedtools.contrib.MultiClassifier
reading sources... [ 52%] autodocs/pybedtools.contrib.MultiClassifier.classify
reading sources... [ 53%] autodocs/pybedtools.contrib.MultiClassifier.print_table
reading sources... [ 53%] autodocs/pybedtools.contrib.bigbed.bigbed
reading sources... [ 54%] autodocs/pybedtools.contrib.bigbed.bigbed_to_bed
reading sources... [ 54%] autodocs/pybedtools.contrib.bigwig.bam_to_bigwig
reading sources... [ 55%] autodocs/pybedtools.contrib.bigwig.bedgraph_to_bigwig
reading sources... [ 56%] autodocs/pybedtools.contrib.bigwig.wig_to_bigwig
reading sources... [ 56%] autodocs/pybedtools.contrib.long_range_interaction.cis_trans_interactions
reading sources... [ 57%] autodocs/pybedtools.contrib.long_range_interaction.tag_bedpe
reading sources... [ 57%] autodocs/pybedtools.contrib.plotting.BedToolsDemo
reading sources... [ 58%] autodocs/pybedtools.contrib.plotting.ConfiguredBedToolsDemo
reading sources... [ 59%] autodocs/pybedtools.contrib.plotting.Track
reading sources... [ 59%] autodocs/pybedtools.contrib.plotting.TrackCollection
reading sources... [ 60%] autodocs/pybedtools.contrib.plotting.binary_heatmap
reading sources... [ 60%] autodocs/pybedtools.contrib.plotting.binary_summary
reading sources... [ 61%] autodocs/pybedtools.contrib.venn_maker
reading sources... [ 62%] autodocs/pybedtools.contrib.venn_maker.cleaned_intersect
reading sources... [ 62%] autodocs/pybedtools.contrib.venn_maker.venn_maker
reading sources... [ 63%] autodocs/pybedtools.debug_mode
reading sources... [ 63%] autodocs/pybedtools.filenames.example_filename
reading sources... [ 64%] autodocs/pybedtools.filenames.list_example_files
reading sources... [ 65%] autodocs/pybedtools.helpers.chromsizes
reading sources... [ 65%] autodocs/pybedtools.helpers.chromsizes_to_file
reading sources... [ 66%] autodocs/pybedtools.helpers.cleanup
reading sources... [ 66%] autodocs/pybedtools.helpers.get_chromsizes_from_ucsc
reading sources... [ 67%] autodocs/pybedtools.helpers.get_tempdir
reading sources... [ 68%] autodocs/pybedtools.helpers.set_bedtools_path
reading sources... [ 68%] autodocs/pybedtools.helpers.set_tempdir
reading sources... [ 69%] autodocs/pybedtools.parallel.parallel_apply
reading sources... [ 69%] autodocs/pybedtools.scripts.annotate
reading sources... [ 70%] autodocs/pybedtools.scripts.intersection_matrix
reading sources... [ 71%] autodocs/pybedtools.scripts.intron_exon_reads
reading sources... [ 71%] autodocs/pybedtools.scripts.py_ms_example
reading sources... [ 72%] autodocs/pybedtools.scripts.venn_gchart
reading sources... [ 72%] autodocs/pybedtools.scripts.venn_mpl
reading sources... [ 73%] changes
reading sources... [ 74%] create-a-bedtool-tutorial
reading sources... [ 74%] default-arguments
reading sources... [ 75%] each
reading sources... [ 75%] filtering
reading sources... [ 76%] flow-of-commands
reading sources... [ 77%] history
reading sources... [ 77%] includeme
reading sources... [ 78%] index
reading sources... [ 78%] intersections
reading sources... [ 79%] intervals
reading sources... [ 80%] intro
reading sources... [ 80%] main
reading sources... [ 81%] piping
reading sources... [ 81%] pybedtools-dev-history
reading sources... [ 82%] pybedtools.featurefuncs.TSS
reading sources... [ 83%] pybedtools.featurefuncs.add_color
reading sources... [ 83%] pybedtools.featurefuncs.bed2gff
reading sources... [ 84%] pybedtools.featurefuncs.bedgraph_scale
reading sources... [ 84%] pybedtools.featurefuncs.center
reading sources... [ 85%] pybedtools.featurefuncs.extend_fields
reading sources... [ 86%] pybedtools.featurefuncs.five_prime
reading sources... [ 86%] pybedtools.featurefuncs.gff2bed
reading sources... [ 87%] pybedtools.featurefuncs.greater_than
reading sources... [ 87%] pybedtools.featurefuncs.less_than
reading sources... [ 88%] pybedtools.featurefuncs.midpoint
