--- bwa-0.6.1/Makefile 2011-11-28 14:55:02.000000000 +0000
+++ bwa-0.6.1.new/Makefile 2012-05-13 20:52:46.889400339 +0100
@@ -2,7 +2,7 @@
CXX= g++
CFLAGS= -g -Wall -O2
CXXFLAGS= $(CFLAGS)
-DFLAGS= -DHAVE_PTHREAD #-D_NO_SSE2 #-D_FILE_OFFSET_BITS=64
+DFLAGS= -DHAVE_PTHREAD -D_NO_SSE2 #-D_FILE_OFFSET_BITS=64
OBJS= QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o \
is.o bntseq.o bwtmisc.o bwtindex.o ksw.o stdaln.o simple_dp.o \
bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o \