src/hg/tcga/pBamBam/makefile 1.8

Index: src/hg/tcga/pBamBam/makefile
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/tcga/pBamBam/makefile,v
retrieving revision 1.7
retrieving revision 1.8
diff -b -B -U 1000000 -r1.7 -r1.8
--- src/hg/tcga/pBamBam/makefile	7 Mar 2010 02:36:46 -0000	1.7
+++ src/hg/tcga/pBamBam/makefile	1 Jun 2010 21:46:13 -0000	1.8
@@ -1,70 +1,69 @@
 USE_BAM = 1
 include ../../../inc/common.mk
 
 # libbam, will need to change SAMDIR to where it is on your system
 SAMDIR = /cluster/home/jsanborn/samtools
 SAMINC = ${SAMDIR}
 SAMLIB = ${SAMDIR}/libbam.a
 
-
 L += $(MYSQLLIBS) -lm
 MYLIBDIR = ../../../lib/${MACHTYPE}
 MYLIBS =  $(MYLIBDIR)/jkhgap.a ${MYLIBDIR}/jkweb.a
 
 A1 = pBamBam
 O1 = pBamBam.o bam_helper.o
 
 A2 = pBamBamCNV
 O2 = pBamBamCNV.o bam_helper.o
 
 A3 = pBamStats
 O3 = pBamStats.o bam_helper.o
 
-A4 = pBamBamMuts
-O4 = pBamBamMuts.o bam_helper.o
+A4 = pBamBamSNP
+O4 = pBamBamSNP.o bam_helper.o
 
 A5 = pBamBamASCN
 O5 = pBamBamASCN.o bam_helper.o
 
 A6 = asBamBam
 O6 = asBamBam.o bam_helper.o
 
 pBamBam: ${O1} ${MYLIBS}
 	${CC} ${COPT} -o ${DESTDIR}${BINDIR}/${A1}${EXE} ${O1} ${MYLIBS} $L
 	${STRIP} ${DESTDIR}${BINDIR}/${A1}${EXE}
 
 pBamBamCNV: ${O2} ${MYLIBS}
 	${CC} ${COPT} -o ${DESTDIR}${BINDIR}/${A2}${EXE} ${O2} ${MYLIBS} $L
 	${STRIP} ${DESTDIR}${BINDIR}/${A2}${EXE}
 
 pBamStats: ${O3} ${MYLIBS}
 	${CC} ${COPT} -o ${DESTDIR}${BINDIR}/${A3}${EXE} ${O3} ${MYLIBS} $L
 	${STRIP} ${DESTDIR}${BINDIR}/${A3}${EXE}
 
-pBamBamMuts: ${O4} ${MYLIBS}
+pBamBamSNP: ${O4} ${MYLIBS}
 	${CC} ${COPT} -o ${DESTDIR}${BINDIR}/${A4}${EXE} ${O4} ${MYLIBS} $L
 	${STRIP} ${DESTDIR}${BINDIR}/${A4}${EXE}
 
 pBamBamASCN: ${O5} ${MYLIBS}
 	${CC} ${COPT} -o ${DESTDIR}${BINDIR}/${A5}${EXE} ${O5} ${MYLIBS} $L
 	${STRIP} ${DESTDIR}${BINDIR}/${A5}${EXE}
 
 asBamBam: ${O6} ${MYLIBS}
 	${CC} ${COPT} -o ${DESTDIR}${BINDIR}/${A6}${EXE} ${O6} ${MYLIBS} $L
 	${STRIP} ${DESTDIR}${BINDIR}/${A6}${EXE}
 
 compile:: ${O1} ${O2} ${O3} ${O4} ${O5} ${O6}
 	${CC} ${COPT} -o ${A1}${EXE} ${O1} ${MYLIBS} $L
 	${CC} ${COPT} -o ${A2}${EXE} ${O2} ${MYLIBS} $L
 	${CC} ${COPT} -o ${A3}${EXE} ${O3} ${MYLIBS} $L
 	${CC} ${COPT} -o ${A4}${EXE} ${O4} ${MYLIBS} $L
 	${CC} ${COPT} -o ${A5}${EXE} ${O5} ${MYLIBS} $L
 	${CC} ${COPT} -o ${A6}${EXE} ${O6} ${MYLIBS} $L
 
 clean::
 	rm -f ${A1} ${O1}
 	rm -f ${A2} ${O2}
 	rm -f ${A3} ${O3}
 	rm -f ${A4} ${O4}
 	rm -f ${A5} ${O5}
 	rm -f ${A6} ${O6}