[med-svn] r12509 - in trunk/packages: . oases oases/trunk oases/trunk/debian oases/trunk/debian/source
Andreas Tille
tille at alioth.debian.org
Wed Nov 7 15:06:06 UTC 2012
Author: tille
Date: 2012-11-07 15:06:06 +0000 (Wed, 07 Nov 2012)
New Revision: 12509
Added:
trunk/packages/oases/
trunk/packages/oases/trunk/
trunk/packages/oases/trunk/debian/
trunk/packages/oases/trunk/debian/changelog
trunk/packages/oases/trunk/debian/compat
trunk/packages/oases/trunk/debian/control
trunk/packages/oases/trunk/debian/copyright
trunk/packages/oases/trunk/debian/rules
trunk/packages/oases/trunk/debian/source/
trunk/packages/oases/trunk/debian/source/format
trunk/packages/oases/trunk/debian/upstream
trunk/packages/oases/trunk/debian/watch
Log:
Inject machine readable files for oases packaging
Added: trunk/packages/oases/trunk/debian/changelog
===================================================================
--- trunk/packages/oases/trunk/debian/changelog (rev 0)
+++ trunk/packages/oases/trunk/debian/changelog 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1,5 @@
+oases (0.2.08-1) unstable; urgency=low
+
+ * Initial release (Closes: #<bug>)
+
+ -- DMPT <debian-med-packaging at lists.alioth.debian.org> Thu, 24 May 2012 14:30:13 +0200
Added: trunk/packages/oases/trunk/debian/compat
===================================================================
--- trunk/packages/oases/trunk/debian/compat (rev 0)
+++ trunk/packages/oases/trunk/debian/compat 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1 @@
+9
Added: trunk/packages/oases/trunk/debian/control
===================================================================
--- trunk/packages/oases/trunk/debian/control (rev 0)
+++ trunk/packages/oases/trunk/debian/control 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1,21 @@
+Source: oases
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>
+Build-Depends: debhelper (>= 9)
+Standards-Version: 3.9.4
+Homepage: https://www.ebi.ac.uk/~zerbino/oases/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/oases/trunk/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/oases/trunk/
+
+Package: oases
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: de novo transcriptome assembler for very short reads
+ Oases is a de novo transcriptome assembler designed to produce
+ transcripts from short read sequencing technologies, such as Illumina,
+ SOLiD, or 454 in the absence of any genomic assembly. Oases uploads a
+ preliminary assembly produced by Velvet, and clusters the contigs into
+ small groups, called loci. It then exploits the paired-end read and long
+ read information, when available, to construct transcript isoforms.
Added: trunk/packages/oases/trunk/debian/copyright
===================================================================
--- trunk/packages/oases/trunk/debian/copyright (rev 0)
+++ trunk/packages/oases/trunk/debian/copyright 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1,26 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: oases
+Source: https://www.ebi.ac.uk/~zerbino/oases/
+
+Files: *
+Copyright: © 2010-2011, Daniel Zerbino <dzerbino at soe.ucsc.edu>
+ Marcel Schulz <marcel.schulz at molgen.mpg.de>
+License: GPL-3
+
+Files: debian/*
+Copyright: © 2012 Andreas Tille <tille at debian.org>
+License: GPL-3
+
+License: GPL-3
+ This program is free software: you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation, either version 3 of the License, or
+ (at your option) any later version.
+ .
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ On Debian systems you can find a copy of the GNU General Public License
+ version 3 at /usr/share/common-licenses/GPL-3
Added: trunk/packages/oases/trunk/debian/rules
===================================================================
--- trunk/packages/oases/trunk/debian/rules (rev 0)
+++ trunk/packages/oases/trunk/debian/rules 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1,6 @@
+#!/usr/bin/make -f
+
+# DH_VERBOSE := 1
+
+%:
+ dh $@
Property changes on: trunk/packages/oases/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/oases/trunk/debian/source/format
===================================================================
--- trunk/packages/oases/trunk/debian/source/format (rev 0)
+++ trunk/packages/oases/trunk/debian/source/format 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/oases/trunk/debian/upstream
===================================================================
--- trunk/packages/oases/trunk/debian/upstream (rev 0)
+++ trunk/packages/oases/trunk/debian/upstream 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1,12 @@
+Reference:
+ Author: Marcel H. Schulz and Daniel R. Zerbino and Martin Vingron1 and Ewan Birney
+ Title: "Oases: Robust de novo RNA-seq assembly across the dynamic range of expression levels"
+ Journal: Bioinformatics
+ Year: 2012
+ Volume: 28
+ Number: 8
+ Pages: 1086-1092
+ DOI: 10.1093/bioinformatics/bts094
+ PMID: 22368243
+ URL: http://bioinformatics.oxfordjournals.org/content/28/8/1086
+ eprint: http://bioinformatics.oxfordjournals.org/content/28/8/1086.full.pdf+html
Added: trunk/packages/oases/trunk/debian/watch
===================================================================
--- trunk/packages/oases/trunk/debian/watch (rev 0)
+++ trunk/packages/oases/trunk/debian/watch 2012-11-07 15:06:06 UTC (rev 12509)
@@ -0,0 +1,2 @@
+version=3
+http://www.ebi.ac.uk/~zerbino/oases/ oases_([\d.]+)\.tgz
More information about the debian-med-commit
mailing list