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/pdbSP/makefile src/hg/pdbSP/makefile
index cb13658..86628cf 100644
--- src/hg/pdbSP/makefile
+++ src/hg/pdbSP/makefile
@@ -1,27 +1,28 @@
+kentSrc = ../..
 include ../../inc/common.mk
 
 L += -lm ${MYSQLLIBS}
 MYLIBDIR = ../../lib/${MACHTYPE}
 MYLIBS =  ${MYLIBDIR}/jkhgap.a ${MYLIBDIR}/jkweb.a
 
 A = pdbSP
 
 O = $A.o
 
 my: compile
 	mv $A${EXE} ${BINDIR}
 
 compile: $O 
 	${CC} ${COPT} ${CFLAGS} $O ${MYLIBS} ${L} 
 	mv ${AOUT} $A${EXE}
 	${STRIP} $A${EXE}
 	chmod a+rx $A${EXE}
 
 lib:
 	cd ../../lib && ${MAKE}
 
 tags: 
 	ctags *.h *.c ../lib/*.c ../inc/*.h ../../lib/*.c ../../inc/*.h
 
 clean::
 	rm -f $A $A.o $A${EXE}