[med-svn] [SCM] bowtie2 branch, master, updated. upstream/2.0.0-beta6-23-gfc15174

[Alexandre Mestiashvili]

The following commit has been merged in the master branch:
commit 9dd9b1985619244b609496ded13c51c4cfdebc39
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Sat May 12 12:07:06 2012 +0200

    add -msse2 only for intel architectures

diff --git a/debian/patches/fix_makefile_machine_detection.patch b/debian/patches/fix_makefile_machine_detection.patch
index 864cad7..a527eae 100644
--- a/debian/patches/fix_makefile_machine_detection.patch
+++ b/debian/patches/fix_makefile_machine_detection.patch
@@ -4,7 +4,7 @@ Origin: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 Date: 2012-05-09
 --- bowtie2.orig/Makefile
 +++ bowtie2/Makefile
-@@ -107,20 +107,33 @@
+@@ -108,20 +108,29 @@
  VERSION = $(shell cat VERSION)
  EXTRA_FLAGS =
  
@@ -33,20 +33,16 @@ Date: 2012-05-09
 + ifeq ($(UNAME),'Power Macintosh')
 +	ifeq (32,$(BITS))
 +		BITS_FLAG = -m32
++		SSE_FLAG = 
 +	endif
 +	ifeq (64,$(BITS))
 +		BITS_FLAG = -m64
++		SSE_FLAG =
 +	endif
 + endif
  
 -SSE_FLAG=-msse2
-+ SSE_FLAG =
-+ ifeq ($(UNAME),i386)
-+	SSE_FLAG=-msse2
-+ endif
-+ ifeq ($(UNAME),x86_64)
-+	SSE_FLAG=-msse2
-+ endif
++ SSE_FLAG = -msse2
 +endif
  
  DEBUG_FLAGS    = -O0 -g3 $(BITS_FLAG) $(SSE_FLAG)

-- 
ultrafast memory-efficient short read aligner