05eb41c63af8ccd369f76b022d3cf1faab5543c2
braney
  Thu May 26 16:25:07 2022 -0700
changes to support curated hubs

diff --git src/hg/makeDb/trackDb/makefile src/hg/makeDb/trackDb/makefile
index 924de20..42ccc5a 100644
--- src/hg/makeDb/trackDb/makefile
+++ src/hg/makeDb/trackDb/makefile
@@ -205,114 +205,118 @@
 # BUILD_TRIX = /bin/true
 BUILD_TRIX = ./buildTrix
 HIVE_TRIX = /hive/data/inside/trix
 DATA_TRIX = /data/trix
 ALPHA_MACHINE = hgwdev.gi.ucsc.edu
 BETA_MACHINE = qateam@hgwbeta.soe.ucsc.edu
 PUBLIC_MACHINE = qateam@hgw0.soe.ucsc.edu
 
 # For the new demo-$USER machines, the "USER" passed in to makefile contains a hyphen which
 # needs to be replaced with an underscore for mysql table names.
 USERTABLE = $(shell echo ${USER} | sed -e 's/-/_/g')
 
 update: ${DBS:%=%_update}
 	${MKDIR} ${CGI_BIN}-${USER}/encode
 %_update:
-	./loadTracks -addVersion ${EXTRA} trackDb_${USERTABLE} hgFindSpec_${USERTABLE} $*
+	./loadTracks -noHtmlCheck -strict -addVersion ${EXTRA} trackDb_${USERTABLE} hgFindSpec_${USERTABLE} $*
 	./checkMetaDb alpha metaDb_${USERTABLE} $*
 	# now build the relatedTracks table for each db
 	./buildRelatedTracks relatedTrack_${USERTABLE} $*
 	rm -rf /dev/shm/trackDbCache/$*.trackDb_${USERTABLE}
+	./maybeBuildHub  ${USER} trackDb_${USERTABLE} $*
 
 #  if you want to test track search tool with your own trix file
 #	rm -f ${DBS:%=${HIVE_TRIX}/%_trackDb_${USERTABLE}.{ixx,ix}}
 #	HGDB_TRACKDB=trackDb_${USERTABLE} ${BUILD_TRIX} trackDb_${USERTABLE} metaDb_${USERTABLE} ${CGI_BIN}-${USER}/encode/cv.ra ${ALPHA_MACHINE} ${HIVE_TRIX} ${DBS}
 # you'll also need to set browser.trixPath to point to your trix file
 # see kent/src/product/ex.hg/conf for details
 
 alpha: clean
 	${GIT} pull
 	${MKDIR} ${CGI_BIN}/encode
 	${MAKE} alpha_all
 
 alpha_all: ${DBS:%=%_alpha}
 
 %_alpha:
-	./loadTracks -addVersion ${EXTRA} -release=alpha trackDb hgFindSpec $*
+	./loadTracks -noHtmlCheck -strict -addVersion ${EXTRA} -release=alpha trackDb hgFindSpec $*
 	./checkMetaDb alpha metaDb $*
 	rm -f ${HIVE_TRIX}/$*_trackDb.{ixx,ix}
 	HGDB_TRACKDB=trackDb ${BUILD_TRIX} trackDb metaDb cv/alpha/cv.ra ${ALPHA_MACHINE} ${HIVE_TRIX} $*
 	./makeTrixLinks trackDb ${HIVE_TRIX} $*
 	# now build the relatedTracks table for each db
 	./buildRelatedTracks relatedTrack $*
 	rm -rf /dev/shm/trackDbCache/$*.trackDb
+	./maybeBuildHub  alpha trackDb $*
 
 onbeta:	/cluster/home/${USER}/.hg.conf.beta
 
 betaTest: onbeta clean 
 	${MAKE} betaTest_all
 
 betaTest_all: ${DBS:%=%_betaTest}
 
 beta: onbeta clean 
 	${GIT} pull
 	${MAKE} beta_all
 
 beta_all: ${DBS:%=%_beta}
 
 %_betaTest:
 	# now do loads on hgwbeta
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./loadTracks -addVersion ${EXTRA} -strict -remoteLogin=${BETA_MACHINE} -release=beta trackDb_betaTest hgFindSpec_betaTest $*
 
 %_beta:
 	# now do loads on hgwbeta
 	-ssh  ${BETA_MACHINE} find /gbdb/$*  -type f -size +1c  > $*.gbdbList.txt
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./loadTracks -addVersion ${EXTRA} -strict -gbdbList=$*.gbdbList.txt -release=beta trackDb hgFindSpec $*
 	rm  -f $*.gbdbList.txt
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./checkMetaDb beta metaDb $*
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta HGDB_TRACKDB=trackDb ${BUILD_TRIX} trackDb metaDb cv/beta/cv.ra ${BETA_MACHINE} ${DATA_TRIX} $*
 	# now make files for hgwdev-beta (we share the tables with hgwbeta)
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta HGDB_TRACKDB=trackDb ${BUILD_TRIX} trackDb metaDb cv/beta/cv.ra ${ALPHA_MACHINE} ${HIVE_TRIX} $*
 	# now build the relatedTracks table for each db
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./buildRelatedTracks relatedTrack $*
 	-ssh  ${BETA_MACHINE} rm -rf /dev/shm/trackDbCache/$*.trackDb
+	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta HGDB_TRACKDB=trackDb ./maybeBuildHub  beta trackDb $*
 
 publicTest: onbeta clean
 	${MAKE} publicTest_all
 
 publicTest_all: ${DBS:%=%_publicTest}
 
 public: onbeta clean
 	${GIT} pull
 	${MAKE} public_all
 
 public_all: ${DBS:%=%_public}
 
 %_publicTest:
 	-ssh  ${PUBLIC_MACHINE} find /gbdb/$*  -type f -size +1c  > $*.gbdbList.txt
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./loadTracks -addVersion ${EXTRA} -strict -gbdbList=$*.gbdbList.txt -release=public trackDb_publicTest hgFindSpecTest_publicTest $*
 	rm -f $*.gbdbList.txt
 
 %_public:
 	-ssh  ${PUBLIC_MACHINE} find /gbdb/$*  -type f -size +1c  > $*.gbdbList.txt
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./loadTracks -addVersion ${EXTRA} -strict -gbdbList=$*.gbdbList.txt -release=public trackDb_public hgFindSpec_public $*
 	rm -f $*.gbdbList.txt
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./checkMetaDb public metaDb_public $*
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta HGDB_TRACKDB=trackDb_public ${BUILD_TRIX} trackDb_public metaDb_public cv/public/cv.ra ${BETA_MACHINE} ${DATA_TRIX} $*
 	# now build the relatedTracks table for each db
 	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta ./buildRelatedTracks relatedTrack_public $*
 	-ssh  ${BETA_MACHINE} rm -rf /dev/shm/trackDbCache/$*.trackDb_public
+	HGDB_CONF=/cluster/home/${USER}/.hg.conf.beta HGDB_TRACKDB=trackDb_public ./maybeBuildHub  public trackDb_public $*
 
 # this will fail if we are not in a beta checkout:
 checkbeta:
 	${GIT} branch | egrep '^[*] v[0-9]+_branch' > /dev/null
 
 # not sure if anyone actually uses the target below. It used to be "beta".
 buildBeta: checkbeta clean strict
 
 encodeReport:
 	${GIT} pull
 	./loadTracks ${EXTRA} trackDb_encodeReport hgFindSpec ${DBS}
 
 listDbs:
 	@echo "# databases listed in trackDb/makefile DBS variable, with table counts"
 	@for D in ${DBS}; do \