fecc0bfffd30dccc9998aa0c2e5a6064d487bbb1
chmalee
  Fri Apr 10 15:39:54 2020 -0700
Initial work on merging multiple bigBed items that span the window, refs #25133

diff --git src/hg/makeDb/trackDb/human/trackDb.clinvarTest.ra src/hg/makeDb/trackDb/human/trackDb.clinvarTest.ra
index c4cfbd5..04ca95b 100644
--- src/hg/makeDb/trackDb/human/trackDb.clinvarTest.ra
+++ src/hg/makeDb/trackDb/human/trackDb.clinvarTest.ra
@@ -1,51 +1,52 @@
 track clinvar
 compositeTrack on
 shortLabel ClinVar Variants
 longLabel ClinVar Variants
 group phenDis
 visibility hide
 type bed 12 +
 itemRgb on
 urls rcvAcc="https://www.ncbi.nlm.nih.gov/clinvar/$$/" geneId="https://www.ncbi.nlm.nih.gov/gene/$$" snpId="https://www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi?rs=$$" nsvId="https://www.ncbi.nlm.nih.gov/dbvar/variants/$$/" origName="https://www.ncbi.nlm.nih.gov/clinvar/variation/$$/"
 #scoreLabel ClinVar Star-Rating (0-4)
 noScoreFilter on
 
     track clinvarMain
     shortLabel ClinVar Short Variants
     longLabel ClinVar Short Variants < 50bp
     visibility pack
     parent clinvar
     priority 1
     type bigBed 12 +
     filterValues._clinSignCode BN|benign,LB|likely benign,CF|conflicting,PG|pathogenic,LP|likely pathogenic,UC|uncertain,OT|other
     filterType._clinSignCode singleList
     filterValues._originCode GERM|germline,SOM|somatic,GERMSOM|germline/somatic,NOVO|de novo,UNK|unknown
     filterType._originCode singleList
     filterValues._allTypeCode SNV|single nucleotide variant,INS|insertion,DEL|deletion,INDEL|insertion-deletion,dupl|duplication,OTH|other
     filterType._allTypeCode singleList
     filterByRange._valLen on
     filterLimits._varLen 0:99999999
     filterValues.molConseq genic downstream transcript variant|genic downstream transcript variant,no sequence alteration|no sequence alteration,inframe indel|inframe indel,stop lost|stop lost,genic upstream transcript variant|genic upstream transcript variant,initiatior codon variant|initiatior codon variant,inframe insertion|inframe insertion,inframe deletion|inframe deletion,splice acceptor variant|splice acceptor variant,splice donor variant|splice donor variant,5 prime UTR variant|5 prime UTR variant,nonsense|nonsense,non-coding transcript variant|non-coding transcript variant,3 prime UTR variant|3 prime UTR variant,frameshift variant|frameshift variant,intron variant|intron variant,synonymous variant|synonymous variant,missense variant|missense variant,|unknown
     mouseOverField _mouseOver
     bigDataUrl /gbdb/$D/bbi/clinvar/clinvarMain.bb
 
     track clinvarCnv
     shortLabel ClinVar Long Variants
     longLabel ClinVar Long Variants >= 50bp (mostly Copy-Number Variants)
     visibility pack
     type bigBed 12 +
     parent clinvar
     priority 2
     filterValues._originCode GERM|germline,SOM|somatic,GERMSOM|germline/somatic,NOVO|de novo,UNK|unknown
     filterType._originCode singleList
     filterValues._allTypeCode SNV|single nucleotide variant,INS|insertion,DEL|deletion,INDEL|insertion-deletion,dupl|duplication,OTH|other
     filterType._allTypeCode singleList
     filterValues._clinSignCode BN|benign,LB|likely benign,CF|conflicting,PG|pathogenic,LP|likely pathogenic,UC|uncertain,OT|other
     filterType._clinSign singleList
     filterValues.origin not-reported,uniparental,tested-inconclusive,biparental,not applicable,paternal,maternal,inherited,de novo,somatic,not provided,unknown,germline
     filterType.origin multipleListOnlyOr
     filter._varLen 0
     filterByRange._varLen on
     filterLimits._varLen 0:99999999
     mouseOverField _mouseOver
     bigDataUrl /gbdb/$D/bbi/clinvar/clinvarCnv.bb
+    mergeSpannedItems on