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CC= gcc
CFLAGS+= -g -Wall -O2 -Wc++-compat -Wno-unused-function -fPIC
INCLUDES= -I.
OBJS= kthread.o misc.o bseq.o sketch.o sdust.o index.o map.o
PROG= minimap
PROG_EXTRA= sdust minimap-lite
LIBS= -lm -lz -lpthread
SONUMBER=0
.SUFFIXES:.c .o
.c.o:
$(CC) -c $(CFLAGS) $(CPPFLAGS) $(INCLUDES) $< -o $@
all:$(PROG) libminimap.so.$(SONUMBER)
extra:all $(PROG_EXTRA)
minimap:main.o libminimap.a
$(CC) $(CFLAGS) $(LDFLAGS) $< -o $@ -L. -lminimap $(LIBS)
minimap-lite:example.o libminimap.a
$(CC) $(CFLAGS) $(LDFLAGS) $< -o $@ -L. -lminimap $(LIBS)
libminimap.a:$(OBJS)
$(AR) -csru $@ $(OBJS)
libminimap.so.$(SONUMBER): $(OBJS)
$(CC) -shared -o $@ $(OBJS) -fPIC -Wl,-soname,libminimap.so.$(SONUMBER) $(LIBS) $(LDFLAGS)
sdust:sdust.c kdq.h kvec.h kseq.h sdust.h
$(CC) -D_SDUST_MAIN $(CFLAGS) $< -o $@ -lz
clean:
rm -fr gmon.out *.o a.out $(PROG) $(PROG_EXTRA) *~ *.a *.dSYM session*
depend:
(LC_ALL=C; export LC_ALL; makedepend -Y -- $(CFLAGS) $(DFLAGS) -- *.c)
# DO NOT DELETE
bseq.o: bseq.h kseq.h
example.o: minimap.h bseq.h kseq.h
index.o: minimap.h bseq.h kvec.h khash.h
main.o: minimap.h bseq.h
map.o: bseq.h kvec.h minimap.h sdust.h ksort.h
misc.o: minimap.h bseq.h ksort.h
sdust.o: kdq.h kvec.h sdust.h
sketch.o: kvec.h minimap.h bseq.h
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