[med-svn] [SCM] tophat branch, master, updated. upstream/1.3.3-20-g4171660

[Alexandre Mestiashvili]

The following commit has been merged in the master branch:
commit 7dc0ba87025c07e48e0b31aef41e178e1ffa3e78
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Thu Jan 5 13:36:34 2012 +0100

    Added DEP3 headers to patches.

diff --git a/debian/patches/debian_seqan.patch b/debian/patches/debian_seqan.patch
index 372d80c..e4eac3a 100644
--- a/debian/patches/debian_seqan.patch
+++ b/debian/patches/debian_seqan.patch
@@ -1,3 +1,7 @@
+From: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
+Date: 2012-01-05
+Subject: Adopted to use with seqan v1.3. Function reverseInPlace renamed to 
+reverse and convertInPlace to convert
 --- tophat.orig/configure.ac
 +++ tophat/configure.ac
 @@ -117,7 +117,7 @@
diff --git a/debian/patches/fix_includes_path.patch b/debian/patches/fix_includes_path.patch
index f9ceae3..b05b3fc 100644
--- a/debian/patches/fix_includes_path.patch
+++ b/debian/patches/fix_includes_path.patch
@@ -1,6 +1,7 @@
-## Description: add some description
-## Origin/Author: add some origin or author
-## Bug: bug URL
+From: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
+Date: 2012-01-05
+Subject: Corrected location for samtools .h files 
+
 --- tophat.orig/src/align_status.h
 +++ tophat/src/align_status.h
 @@ -14,7 +14,7 @@

-- 
A spliced read mapper for RNA-Seq