[med-svn] r20226 - in trunk/packages: . python-pyvcf python-pyvcf/trunk python-pyvcf/trunk/debian python-pyvcf/trunk/debian/source

Andreas Tille tille at moszumanska.debian.org
Tue Oct 13 20:28:17 UTC 2015


Author: tille
Date: 2015-10-13 20:28:16 +0000 (Tue, 13 Oct 2015)
New Revision: 20226

Added:
   trunk/packages/python-pyvcf/
   trunk/packages/python-pyvcf/trunk/
   trunk/packages/python-pyvcf/trunk/debian/
   trunk/packages/python-pyvcf/trunk/debian/changelog
   trunk/packages/python-pyvcf/trunk/debian/compat
   trunk/packages/python-pyvcf/trunk/debian/control
   trunk/packages/python-pyvcf/trunk/debian/copyright
   trunk/packages/python-pyvcf/trunk/debian/rules
   trunk/packages/python-pyvcf/trunk/debian/source/
   trunk/packages/python-pyvcf/trunk/debian/source/format
   trunk/packages/python-pyvcf/trunk/debian/watch
Log:
Inject python-pyvcf


Added: trunk/packages/python-pyvcf/trunk/debian/changelog
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/changelog	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1,5 @@
+python-pyvcf (0.6.7-1) UNRELEASED; urgency=medium
+
+  * Initial upload (Closes: #??)
+
+ -- Andreas Tille <tille at debian.org>  Tue, 13 Oct 2015 17:02:08 +0200

Added: trunk/packages/python-pyvcf/trunk/debian/compat
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/compat	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1 @@
+9

Added: trunk/packages/python-pyvcf/trunk/debian/control
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/control	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/control	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1,61 @@
+Source: python-pyvcf
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>
+Section: python
+Priority: optional
+Build-Depends: debhelper (>= 9),
+               dh-python,
+               cython,
+               python-dev (>= 2.7),
+               python-setuptools,
+               cython3,
+               python3-dev,
+               python3-setuptools
+Standards-Version: 3.9.6
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/python-pyvcf/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/python-pyvcf/trunk/
+Homepage: https://pypi.python.org/pypi/PyVCF
+
+Package: python-pyvcf
+Architecture: any
+Depends: ${shlibs:Depends},
+         ${misc:Depends},
+         ${python:Depends}
+Description: Variant Call Format (VCF) parser for Python
+ The Variant Call Format (VCF) specifies the format of a text file used
+ in bioinformatics for storing gene sequence variations. The format has
+ been developed with the advent of large-scale genotyping and DNA
+ sequencing projects, such as the 1000 Genomes Project.
+ .
+ The intent of this module is to mimic the ``csv`` module in the Python
+ stdlib, as opposed to more flexible serialization formats like JSON or
+ YAML. ``vcf`` will attempt to parse the content of each record based on
+ the data types specified in the meta-information lines -- specifically
+ the ##INFO and
+ ##FORMAT lines. If these lines are missing or incomplete, it will check
+ against the reserved types mentioned in the spec. Failing that, it will
+ just return strings.
+ .
+ This package provides the Python 2 modules.
+
+Package: python3-pyvcf
+Architecture: any
+Depends: ${shlibs:Depends},
+         ${misc:Depends},
+         ${python3:Depends}
+Description: Variant Call Format (VCF) parser for Python 3
+ The Variant Call Format (VCF) specifies the format of a text file used
+ in bioinformatics for storing gene sequence variations. The format has
+ been developed with the advent of large-scale genotyping and DNA
+ sequencing projects, such as the 1000 Genomes Project.
+ .
+ The intent of this module is to mimic the ``csv`` module in the Python
+ stdlib, as opposed to more flexible serialization formats like JSON or
+ YAML. ``vcf`` will attempt to parse the content of each record based on
+ the data types specified in the meta-information lines -- specifically
+ the ##INFO and
+ ##FORMAT lines. If these lines are missing or incomplete, it will check
+ against the reserved types mentioned in the spec. Failing that, it will
+ just return strings.
+ .
+ This package provides the Python 3 modules.

Added: trunk/packages/python-pyvcf/trunk/debian/copyright
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/copyright	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1,38 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: PyVCF
+Upstream-Contact: James Casbon <casbon at gmail.com>
+Source: https://pypi.python.org/pypi/PyVCF
+
+Files: *
+Copyright: 2011-2015, Population Genetics Technologies Ltd, All rights reserved.
+License: BSD-3-clause
+
+Files: debian/*
+Copyright: 2015 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:
+ .
+ 1. Redistributions of source code must retain the above copyright notice, this
+    list of conditions and the following disclaimer.  
+ .
+ 2. 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.  
+ .
+ 3. Neither the name of the Population Genetics Technologies Ltd 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-pyvcf/trunk/debian/rules
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/rules	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1,11 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+export PYBUILD_NAME=pyvcf
+
+%:
+	dh $@ --with python2,python3 --buildsystem=pybuild
+


Property changes on: trunk/packages/python-pyvcf/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/python-pyvcf/trunk/debian/source/format
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/source/format	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/python-pyvcf/trunk/debian/watch
===================================================================
--- trunk/packages/python-pyvcf/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/python-pyvcf/trunk/debian/watch	2015-10-13 20:28:16 UTC (rev 20226)
@@ -0,0 +1,2 @@
+version=3
+https://pypi.python.org/pypi/PyVCF .*/PyVCF-([0-9.]+).tar.[xgb]z2?




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