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/hgPal/makefile src/hg/hgPal/makefile
index 317c63e..8896f86 100644
--- src/hg/hgPal/makefile
+++ src/hg/hgPal/makefile
@@ -1,15 +1,16 @@
+kentSrc = ../..
 include ../../inc/common.mk
 
 L += $(MYSQLLIBS) -lm
 MYLIBDIR = ../../lib/${MACHTYPE}
 MYLIBS =  $(MYLIBDIR)/jkhgap.a ${MYLIBDIR}/jkweb.a
 
 O = hgPal.o
 
 A = hgPal
 
 include ../../inc/cgi_build_rules.mk
 
 compile: $O 
 	${CC} $O ${MYLIBS} ${L}
 	mv ${AOUT} $A${EXE}