src/hg/pslPseudo/checkExp/makefile 1.10

Index: src/hg/pslPseudo/checkExp/makefile
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/pslPseudo/checkExp/makefile,v
retrieving revision 1.9
retrieving revision 1.10
diff -b -B -U 1000000 -r1.9 -r1.10
--- src/hg/pslPseudo/checkExp/makefile	21 Feb 2008 02:13:23 -0000	1.9
+++ src/hg/pslPseudo/checkExp/makefile	10 Mar 2009 00:34:29 -0000	1.10
@@ -1,28 +1,28 @@
 include ../../../inc/common.mk
 
-L = -lm $(MYSQLLIBS)
+L += -lm $(MYSQLLIBS)
 MYLIBDIR = ../../../lib/$(MACHTYPE)
 MYLIBS =  $(MYLIBDIR)/jkhgap.a $(MYLIBDIR)/jkweb.a 
 OPTIONS = -minAli=0.98 -nearTop=0.005 -verbose=4
 MARKDEBUG =
 DB = hg17
 MRNA = mrnaHg17.fa 
 DBDIR = /cluster/data/$(DB)
 BED = $(DBDIR)/bed
 PSEUDO = $(DBDIR)/bed/pseudo
 BUILD=gs.17/build34
 
 O = checkExp.o 
 
 checkExp: $O $(MYLIBS)
 	gcc -ggdb -o ${BINDIR}/checkExp $O $(MARKDEBUG) $(MYLIBS) $L 
 #${STRIP} ${BINDIR}/checkExp${EXE}
 
 lib:
 	cd ../../lib && ${MAKE}
 
 test: chr3 chr9 chr11 chr13_random
 %:	input/%.bed
 	${MKDIR} output
 	checkExp -verbose=4 input/$@.bed S1.len $(PSEUDO)/all_mrna.psl input/S1.lst /cluster/data/hg17/bed/pseudo/stats/checkExp/mrna.2bit /cluster/data/hg17/bed/blastzSelf/axtChain/chain/$@.chain.gz /cluster/data/hg17/nib output/$@.tab  > $@.log 
 	diff expected/$@.tab output/$@.tab