[med-svn] [SCM] bowtie2 branch, master, updated. upstream/2.0.0-beta7-38-gc1ba6b6

[Carlos Borroto]

The following commit has been merged in the master branch:
commit b4d4b3dcd68198cb373e2b7ca79a74b8b6069138
Author: Carlos Borroto <carlos.borroto at gmail.com>
Date:   Fri Nov 2 23:13:22 2012 -0400

    removed patch bowtie2_gcc4.7, fixed in upstream

diff --git a/debian/patches/bowtie2_gcc4.7.patch b/debian/patches/bowtie2_gcc4.7.patch
deleted file mode 100644
index 8ed75d8..0000000
--- a/debian/patches/bowtie2_gcc4.7.patch
+++ /dev/null
@@ -1,14 +0,0 @@
-Description: porting to gcc4.7 added include <unistd.h>
-Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
-Last-Update: 2012-05-09
-
---- bowtie2.orig/word_io.h
-+++ bowtie2/word_io.h
-@@ -20,6 +20,7 @@
- #ifndef WORD_IO_H_
- #define WORD_IO_H_
- 
-+#include <unistd.h>
- #include <stdint.h>
- #include <iostream>
- #include <fstream>
diff --git a/debian/patches/series b/debian/patches/series
index 121e6fa..8e9ce04 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -1,3 +1,2 @@
 hardening.patch
-bowtie2_gcc4.7.patch
 fix_makefile_machine_detection.patch

-- 
ultrafast memory-efficient short read aligner