X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=misc%2FMakefile;h=e1a5add06a0fb6bc475ec6658d7c8d94e468411e;hb=5941304148f69879e1df9fbbdc749117a5bf2fac;hp=c8b89e6ac5991177941ff17bbc32af0b43c1a907;hpb=48a039bc3586634215c5aa6a3bb689adb1038af8;p=samtools.git

diff --git a/misc/Makefile b/misc/Makefile
index c8b89e6..e1a5add 100644
--- a/misc/Makefile
+++ b/misc/Makefile
@@ -4,7 +4,7 @@ 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 seqtk
+PROG=		md5sum-lite md5fa maq2sam-short maq2sam-long ace2sam wgsim bamcheck
 INCLUDES=	-I..
 SUBDIRS=	.
 
@@ -27,12 +27,15 @@ lib-recur all-recur clean-recur cleanlocal-recur install-recur:
 
 lib:
 
+bamcheck:bamcheck.o
+		$(CC) $(CFLAGS) -o $@ bamcheck.o -lm -lz -L.. -lbam -lpthread
+
+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
 
-seqtk:seqtk.o
-		$(CC) $(CFLAGS) -o $@ seqtk.o -lm -lz
-
 wgsim:wgsim.o
 		$(CC) $(CFLAGS) -o $@ wgsim.o -lm -lz
 
@@ -54,9 +57,6 @@ maq2sam-long:maq2sam.c
 md5fa.o:md5.h md5fa.c
 		$(CC) $(CFLAGS) -c -I.. -o $@ md5fa.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