--- 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 \