Mercurial > repos > ashvark > qiime_1_8_0
comparison bwa-0.6.2/Makefile @ 2:a294fbfcb1db draft default tip
Uploaded BWA
| author | ashvark |
|---|---|
| date | Fri, 18 Jul 2014 07:55:59 -0400 |
| parents | dd1186b11b3b |
| children |
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| 1:a9636dc1e99a | 2:a294fbfcb1db |
|---|---|
| 1 CC= gcc | |
| 2 CXX= g++ | |
| 3 CFLAGS= -g -Wall -O2 | |
| 4 CXXFLAGS= $(CFLAGS) | |
| 5 AR= ar | |
| 6 DFLAGS= -DHAVE_PTHREAD #-D_NO_SSE2 #-D_FILE_OFFSET_BITS=64 | |
| 7 LOBJS= bwa.o bamlite.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o bntseq.o stdaln.o \ | |
| 8 bwaseqio.o bwase.o kstring.o | |
| 9 AOBJS= QSufSort.o bwt_gen.o \ | |
| 10 is.o bwtmisc.o bwtindex.o ksw.o simple_dp.o \ | |
| 11 bwape.o cs2nt.o \ | |
| 12 bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o \ | |
| 13 bwtsw2_chain.o fastmap.o bwtsw2_pair.o | |
| 14 PROG= bwa | |
| 15 INCLUDES= | |
| 16 LIBS= -lm -lz -lpthread | |
| 17 SUBDIRS= . | |
| 18 | |
| 19 .SUFFIXES:.c .o .cc | |
| 20 | |
| 21 .c.o: | |
| 22 $(CC) -c $(CFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@ | |
| 23 .cc.o: | |
| 24 $(CXX) -c $(CXXFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@ | |
| 25 | |
| 26 all:$(PROG) | |
| 27 | |
| 28 bwa:libbwa.a $(AOBJS) main.o | |
| 29 $(CC) $(CFLAGS) $(DFLAGS) $(AOBJS) main.o -o $@ -L. -lbwa $(LIBS) | |
| 30 | |
| 31 libbwa.a:$(LOBJS) | |
| 32 $(AR) -csru $@ $(LOBJS) | |
| 33 | |
| 34 bwa.o:bwa.h | |
| 35 | |
| 36 QSufSort.o:QSufSort.h | |
| 37 | |
| 38 bwt.o:bwt.h | |
| 39 bwtio.o:bwt.h | |
| 40 bwtaln.o:bwt.h bwtaln.h kseq.h | |
| 41 bntseq.o:bntseq.h | |
| 42 bwtgap.o:bwtgap.h bwtaln.h bwt.h | |
| 43 | |
| 44 bwtsw2_core.o:bwtsw2.h bwt.h bwt_lite.h stdaln.h | |
| 45 bwtsw2_aux.o:bwtsw2.h bwt.h bwt_lite.h stdaln.h | |
| 46 bwtsw2_main.o:bwtsw2.h | |
| 47 | |
| 48 clean: | |
| 49 rm -f gmon.out *.o a.out $(PROG) *~ *.a |