[med-svn] r11205 - in trunk/packages: . mugsy mugsy/trunk mugsy/trunk/debian

[Andreas Tille]

Author: tille
Date: 2012-06-05 06:49:04 +0000 (Tue, 05 Jun 2012)
New Revision: 11205

Added:
   trunk/packages/mugsy/
   trunk/packages/mugsy/trunk/
   trunk/packages/mugsy/trunk/debian/
   trunk/packages/mugsy/trunk/debian/changelog
   trunk/packages/mugsy/trunk/debian/compat
   trunk/packages/mugsy/trunk/debian/control
   trunk/packages/mugsy/trunk/debian/copyright
   trunk/packages/mugsy/trunk/debian/rules
   trunk/packages/mugsy/trunk/debian/upstream
Log:
Turn information from task file about mugsy into machine readable packaging files


Added: trunk/packages/mugsy/trunk/debian/changelog
===================================================================
--- trunk/packages/mugsy/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/mugsy/trunk/debian/changelog	2012-06-05 06:49:04 UTC (rev 11205)
@@ -0,0 +1,5 @@
+mugsy (1.2.3-2) UNRELEASED; urgency=low
+
+  * Initial release
+
+ -- Andreas Tille <tille at debian.org>  Tue, 05 Jun 2012 08:40:58 +0200

Added: trunk/packages/mugsy/trunk/debian/compat
===================================================================
--- trunk/packages/mugsy/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/mugsy/trunk/debian/compat	2012-06-05 06:49:04 UTC (rev 11205)
@@ -0,0 +1 @@
+9

Added: trunk/packages/mugsy/trunk/debian/control
===================================================================
--- trunk/packages/mugsy/trunk/debian/control	                        (rev 0)
+++ trunk/packages/mugsy/trunk/debian/control	2012-06-05 06:49:04 UTC (rev 11205)
@@ -0,0 +1,21 @@
+Source: mugsy
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+DM-Upload-Allowed: yes
+Uploaders: Andreas Tille <tille at debian.org>
+Build-Depends: debhelper (>= 9)
+Standards-Version: 3.9.3
+Homepage: http://mugsy.sourceforge.net/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/mugsy/trunk/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/mugsy/trunk/
+
+Package: mugsy
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: multiple whole genome aligner
+ Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise
+ alignment, a custom graph based segmentation procedure for identifying
+ collinear regions, and the segment-based progressive multiple alignment
+ strategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form
+ of multi-FASTA files and does not require a reference genome.

Added: trunk/packages/mugsy/trunk/debian/copyright
===================================================================
--- trunk/packages/mugsy/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/mugsy/trunk/debian/copyright	2012-06-05 06:49:04 UTC (rev 11205)
@@ -0,0 +1,11 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: Mugsy
+Source: http://sourceforge.net/projects/mugsy/files/
+
+Files: *
+Copyright: © 2010-2011 S. V. Angiuoli
+License: Artistic-2.0
+
+Files: debian/*
+Copyright: © 2012 Andreas Tille <tille at debian.org>
+License: Artistic-2.0

Added: trunk/packages/mugsy/trunk/debian/rules
===================================================================
--- trunk/packages/mugsy/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/mugsy/trunk/debian/rules	2012-06-05 06:49:04 UTC (rev 11205)
@@ -0,0 +1,6 @@
+#!/usr/bin/make -f
+
+# DH_VERBOSE := 1
+
+%:
+	dh $@


Property changes on: trunk/packages/mugsy/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/mugsy/trunk/debian/upstream
===================================================================
--- trunk/packages/mugsy/trunk/debian/upstream	                        (rev 0)
+++ trunk/packages/mugsy/trunk/debian/upstream	2012-06-05 06:49:04 UTC (rev 11205)
@@ -0,0 +1,12 @@
+Reference:
+  Author: Samuel V Angiuoli and Steven L Salzberg
+  Title: "Mugsy: fast multiple alignment of closely related whole genomes"
+  Journal: Bioinformatics
+  Year: 2011
+  Volume: 27
+  Number: 3
+  Pages: 334-42
+  DOI: 10.1093/bioinformatics/btq665
+  PMID: 21148543
+  URL: http://bioinformatics.oxfordjournals.org/content/27/3/334
+  eprint: http://bioinformatics.oxfordjournals.org/content/27/3/334.full.pdf+html