[med-svn] r11018 - in trunk/packages: . lagan lagan/trunk lagan/trunk/debian

[Andreas Tille]

Author: tille
Date: 2012-05-27 07:15:55 +0000 (Sun, 27 May 2012)
New Revision: 11018

Added:
   trunk/packages/lagan/
   trunk/packages/lagan/trunk/
   trunk/packages/lagan/trunk/debian/
   trunk/packages/lagan/trunk/debian/changelog
   trunk/packages/lagan/trunk/debian/compat
   trunk/packages/lagan/trunk/debian/control
   trunk/packages/lagan/trunk/debian/copyright
   trunk/packages/lagan/trunk/debian/rules
   trunk/packages/lagan/trunk/debian/upstream
Log:
Information from task file as packaging code in SVN


Added: trunk/packages/lagan/trunk/debian/changelog
===================================================================
--- trunk/packages/lagan/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/lagan/trunk/debian/changelog	2012-05-27 07:15:55 UTC (rev 11018)
@@ -0,0 +1,5 @@
+lagan (2.0-1) unstable; urgency=low
+
+  * Initial release
+
+ -- Andreas Tille <tille at debian.org>  Sun, 27 May 2012 09:07:22 +0200

Added: trunk/packages/lagan/trunk/debian/compat
===================================================================
--- trunk/packages/lagan/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/lagan/trunk/debian/compat	2012-05-27 07:15:55 UTC (rev 11018)
@@ -0,0 +1 @@
+9

Added: trunk/packages/lagan/trunk/debian/control
===================================================================
--- trunk/packages/lagan/trunk/debian/control	                        (rev 0)
+++ trunk/packages/lagan/trunk/debian/control	2012-05-27 07:15:55 UTC (rev 11018)
@@ -0,0 +1,22 @@
+Source: lagan
+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://lagan.stanford.edu/lagan_web/index.shtml
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/lagan/trunk/
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/lagan/trunk/
+
+Package: lagan
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description:  highly parametrizable pairwise global alignment program
+ Lagan takes local alignments generated by CHAOS as anchors, and limits the search area of
+ the Needleman-Wunsch algorithm around these anchors.
+ .
+ Multi-LAGAN is a generalization of the pairwise algorithm to multiple sequence alignment.
+ M-LAGAN performs progressive pairwise alignments, guided by a user-specified phylogenetic
+ tree. Alignments are aligned to other alignments using the sum-of-pairs metric.

Added: trunk/packages/lagan/trunk/debian/copyright
===================================================================
--- trunk/packages/lagan/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/lagan/trunk/debian/copyright	2012-05-27 07:15:55 UTC (rev 11018)
@@ -0,0 +1,10 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Source: http://lagan.stanford.edu/lagan_web/lagan20.tar.gz
+
+Files: *
+Copyright: © 2003 Michael Brudno, Chuong Do, et. al.
+License: GPL-v3
+
+Files: debian/*
+Copyright: © 2012 Andreas Tille <tille at debian.org>
+License: GPL-v3

Added: trunk/packages/lagan/trunk/debian/rules
===================================================================
--- trunk/packages/lagan/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/lagan/trunk/debian/rules	2012-05-27 07:15:55 UTC (rev 11018)
@@ -0,0 +1,6 @@
+#!/usr/bin/make -f
+
+# DH_VERBOSE := 1
+
+%:
+	dh $@


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

Added: trunk/packages/lagan/trunk/debian/upstream
===================================================================
--- trunk/packages/lagan/trunk/debian/upstream	                        (rev 0)
+++ trunk/packages/lagan/trunk/debian/upstream	2012-05-27 07:15:55 UTC (rev 11018)
@@ -0,0 +1,12 @@
+Reference:
+  Author: Michael Brudno and Chuong Do and Gregory Cooper and Michael F. Kim and Eugene Davydov and Eric D. Green and Arend Sidow and Serafim Batzoglou
+  Title: "LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA"
+  Journal: Genome Research
+  Year: 2003
+  Volume: 13
+  Number: 4
+  Pages: 721-31
+  DOI: 10.1101/gr.926603 
+  PMID: 12654723
+  URL: http://genome.cshlp.org/content/13/4/721
+  eprint: http://genome.cshlp.org/content/13/4/721.full.pdf+html