11e45667d4e291b3038ccda729a1cdf5bcaf004a
braney
  Mon Jul 11 15:46:54 2016 -0700
incorporate htslib in kent src, remove USE_BAM, USE_SAMTABIX, USE_TABIX
defines, modify a bunch of makefiles to include kentSrc variable
pointing to top of the tree.

diff --git src/hg/altGraph/makefile src/hg/altGraph/makefile
index c90b1e5..2820a90 100644
--- src/hg/altGraph/makefile
+++ src/hg/altGraph/makefile
@@ -1,15 +1,16 @@
+kentSrc = ../..
 include ../../inc/common.mk
 
 
 L += $(MYSQLLIBS) -lm 
 MYLIBDIR = ../../lib/$(MACHTYPE)
 MYLIBS =  $(MYLIBDIR)/jkhgap.a $(MYLIBDIR)/jkweb.a
 
 
 O =  altGraph.o 
 
 TESTO = test.o
 
 altGraph: $(O)
 	${CC} ${COPT} ${CFLAGS} -o ${BINDIR}/altGraph $O $(MYLIBS) $L