diff PsiCLASS-1.0.2/samtools-0.1.19/misc/Makefile @ 0:903fc43d6227 draft default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/PsiCLASS-1.0.2/samtools-0.1.19/misc/Makefile	Fri Mar 26 16:52:45 2021 +0000
@@ -0,0 +1,69 @@
+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 ace2sam wgsim bamcheck
+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:
+
+bamcheck:bamcheck.o
+		$(CC) $(CFLAGS) -o $@ bamcheck.o -L.. -lm -lbam -lpthread -lz
+
+bamcheck.o:bamcheck.c ../faidx.h ../khash.h ../sam.h ../razf.h
+		$(CC) $(CFLAGS) -c -I.. -o $@ bamcheck.c
+
+ace2sam:ace2sam.o
+		$(CC) $(CFLAGS) -o $@ ace2sam.o -lz
+
+wgsim:wgsim.o
+		$(CC) $(CFLAGS) -o $@ wgsim.o -lm -lz
+
+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
+
+wgsim.o:wgsim.c ../kseq.h
+		$(CC) $(CFLAGS) -c -I.. -o $@ wgsim.c
+
+ace2sam.o:ace2sam.c ../kstring.h ../kseq.h
+		$(CC) $(CFLAGS) -c -I.. -o $@ ace2sam.c
+
+cleanlocal:
+		rm -fr gmon.out *.o a.out *.exe *.dSYM $(PROG) *~ *.a
+
+clean:cleanlocal-recur