reading sources... [ 89%] pybedtools.featurefuncs.normalized_to_length
reading sources... [ 89%] pybedtools.featurefuncs.rename
reading sources... [ 90%] pybedtools.featurefuncs.three_prime
reading sources... [ 90%] save-results
reading sources... [ 91%] scripts
reading sources... [ 92%] sh-comparison
reading sources... [ 92%] topical-bam
reading sources... [ 93%] topical-bam-semantics
reading sources... [ 93%] topical-comparisons
reading sources... [ 94%] topical-create-a-bedtool
reading sources... [ 95%] topical-design-principles
reading sources... [ 95%] topical-documentation-contents
reading sources... [ 96%] topical-genome
reading sources... [ 96%] topical-iterators
reading sources... [ 97%] topical-low-level-ops
reading sources... [ 98%] topical-random
reading sources... [ 98%] topical-saving
reading sources... [ 99%] topical-wrapping
reading sources... [100%] tutorial-contents
/usr/lib/python3/dist-packages/numpydoc/docscrape.py:139: UserWarning: Unknown section Example
warn("Unknown section %s" % key)
/usr/lib/python3/dist-packages/numpydoc/docscrape.py:139: UserWarning: Unknown section Example
warn("Unknown section %s" % key)
/<<PKGBUILDDIR>>/pybedtools/contrib/intersection_matrix.py:docstring of pybedtools.contrib.IntersectionMatrix:1: WARNING: Literal block expected; none found.
/<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.contrib.plotting.Track.rst:14: WARNING: failed to import Track.get_axes
/<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.contrib.plotting.Track.rst:14: WARNING: failed to import Track.set_axes
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
writing output... [ 0%] 3-brief-examples
writing output... [ 1%] FAQs
writing output... [ 1%] autodoc_source
writing output... [ 2%] autodocs/pybedtools.bedtool.BedTool
writing output... [ 3%] autodocs/pybedtools.bedtool.BedTool.absolute_distance
writing output... [ 3%] autodocs/pybedtools.bedtool.BedTool.all_hits
writing output... [ 4%] autodocs/pybedtools.bedtool.BedTool.annotate
writing output... [ 4%] autodocs/pybedtools.bedtool.BedTool.any_hits
writing output... [ 5%] autodocs/pybedtools.bedtool.BedTool.as_intervalfile
writing output... [ 6%] autodocs/pybedtools.bedtool.BedTool.at
writing output... [ 6%] autodocs/pybedtools.bedtool.BedTool.bam_to_bed
writing output... [ 7%] autodocs/pybedtools.bedtool.BedTool.bam_to_fastq
writing output... [ 7%] autodocs/pybedtools.bedtool.BedTool.bed6
writing output... [ 8%] autodocs/pybedtools.bedtool.BedTool.bedpe_to_bam
writing output... [ 9%] autodocs/pybedtools.bedtool.BedTool.bgzip
writing output... [ 9%] autodocs/pybedtools.bedtool.BedTool.cat
writing output... [ 10%] autodocs/pybedtools.bedtool.BedTool.closest
writing output... [ 10%] autodocs/pybedtools.bedtool.BedTool.cluster
writing output... [ 11%] autodocs/pybedtools.bedtool.BedTool.colormap_normalize
writing output... [ 12%] autodocs/pybedtools.bedtool.BedTool.complement
writing output... [ 12%] autodocs/pybedtools.bedtool.BedTool.count
writing output... [ 13%] autodocs/pybedtools.bedtool.BedTool.count_hits
writing output... [ 13%] autodocs/pybedtools.bedtool.BedTool.coverage
writing output... [ 14%] autodocs/pybedtools.bedtool.BedTool.cut
writing output... [ 15%] autodocs/pybedtools.bedtool.BedTool.each
writing output... [ 15%] autodocs/pybedtools.bedtool.BedTool.expand
writing output... [ 16%] autodocs/pybedtools.bedtool.BedTool.field_count
writing output... [ 16%] autodocs/pybedtools.bedtool.BedTool.file_type
writing output... [ 17%] autodocs/pybedtools.bedtool.BedTool.filter
writing output... [ 18%] autodocs/pybedtools.bedtool.BedTool.flank
writing output... [ 18%] autodocs/pybedtools.bedtool.BedTool.genome_coverage
writing output... [ 19%] autodocs/pybedtools.bedtool.BedTool.groupby
