bamcheck: new stats, number of filtered vs raw sequences

[samtools.git] / misc / Makefile

diff --git a/misc/Makefile b/misc/Makefile
index 0a4854af4c285b6cd6fc748bee9834ed36c1b5ee..d36e7acb4a4c68956f3fed6dbcc16d9c042dc729 100644 (file)
--- 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
+PROG=          md5sum-lite md5fa maq2sam-short maq2sam-long ace2sam wgsim bamcheck
 INCLUDES=      -I..
 SUBDIRS=       .
 
@@ -27,6 +27,12 @@ lib-recur all-recur clean-recur cleanlocal-recur install-recur:
 
 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