f56903393fa2ff726fab62f97fe8cd10b302fdff
angie
  Fri Feb 25 11:26:56 2011 -0800
Feature #2820 (tabix: add as optional linked library in kent/src):Wow, adding an external lib dependency to linefile exposed the fact
that many makefiles did not include ${L} properly.

diff --git src/test/makefile src/test/makefile
index 5b05060..9a5c961 100644
--- src/test/makefile
+++ src/test/makefile
@@ -1,46 +1,45 @@
 include ../inc/common.mk
 
 ../cgi-bin/test.cgi: ../lib/$(MACHTYPE)/jkweb.a test.c
-	${CC} ${COPT} ${CFLAGS} -I../inc test.c ../lib/$(MACHTYPE)/jkweb.a -lm
+	${CC} ${COPT} ${CFLAGS} -I../inc test.c ../lib/$(MACHTYPE)/jkweb.a ${L} -lm
 	chmod a+x ${AOUT}
 	mv ${AOUT} ../cgi-bin/test.cgi
 
 MYLIBDIR = ../lib/${MACHTYPE}
 MYLIBS =  ${MYLIBDIR}/jkhgap.a ${MYLIBDIR}/jkweb.a
 
 testRangeTree: ${MYLIBS} testRangeTree.c
-	${CC} ${COPT} ${CFLAGS} -I../inc -I../hg/inc testRangeTree.c ${MYLIBS} -lm -o testRangeTree
+	${CC} ${COPT} ${CFLAGS} -I../inc -I../hg/inc testRangeTree.c ${MYLIBS} ${L} -lm -o testRangeTree
 	chmod a+x testRangeTree
 	./testRangeTree -verbose=0
 	hexdump -f out/testRangeTree.fmt out/testRangeTree.out > out/testRangeTree.hexdump2
 	diff out/testRangeTree.hexdump out/testRangeTree.hexdump2
 	rm out/testRangeTree.out out/testRangeTree.hexdump2 testRangeTree
 
 testGenomeRangeTree: ${MYLIBS} testGenomeRangeTree.c
-	${CC} ${COPT} ${CFLAGS} -I../inc -I../hg/inc testGenomeRangeTree.c ${MYLIBS} -lm -o testGenomeRangeTree
+	${CC} ${COPT} ${CFLAGS} -I../inc -I../hg/inc testGenomeRangeTree.c ${MYLIBS} ${L} -lm -o testGenomeRangeTree
 	chmod a+x testGenomeRangeTree
 	./testGenomeRangeTree -verbose=0
 	hexdump -n 58 -f out/testGenomeRangeTree.fmt out/testGenomeRangeTree.out > out/testGenomeRangeTree.hexdump2
 	diff --brief out/testGenomeRangeTree.hexdump out/testGenomeRangeTree.hexdump2
 	diff --brief out/testGenomeRangeTree.bama out/testGenomeRangeTree.out
 	diff --brief out/testGenomeRangeTree.bama out/testGenomeRangeTree.out2
 	diff --brief out/testGenomeRangeTreeUnion1.bama     out/testGenomeRangeTreeUnion1.out
 	diff --brief out/testGenomeRangeTreeUnion2.bama     out/testGenomeRangeTreeUnion2.out
 	diff --brief out/testGenomeRangeTreeUnion_1or2.bama out/testGenomeRangeTreeUnion_1or2.out
 	rm out/*.out out/*.out2 out/testGenomeRangeTree.hexdump2 testGenomeRangeTree
 
 test:
 	./hgTest.pl -v -db hg13 | tee $(HOST).hg13.log  2>&1
 	./hgTest.pl -v -db hg12 | tee $(HOST).hg12.log  2>&1
 	./hgTest.pl -v -db hg11 | tee $(HOST).hg11.log  2>&1
 	./hgTest.pl -v -db hg10 | tee $(HOST).hg10.log  2>&1
 	./hgTest.pl -v -db mm2  | tee $(HOST).mm2.log   2>&1
 	./hgTest.pl -v -db mm1  | tee $(HOST).mm1.log   2>&1
 	./hgTest.pl -v -db rn1  | tee $(HOST).rn1.log   2>&1
 
 #mkout:
 #	@${MKDIR} out
 
 clean:
 	
-