X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=Makefile;h=fdcddd6f426893e9a0a221c1231bfdedd8200de7;hb=77734b9975b7f86b4ce3e977729b0329c3414dd7;hp=99f7ecaf454c8bda2ee632d6529e6538e2608c31;hpb=a9a8e7769267e5a39a10004f2e0a10bee9e33aaf;p=samtools.git

diff --git a/Makefile b/Makefile
index 99f7eca..fdcddd6 100644
--- a/Makefile
+++ b/Makefile
@@ -1,12 +1,13 @@
 CC=			gcc
-CFLAGS=		-g -Wall -O2 #-m64 #-arch ppc
+CFLAGS=		-g -Wall -O2
+#LDFLAGS=		-Wl,-rpath,\$$ORIGIN/../lib
 DFLAGS=		-D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1
 KNETFILE_O=	knetfile.o
 LOBJS=		bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o	\
 			bam_pileup.o bam_lpileup.o bam_md.o razf.o faidx.o bedidx.o \
 			$(KNETFILE_O) bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o
-AOBJS=		bam_tview.o bam_plcmd.o sam_view.o	\
-			bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o	\
+AOBJS=		bam_tview.o bam_plcmd.o sam_view.o \
+			bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o \
 			bamtk.o kaln.o bam2bcf.o bam2bcf_indel.o errmod.o sample.o \
 			cut_target.o phase.o bam2depth.o padding.o
 PROG=		samtools
@@ -16,6 +17,7 @@ LIBPATH=
 LIBCURSES=	-lcurses # -lXCurses
 
 .SUFFIXES:.c .o
+.PHONY: all lib
 
 .c.o:
 		$(CC) -c $(CFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@
@@ -41,7 +43,7 @@ libbam.a:$(LOBJS)
 		$(AR) -csru $@ $(LOBJS)
 
 samtools:lib-recur $(AOBJS)
-		$(CC) $(CFLAGS) -o $@ $(AOBJS) -Lbcftools $(LIBPATH) libbam.a -lbcf $(LIBCURSES) -lm -lz
+		$(CC) $(CFLAGS) -o $@ $(AOBJS) $(LDFLAGS) libbam.a -Lbcftools -lbcf $(LIBPATH) $(LIBCURSES) -lm -lz
 
 razip:razip.o razf.o $(KNETFILE_O)
 		$(CC) $(CFLAGS) -o $@ razf.o razip.o $(KNETFILE_O) -lz