writing output... [ 19%] autodocs/pybedtools.bedtool.BedTool.head
writing output... [ 20%] autodocs/pybedtools.bedtool.BedTool.igv
writing output... [ 21%] autodocs/pybedtools.bedtool.BedTool.intersect
writing output... [ 21%] autodocs/pybedtools.bedtool.BedTool.introns
writing output... [ 22%] autodocs/pybedtools.bedtool.BedTool.jaccard
writing output... [ 22%] autodocs/pybedtools.bedtool.BedTool.liftover
writing output... [ 23%] autodocs/pybedtools.bedtool.BedTool.links
writing output... [ 24%] autodocs/pybedtools.bedtool.BedTool.map
writing output... [ 24%] autodocs/pybedtools.bedtool.BedTool.mask_fasta
writing output... [ 25%] autodocs/pybedtools.bedtool.BedTool.merge
writing output... [ 25%] autodocs/pybedtools.bedtool.BedTool.moveto
writing output... [ 26%] autodocs/pybedtools.bedtool.BedTool.multi_bam_coverage
writing output... [ 27%] autodocs/pybedtools.bedtool.BedTool.multi_intersect
writing output... [ 27%] autodocs/pybedtools.bedtool.BedTool.nucleotide_content
writing output... [ 28%] autodocs/pybedtools.bedtool.BedTool.overlap
writing output... [ 28%] autodocs/pybedtools.bedtool.BedTool.pair_to_bed
writing output... [ 29%] autodocs/pybedtools.bedtool.BedTool.pair_to_pair
writing output... [ 30%] autodocs/pybedtools.bedtool.BedTool.parallel_apply
writing output... [ 30%] autodocs/pybedtools.bedtool.BedTool.print_sequence
writing output... [ 31%] autodocs/pybedtools.bedtool.BedTool.random
writing output... [ 31%] autodocs/pybedtools.bedtool.BedTool.random_jaccard
writing output... [ 32%] autodocs/pybedtools.bedtool.BedTool.random_op
writing output... [ 33%] autodocs/pybedtools.bedtool.BedTool.random_subset
writing output... [ 33%] autodocs/pybedtools.bedtool.BedTool.randomintersection
writing output... [ 34%] autodocs/pybedtools.bedtool.BedTool.randomintersection_bp
writing output... [ 34%] autodocs/pybedtools.bedtool.BedTool.randomstats
writing output... [ 35%] autodocs/pybedtools.bedtool.BedTool.relative_distance
writing output... [ 36%] autodocs/pybedtools.bedtool.BedTool.reldist
writing output... [ 36%] autodocs/pybedtools.bedtool.BedTool.remove_invalid
writing output... [ 37%] autodocs/pybedtools.bedtool.BedTool.save_seqs
writing output... [ 37%] autodocs/pybedtools.bedtool.BedTool.saveas
writing output... [ 38%] autodocs/pybedtools.bedtool.BedTool.seq
writing output... [ 39%] autodocs/pybedtools.bedtool.BedTool.sequence
writing output... [ 39%] autodocs/pybedtools.bedtool.BedTool.set_chromsizes
writing output... [ 40%] autodocs/pybedtools.bedtool.BedTool.shuffle
writing output... [ 40%] autodocs/pybedtools.bedtool.BedTool.slop
writing output... [ 41%] autodocs/pybedtools.bedtool.BedTool.sort
writing output... [ 42%] autodocs/pybedtools.bedtool.BedTool.split
writing output... [ 42%] autodocs/pybedtools.bedtool.BedTool.subtract
writing output... [ 43%] autodocs/pybedtools.bedtool.BedTool.tabix
writing output... [ 43%] autodocs/pybedtools.bedtool.BedTool.tabix_intervals
writing output... [ 44%] autodocs/pybedtools.bedtool.BedTool.tag_bam
writing output... [ 45%] autodocs/pybedtools.bedtool.BedTool.to_bam
writing output... [ 45%] autodocs/pybedtools.bedtool.BedTool.total_coverage
writing output... [ 46%] autodocs/pybedtools.bedtool.BedTool.truncate_to_chrom
writing output... [ 46%] autodocs/pybedtools.bedtool.BedTool.union_bedgraphs
writing output... [ 47%] autodocs/pybedtools.bedtool.BedTool.window
writing output... [ 48%] autodocs/pybedtools.bedtool.BedTool.window_maker
writing output... [ 48%] autodocs/pybedtools.bedtool.BedTool.with_attrs
writing output... [ 49%] autodocs/pybedtools.bedtool.example_bedtool
writing output... [ 50%] autodocs/pybedtools.cbedtools.Interval
writing output... [ 50%] autodocs/pybedtools.cbedtools.create_interval_from_list
writing output... [ 51%] autodocs/pybedtools.contrib.IntersectionMatrix
