45925b3982176d7aa802d483ea2bb9f426e2ef15 chmalee Thu Jun 29 10:18:09 2017 -0700 Adding another missing gtex table, refs #19587 diff --git src/browserbox/root/updateBrowser.sh src/browserbox/root/updateBrowser.sh index 01d8766..df7c739 100755 --- src/browserbox/root/updateBrowser.sh +++ src/browserbox/root/updateBrowser.sh @@ -322,30 +322,31 @@ # GBDB files for i in hg38.2bit html/description.html knownGene.ix knownGene.ixx knownGene.bb targetDb/kgTargetSeq10.2bit targetDb/kgTargetSeq8.2bit targetDb/kgTargetSeq9.2bit trackDb.ix trackDb.ixx; do touch /data/gbdb/hg38/$i; done # MySQL tables for i in chromInfo cytoBand cytoBandIdeo ensemblLift extFile grp gtexGene gtexGeneModel hgFindSpec kgColor kgXref knownCanonical knownGene knownToTag ncbiRefSeq ncbiRefSeqCurated ncbiRefSeqLink ncbiRefSeqOther ncbiRefSeqPredicted ncbiRefSeqPsl refGene tableList trackDb ucscToEnsembl ucscToINSDC xenoRefGene; do touch /data/mysql/hg38/$i.MYD; touch /data/mysql/hg38/$i.MYI; touch /data/mysql/hg38/$i.frm; done # adding tables that are required for gtex, which is now a default track, #19587 touch /data/mysql/hgFixed/gtexInfo.{MYI,MYD,frm} +touch /data/mysql/hgFixed/gtexTissue.{MYI,MYD,frm} # -- END JUNE 2017 if [ "$1" != "hgwdev" ] ; then echo - Updating GBDB files... rsync $RSYNCOPTS --existing rsync://hgdownload.cse.ucsc.edu/gbdb/ /data/gbdb/ chown -R www-data.www-data /data/gbdb/ fi echo - Pulling other files # make sure we never overwrite the hg.conf.local file rsync $RSYNCOPTS $PUSHLOC / --exclude=hg.conf.local # July 2016: add the cram fetcher to root's crontab # this has to be done after the PUSHLOC directory has been copied over