CXX= g++
CFLAGS= -g -Wall -O2 -m64 #-arch ppc
CXXFLAGS= $(CFLAGS)
-DFLAGS= #-D_FILE_OFFSET_BITS=64
+DFLAGS= -D_FILE_OFFSET_BITS=64
OBJS=
-PROG= faidx md5sum-lite md5fa maq2sam-short maq2sam-long wgsim
-INCLUDES=
-LIBS= -lm -lz
+PROG= md5sum-lite md5fa maq2sam-short maq2sam-long wgsim
+INCLUDES= -I..
SUBDIRS= .
.SUFFIXES:.c .o
wdir=`pwd`; \
list='$(SUBDIRS)'; for subdir in $$list; do \
cd $$subdir; \
- $(MAKE) CC="$(CC)" CXX="$(CXX)" DFLAGS="$(DFLAGS)" CFLAGS="$(CFLAGS)" \
+ $(MAKE) CC="$(CC)" DFLAGS="$(DFLAGS)" CFLAGS="$(CFLAGS)" \
INCLUDES="$(INCLUDES)" $$target || exit 1; \
cd $$wdir; \
done;
wgsim:wgsim.o
$(CC) $(CFLAGS) -o $@ wgsim.o -lm
-faidx:../faidx.c ../faidx.h
- $(CC) $(CFLAGS) -D_NO_RAZF -DFAIDX_MAIN -o $@ ../faidx.c
-
md5fa:md5.o md5fa.o md5.h ../kseq.h
- $(CC) $(CFLAGS) -o $@ md5.o md5fa.o -lz
+ $(CC) $(CFLAGS) -o $@ md5.o md5fa.o -L../zlib -lz
+
+md5sum-lite:md5sum-lite.o
+ $(CC) $(CFLAGS) -o $@ md5sum-lite.o
-md5sum-lite:md5.c md5.h
- $(CC) $(CFLAGS) -DMD5SUM_MAIN -o $@ md5.c
+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
+ $(CC) $(CFLAGS) -I../zlib -o $@ maq2sam.c -L../zlib -lz
maq2sam-long:maq2sam.c
- $(CC) $(CFLAGS) -DMAQ_LONGREADS -o $@ maq2sam.c -lz
+ $(CC) $(CFLAGS) -I../zlib -DMAQ_LONGREADS -o $@ maq2sam.c -L../zlib -lz
md5fa.o:md5.h md5fa.c
$(CC) $(CFLAGS) -c -I.. -o $@ md5fa.c