X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=misc%2FMakefile;h=c8b89e6ac5991177941ff17bbc32af0b43c1a907;hb=4e0a2f896484bc0792e81b7036a17a3f4b15d2dd;hp=2f1578b3f720c65d8b2d3bc9bb6086768e819cac;hpb=a5adc91ac9fb9f3c88b80a77b1eecfe8d5fb0551;p=samtools.git

diff --git a/misc/Makefile b/misc/Makefile
index 2f1578b..c8b89e6 100644
--- a/misc/Makefile
+++ b/misc/Makefile
@@ -1,10 +1,10 @@
 CC=			gcc
 CXX=		g++
-CFLAGS=		-g -Wall #-O2 #-m64 #-arch ppc
+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 afs2
+PROG=		md5sum-lite md5fa maq2sam-short maq2sam-long ace2sam wgsim seqtk
 INCLUDES=	-I..
 SUBDIRS=	.
 
@@ -27,11 +27,14 @@ lib-recur all-recur clean-recur cleanlocal-recur install-recur:
 
 lib:
 
-afs2:afs2.o
-		$(CC) $(CFLAGS) -o $@ afs2.o -lm -lz -L.. -lbam
+ace2sam:ace2sam.o
+		$(CC) $(CFLAGS) -o $@ ace2sam.o -lz
+
+seqtk:seqtk.o
+		$(CC) $(CFLAGS) -o $@ seqtk.o -lm -lz
 
 wgsim:wgsim.o
-		$(CC) $(CFLAGS) -o $@ wgsim.o -lm
+		$(CC) $(CFLAGS) -o $@ wgsim.o -lm -lz
 
 md5fa:md5.o md5fa.o md5.h ../kseq.h
 		$(CC) $(CFLAGS) -o $@ md5.o md5fa.o -lz
@@ -51,8 +54,14 @@ maq2sam-long:maq2sam.c
 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
+seqtk.o:seqtk.c ../khash.h ../kseq.h
+		$(CC) $(CFLAGS) -c -I.. -o $@ seqtk.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