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/hgBeacon/makefile src/hg/hgBeacon/makefile
index 884f99d..bac897c 100644
--- src/hg/hgBeacon/makefile
+++ src/hg/hgBeacon/makefile
@@ -1,15 +1,16 @@
+kentSrc = ../..
 include ../../inc/common.mk
 
 #cannot use common include rules, don't know how to overwrite :: targets
 #include ../../inc/cgi_build_rules.mk
 
 ifeq (${CGI_BIN_USER},)
     CGI_BIN_USER=${CGI_BIN}-${USER}
 endif
 
 ifeq (${CGI_BIN_BETA},)
     CGI_BIN_BETA=${CGI_BIN}-beta
 endif
 
 PATH:=$(PATH):/cluster/software/bin