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CC= gcc
CXX= g++
CFLAGS= -g -Wall #-O2 #-m64 #-arch ppc
CXXFLAGS= $(CFLAGS)
DFLAGS= -D_FILE_OFFSET_BITS=64
OBJS=
PROG= md5sum-lite md5fa maq2sam-short maq2sam-long wgsim
INCLUDES= -I..
SUBDIRS= .
.SUFFIXES:.c .o
.c.o:
$(CC) -c $(CFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@
all:$(PROG)
lib-recur all-recur clean-recur cleanlocal-recur install-recur:
@target=`echo $@ | sed s/-recur//`; \
wdir=`pwd`; \
list='$(SUBDIRS)'; for subdir in $$list; do \
cd $$subdir; \
$(MAKE) CC="$(CC)" DFLAGS="$(DFLAGS)" CFLAGS="$(CFLAGS)" \
INCLUDES="$(INCLUDES)" $$target || exit 1; \
cd $$wdir; \
done;
lib:
afs2:afs2.o
$(CC) $(CFLAGS) -o $@ afs2.o -lm -lz -L.. -lbam
wgsim:wgsim.o
$(CC) $(CFLAGS) -o $@ wgsim.o -lm
md5fa:md5.o md5fa.o md5.h ../kseq.h
$(CC) $(CFLAGS) -o $@ md5.o md5fa.o -lz
md5sum-lite:md5sum-lite.o
$(CC) $(CFLAGS) -o $@ md5sum-lite.o
md5sum-lite.o:md5.c md5.h
$(CC) -c $(CFLAGS) -DMD5SUM_MAIN -o $@ md5.c
maq2sam-short:maq2sam.c
$(CC) $(CFLAGS) -o $@ maq2sam.c -lz
maq2sam-long:maq2sam.c
$(CC) $(CFLAGS) -DMAQ_LONGREADS -o $@ maq2sam.c -lz
md5fa.o:md5.h md5fa.c
$(CC) $(CFLAGS) -c -I.. -o $@ md5fa.c
afs2.o:afs2.c ../bam.h
$(CC) $(CFLAGS) -c -I.. -o $@ afs2.c
cleanlocal:
rm -fr gmon.out *.o a.out *.exe *.dSYM $(PROG) *~ *.a
clean:cleanlocal-recur
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