40 lines
1.1 KiB
Makefile
40 lines
1.1 KiB
Makefile
CC= gcc
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#CC= clang --analyze
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CFLAGS= -g -Wall -Wno-unused-function -O2
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WRAP_MALLOC=-DUSE_MALLOC_WRAPPERS
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AR= ar
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DFLAGS= -DHAVE_PTHREAD $(WRAP_MALLOC)
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LOBJS= utils.o kthread.o kstring.o ksw.o bwt.o bntseq.o bwa.o bwamem.o bwamem_pair.o bwamem_extra.o malloc_wrap.o
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AOBJS= QSufSort.o bwt_gen.o bwase.o bwaseqio.o bwtgap.o bwtaln.o bamlite.o \
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is.o bwtindex.o bwape.o kopen.o pemerge.o layout.o \
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bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o \
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bwtsw2_chain.o fastmap.o bwtsw2_pair.o
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PROG= bwa
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INCLUDES=
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LIBS= -lm -lz -lpthread
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SUBDIRS= .
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.SUFFIXES:.c .o .cc
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.c.o:
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$(CC) -c $(CFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@
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all:$(PROG)
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bwa:libbwa.a $(AOBJS) main.o
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$(CC) $(CFLAGS) $(DFLAGS) $(AOBJS) main.o -o $@ -L. -lbwa $(LIBS)
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bwamem-lite:libbwa.a example.o
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$(CC) $(CFLAGS) $(DFLAGS) example.o -o $@ -L. -lbwa $(LIBS)
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libbwa.a:$(LOBJS)
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$(AR) -csru $@ $(LOBJS)
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clean:
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rm -f gmon.out *.o a.out $(PROG) *~ *.a
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depend:
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( LC_ALL=C ; export LC_ALL; makedepend -Y -- $(CFLAGS) $(DFLAGS) -- *.c )
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# DO NOT DELETE THIS LINE -- make depend depends on it.
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