writing output... [ 51%] autodocs/pybedtools.contrib.MultiClassifier
writing output... [ 52%] autodocs/pybedtools.contrib.MultiClassifier.classify
writing output... [ 53%] autodocs/pybedtools.contrib.MultiClassifier.print_table
writing output... [ 53%] autodocs/pybedtools.contrib.bigbed.bigbed
writing output... [ 54%] autodocs/pybedtools.contrib.bigbed.bigbed_to_bed
writing output... [ 54%] autodocs/pybedtools.contrib.bigwig.bam_to_bigwig
writing output... [ 55%] autodocs/pybedtools.contrib.bigwig.bedgraph_to_bigwig
writing output... [ 56%] autodocs/pybedtools.contrib.bigwig.wig_to_bigwig
writing output... [ 56%] autodocs/pybedtools.contrib.long_range_interaction.cis_trans_interactions
writing output... [ 57%] autodocs/pybedtools.contrib.long_range_interaction.tag_bedpe
writing output... [ 57%] autodocs/pybedtools.contrib.plotting.BedToolsDemo
writing output... [ 58%] autodocs/pybedtools.contrib.plotting.ConfiguredBedToolsDemo
writing output... [ 59%] autodocs/pybedtools.contrib.plotting.Track
writing output... [ 59%] autodocs/pybedtools.contrib.plotting.TrackCollection
writing output... [ 60%] autodocs/pybedtools.contrib.plotting.binary_heatmap
writing output... [ 60%] autodocs/pybedtools.contrib.plotting.binary_summary
writing output... [ 61%] autodocs/pybedtools.contrib.venn_maker
writing output... [ 62%] autodocs/pybedtools.contrib.venn_maker.cleaned_intersect
writing output... [ 62%] autodocs/pybedtools.contrib.venn_maker.venn_maker
writing output... [ 63%] autodocs/pybedtools.debug_mode
writing output... [ 63%] autodocs/pybedtools.filenames.example_filename
writing output... [ 64%] autodocs/pybedtools.filenames.list_example_files
writing output... [ 65%] autodocs/pybedtools.helpers.chromsizes
writing output... [ 65%] autodocs/pybedtools.helpers.chromsizes_to_file
writing output... [ 66%] autodocs/pybedtools.helpers.cleanup
writing output... [ 66%] autodocs/pybedtools.helpers.get_chromsizes_from_ucsc
writing output... [ 67%] autodocs/pybedtools.helpers.get_tempdir
writing output... [ 68%] autodocs/pybedtools.helpers.set_bedtools_path
writing output... [ 68%] autodocs/pybedtools.helpers.set_tempdir
writing output... [ 69%] autodocs/pybedtools.parallel.parallel_apply
writing output... [ 69%] autodocs/pybedtools.scripts.annotate
writing output... [ 70%] autodocs/pybedtools.scripts.intersection_matrix
writing output... [ 71%] autodocs/pybedtools.scripts.intron_exon_reads
writing output... [ 71%] autodocs/pybedtools.scripts.py_ms_example
writing output... [ 72%] autodocs/pybedtools.scripts.venn_gchart
writing output... [ 72%] autodocs/pybedtools.scripts.venn_mpl
writing output... [ 73%] changes
writing output... [ 74%] create-a-bedtool-tutorial
writing output... [ 74%] default-arguments
writing output... [ 75%] each
writing output... [ 75%] filtering
writing output... [ 76%] flow-of-commands
writing output... [ 77%] history
writing output... [ 77%] includeme
writing output... [ 78%] index
writing output... [ 78%] intersections
writing output... [ 79%] intervals
writing output... [ 80%] intro
writing output... [ 80%] main
writing output... [ 81%] piping
writing output... [ 81%] pybedtools-dev-history
writing output... [ 82%] pybedtools.featurefuncs.TSS
writing output... [ 83%] pybedtools.featurefuncs.add_color
writing output... [ 83%] pybedtools.featurefuncs.bed2gff
writing output... [ 84%] pybedtools.featurefuncs.bedgraph_scale
writing output... [ 84%] pybedtools.featurefuncs.center
writing output... [ 85%] pybedtools.featurefuncs.extend_fields
writing output... [ 86%] pybedtools.featurefuncs.five_prime
writing output... [ 86%] pybedtools.featurefuncs.gff2bed
writing output... [ 87%] pybedtools.featurefuncs.greater_than
writing output... [ 87%] pybedtools.featurefuncs.less_than
writing output... [ 88%] pybedtools.featurefuncs.midpoint
