[med-svn] r19760 - in trunk/packages: . python-skbio python-skbio/trunk python-skbio/trunk/debian python-skbio/trunk/debian/source
Andreas Tille
tille at moszumanska.debian.org
Wed Jul 29 15:06:41 UTC 2015
Author: tille
Date: 2015-07-29 15:06:40 +0000 (Wed, 29 Jul 2015)
New Revision: 19760
Added:
trunk/packages/python-skbio/
trunk/packages/python-skbio/trunk/
trunk/packages/python-skbio/trunk/debian/
trunk/packages/python-skbio/trunk/debian/changelog
trunk/packages/python-skbio/trunk/debian/compat
trunk/packages/python-skbio/trunk/debian/control
trunk/packages/python-skbio/trunk/debian/copyright
trunk/packages/python-skbio/trunk/debian/python-skbio.install
trunk/packages/python-skbio/trunk/debian/python3-skbio.install
trunk/packages/python-skbio/trunk/debian/rules
trunk/packages/python-skbio/trunk/debian/source/
trunk/packages/python-skbio/trunk/debian/source/format
trunk/packages/python-skbio/trunk/debian/watch
Log:
Inject python-skbio as per BioLinux + some enhancements (including renaming source package from skbio to python-skbio)
Added: trunk/packages/python-skbio/trunk/debian/changelog
===================================================================
--- trunk/packages/python-skbio/trunk/debian/changelog (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/changelog 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1,12 @@
+python-skbio (0.2.3-1) UNRELEASED; urgency=medium
+
+ * Initial upload to Debian (Closes: #???)
+
+ -- Andreas Tille <tille at debian.org> Wed, 29 Jul 2015 17:02:03 +0200
+
+skbio (0.2.3-0biolinux2) trusty; urgency=medium
+
+ * Initial release for QIIME 1.9.0
+ * Note that this build does include compiled code and so must be arch=any
+
+ -- Tim Booth <tbooth at ceh.ac.uk> Mon, 23 Feb 2015 17:46:31 +0000
Added: trunk/packages/python-skbio/trunk/debian/compat
===================================================================
--- trunk/packages/python-skbio/trunk/debian/compat (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/compat 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1 @@
+9
Added: trunk/packages/python-skbio/trunk/debian/control
===================================================================
--- trunk/packages/python-skbio/trunk/debian/control (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/control 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1,51 @@
+Source: python-skbio
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Tim Booth <tbooth at ceh.ac.uk>,
+ Andreas Tille <tille at debian.org>
+Section: python
+Priority: optional
+Build-Depends: debhelper (>= 9),
+ python-all (>= 2.7),
+ python-support,
+ python3,
+ dh-python,
+ python-dev,
+ python3-dev,
+ python-setuptools,
+ python3-setuptools,
+ python-numpy,
+ python3-numpy,
+ python-natsort,
+ python3-natsort,
+ python-pandas,
+ python3-pandas,
+ python-matplotlib,
+ python3-matplotlib,
+ python-scipy,
+ python3-scipy
+Standards-Version: 3.9.6
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/python-skbio/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/python-skbio/trunk/
+Homepage: https://github.com/biocore/scikit-bio
+
+Package: python-skbio
+Architecture: any
+Depends: ${shlibs:Depends},
+ ${misc:Depends},
+ ${python:Depends}
+Description: Python data structures, algorithms, educational resources for bioinformatics
+ scikit-bio is an open-source, BSD-licensed, python package providing data
+ structures, algorithms, and educational resources for bioinformatics.
+ .
+ It is used as a dependency by various projects including QIIME
+
+Package: python3-skbio
+Architecture: any
+Depends: ${shlibs:Depends},
+ ${misc:Depends},
+ ${python3:Depends}
+Description: Python3 data structures, algorithms, educational resources for bioinformatic
+ scikit-bio is an open-source, BSD-licensed, python package providing data
+ structures, algorithms, and educational resources for bioinformatics.
+ .
+ This is the package for Python3
Added: trunk/packages/python-skbio/trunk/debian/copyright
===================================================================
--- trunk/packages/python-skbio/trunk/debian/copyright (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/copyright 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1,39 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: scikit-bio
+Upstream-Contact: gregcaporaso at gmail.com
+Source: https://github.com/biocore/scikit-bio
+
+Files: *
+Copyright: 2013-2015 scikit-bio development team.
+License: BSD-3-clause
+
+Files: debian/*
+Copyright: 2015 Tim Booth <tbooth at ceh.ac.uk>
+ Andreas Tille <tille at debian.org>
+License: BSD-3-clause
+
+License: BSD-3-clause
+ Redistribution and use in source and binary forms, with or without modification,
+ are permitted provided that the following conditions are met:
+ .
+ * Redistributions of source code must retain the above copyright notice, this
+ list of conditions and the following disclaimer.
+ .
+ * Redistributions in binary form must reproduce the above copyright notice, this
+ list of conditions and the following disclaimer in the documentation and/or
+ other materials provided with the distribution.
+ .
+ * Neither the names scikit-bio, skbio, or biocore nor the names of its
+ contributors may be used to endorse or promote products derived from
+ this software without specific prior written permission.
+ .
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
Added: trunk/packages/python-skbio/trunk/debian/python-skbio.install
===================================================================
--- trunk/packages/python-skbio/trunk/debian/python-skbio.install (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/python-skbio.install 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1 @@
+/usr/lib/python2*
Added: trunk/packages/python-skbio/trunk/debian/python3-skbio.install
===================================================================
--- trunk/packages/python-skbio/trunk/debian/python3-skbio.install (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/python3-skbio.install 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1 @@
+/usr/lib/python3*
Added: trunk/packages/python-skbio/trunk/debian/rules
===================================================================
--- trunk/packages/python-skbio/trunk/debian/rules (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/rules 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1,24 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+PKG := $(shell dpkg-parsechangelog | sed -n 's/^Source: //p')
+
+%:
+ dh $@ --with python2,python3 --buildsystem=pybuild
+
+override_dh_auto_test:
+ #Loads of failures at this point.
+ dh_auto_test || true
+
+override_dh_install:
+ # Do this after running the tests
+ find debian/tmp/usr -name tests -prune -exec rm -rf '{}' ';'
+ dh_install
+
+override_dh_clean:
+ dh_clean
+ rm -f .t* .c*
+ find ./skbio -name '*.so' -delete
Property changes on: trunk/packages/python-skbio/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/python-skbio/trunk/debian/source/format
===================================================================
--- trunk/packages/python-skbio/trunk/debian/source/format (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/source/format 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/python-skbio/trunk/debian/watch
===================================================================
--- trunk/packages/python-skbio/trunk/debian/watch (rev 0)
+++ trunk/packages/python-skbio/trunk/debian/watch 2015-07-29 15:06:40 UTC (rev 19760)
@@ -0,0 +1,2 @@
+version=3
+https://github.com/biocore/scikit-bio/releases .*/scikit-bio/archive/([.0-9]+)\.tar\.gz
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