writing output... [ 89%] pybedtools.featurefuncs.normalized_to_length
writing output... [ 89%] pybedtools.featurefuncs.rename
writing output... [ 90%] pybedtools.featurefuncs.three_prime
writing output... [ 90%] save-results
writing output... [ 91%] scripts
writing output... [ 92%] sh-comparison
writing output... [ 92%] topical-bam
writing output... [ 93%] topical-bam-semantics
writing output... [ 93%] topical-comparisons
writing output... [ 94%] topical-create-a-bedtool
writing output... [ 95%] topical-design-principles
writing output... [ 95%] topical-documentation-contents
writing output... [ 96%] topical-genome
writing output... [ 96%] topical-iterators
writing output... [ 97%] topical-low-level-ops
writing output... [ 98%] topical-random
writing output... [ 98%] topical-saving
writing output... [ 99%] topical-wrapping
writing output... [100%] tutorial-contents
/<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.expand.rst:13: WARNING: Could not lex literal_block as "python". Highlighting skipped.
/<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.groupby.rst:32: WARNING: Could not lex literal_block as "python". Highlighting skipped.
/<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.overlap.rst:24: WARNING: Could not lex literal_block as "python". Highlighting skipped.
/<<PKGBUILDDIR>>/docs/source/autodocs/pybedtools.bedtool.BedTool.window_maker.rst:20: WARNING: Could not lex literal_block as "python". Highlighting skipped.
/<<PKGBUILDDIR>>/docs/source/default-arguments.rst:35: WARNING: Could not lex literal_block as "python". Highlighting skipped.
/<<PKGBUILDDIR>>/docs/source/topical-design-principles.rst:120: WARNING: unknown option: mergeBed -i
/<<PKGBUILDDIR>>/docs/source/topical-design-principles.rst:127: WARNING: unknown option: -i
generating indices... genindex py-modindex
highlighting module code... [ 7%] pybedtools
highlighting module code... [ 14%] pybedtools.bedtool
highlighting module code... [ 21%] pybedtools.cbedtools
highlighting module code... [ 28%] pybedtools.contrib.bigbed
highlighting module code... [ 35%] pybedtools.contrib.bigwig
highlighting module code... [ 42%] pybedtools.contrib.classifier
highlighting module code... [ 50%] pybedtools.contrib.intersection_matrix
highlighting module code... [ 57%] pybedtools.contrib.long_range_interaction
highlighting module code... [ 64%] pybedtools.contrib.plotting
highlighting module code... [ 71%] pybedtools.contrib.venn_maker
highlighting module code... [ 78%] pybedtools.featurefuncs
highlighting module code... [ 85%] pybedtools.filenames
highlighting module code... [ 92%] pybedtools.helpers
highlighting module code... [100%] pybedtools.parallel
writing additional pages... search
copying images... [ 50%] images/gchart.png
copying images... [100%] images/mpl.png
copying static files... done
copying extra files... done
dumping search index in English (code: en) ... done
dumping object inventory... done
build succeeded, 10 warnings.
The HTML pages are in build/sphinx/html.
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a -O--buildsystem=pybuild
I: pybuild pybuild:267: cp /<<PKGBUILDDIR>>/debian/mpl-expected.png /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/
I: pybuild base:217: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build; python3.6 -m nose --attr '!url'
...................................F................................F.....F............................................................................................................................................................................................................................................................................................................................................................................................................FFFF.............S..
======================================================================
FAIL: pybedtools.test.test1.test_randomstats
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test1.py", line 796, in test_randomstats
assert results['percentile'] == 89.5
AssertionError
======================================================================
FAIL: pybedtools.test.test1.test_random
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test1.py", line 1396, in test_random
""")
AssertionError
======================================================================
FAIL: pybedtools.test.test1.test_reldist
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test1.py", line 1461, in test_reldist
assert results == {'reldist': [0.15, 0.21, 0.28], 'count': [1, 1, 1], 'total': [3, 3, 3], 'fraction': [0.333, 0.333, 0.333]}, results
AssertionError: {'reldist': [0.16, 0.2, 0.21], 'count': [1, 1, 1], 'total': [3, 3, 3], 'fraction': [0.333, 0.333, 0.333]}
======================================================================
FAIL: sample, i=filename ibam=False, {'seed': 1, 'n': 2}
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test_iter.py", line 68, in run
assert res == expected
AssertionError:
-------------------- >> begin captured stdout << ---------------------
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/tmp/pybedtools.9vfqcwh1.tmp
Method call:
BedTool.sample(seed=1, n=2)
Got:
chr2L 70 75 None 255 +
chr2L 70 75 None 255 -
Expected:
chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L 70 75 None 255 +
+chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Showing special characters:
Got:
chr2L\t70\t75\tNone\t255\t+\n
chr2L\t70\t75\tNone\t255\t-\n
Expected:
chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L\t70\t75\tNone\t255\t+\n
+chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
--------------------- >> end captured stdout << ----------------------
======================================================================
FAIL: sample, i=generator ibam=False, {'seed': 1, 'n': 2}
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test_iter.py", line 68, in run
assert res == expected
AssertionError:
-------------------- >> begin captured stdout << ---------------------
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/tmp/pybedtools.abeko165.tmp
Method call:
BedTool.sample(seed=1, n=2)
Got:
chr2L 70 75 None 255 +
chr2L 70 75 None 255 -
Expected:
chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L 70 75 None 255 +
+chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Showing special characters:
Got:
chr2L\t70\t75\tNone\t255\t+\n
chr2L\t70\t75\tNone\t255\t-\n
Expected:
chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L\t70\t75\tNone\t255\t+\n
+chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
--------------------- >> end captured stdout << ----------------------
======================================================================
FAIL: sample, i=stream ibam=False, {'seed': 1, 'n': 2}
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test_iter.py", line 68, in run
assert res == expected
AssertionError:
-------------------- >> begin captured stdout << ---------------------
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/tmp/pybedtools.k83s5_i6.tmp
Method call:
BedTool.sample(seed=1, n=2)
Got:
chr2L 70 75 None 255 +
chr2L 70 75 None 255 -
Expected:
chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L 70 75 None 255 +
+chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Showing special characters:
Got:
chr2L\t70\t75\tNone\t255\t+\n
chr2L\t70\t75\tNone\t255\t-\n
Expected:
chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L\t70\t75\tNone\t255\t+\n
+chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
--------------------- >> end captured stdout << ----------------------
======================================================================
FAIL: sample, i=gzip ibam=False, {'seed': 1, 'n': 2}
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/test_iter.py", line 68, in run
assert res == expected
AssertionError:
-------------------- >> begin captured stdout << ---------------------
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build/pybedtools/test/tmp/pybedtools.fprbaday.tmp
Method call:
BedTool.sample(seed=1, n=2)
Got:
chr2L 70 75 None 255 +
chr2L 70 75 None 255 -
Expected:
chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L 70 75 None 255 +
+chr2L 140 145 None 255 -
chr2L 70 75 None 255 -
Showing special characters:
Got:
chr2L\t70\t75\tNone\t255\t+\n
chr2L\t70\t75\tNone\t255\t-\n
Expected:
chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
Diff:
---
+++
@@ -1,2 +1,2 @@
-chr2L\t70\t75\tNone\t255\t+\n
+chr2L\t140\t145\tNone\t255\t-\n
chr2L\t70\t75\tNone\t255\t-\n
--------------------- >> end captured stdout << ----------------------
----------------------------------------------------------------------
Ran 491 tests in 126.251s
FAILED (SKIP=1, failures=7)
E: pybuild pybuild:336: test: plugin distutils failed with: exit code=1: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.6_pybedtools/build; python3.6 -m nose --attr '!url'
dh_auto_test: pybuild --test --test-nose -i python{version} -p 3.6 returned exit code 13
debian/rules:14: recipe for target 'build-arch' failed
make: *** [build-arch] Error 25
dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2018-06-24T12:19:31Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 0
Build-Time: 704
Distribution: buster-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 1437
Job: python-pybedtools_0.7.10-2
Machine Architecture: armhf
Package: python-pybedtools
Package-Time: 2193
Source-Version: 0.7.10-2
Space: 0
Status: failed
Version: 0.7.10-2
--------------------------------------------------------------------------------
Finished at 2018-06-24T12:19:31Z
Build needed 00:00:00, 0k disc space