a3c14fb7b09c470918286385c0351f3786d7d48e
chmalee
  Fri Jun 19 13:13:19 2020 -0700
Fixing up some clingen related filters and urls, refs #25562

diff --git src/hg/makeDb/trackDb/human/trackDb.clinGen.ra src/hg/makeDb/trackDb/human/trackDb.clinGen.ra
index 661a105..8592c4f 100644
--- src/hg/makeDb/trackDb/human/trackDb.clinGen.ra
+++ src/hg/makeDb/trackDb/human/trackDb.clinGen.ra
@@ -1,58 +1,61 @@
 track clinGenSuper
 shortLabel ClinGen
 longLabel Clinical Genome Resource (ClinGen)
 group phenDis
 superTrack on
 html clinGen 
 
     track dosageSensitivity
     parent clinGenSuper on
     shortLabel ClinGen Dosage Sensitivity
     longLabel Clinical Genome Resource (ClinGen) Dosage Sensitivity Map 
     visibility pack
     type bigBed 9 +
     itemRgb on
     compositeTrack on
     html clinGenDosage
 
         track clinGenHaplo
         parent dosageSensitivity
         shortLabel ClinGen Haploinsufficiency
         longLabel ClinGen Dosage Sensitivity Map - Haploinsufficiency
         visibility dense
         type bigBed 9 +
         bigDataUrl /gbdb/$D/bbi/clinGen/clinGenHaplo.bb
         mouseOverField _mouseOver
         filterValues.haploScore 0|No evidence available,1|Little evidence for dosage pathogenicity,2|Some evidence for dosage pathogenicity,3|Sufficient evidence for dosage pathogenicity,30|Gene associated with autosomal recessive phenotype,40|Dosage sensitivity unlikely
         filterLabel.haploScore Dosage Sensitivity Score
+        urls haploPMID1="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$" haploPMID2="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$" haploPMID3="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$"
 
         track clinGenTriplo
         parent dosageSensitivity
         shortLabel ClinGen Triplosensitivity
         longLabel ClinGen Dosage Sensitivity Map - Triplosensitivity
         visibility dense
         type bigBed 9 +
         bigDataUrl /gbdb//$D/bbi/clinGen/clinGenTriplo.bb
         mouseOverField _mouseOver
         filterValues.triploScore 0|No evidence available,1|Little evidence for dosage pathogenicity,2|Some evidence for dosage pathogenicity,3|Sufficient evidence for dosage pathogenicity,30|Gene associated with autosomal recessive phenotype,40|Dosage sensitivity unlikely
         filterLabel.triploScore Dosage Sensitivity Score
+        urls triploPMID1="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$" triploPMID2="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$" triploPMID3="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$"
 
     track clinGenCnv
     parent clinGenSuper off
     shortLabel ClinGen Structural Variants
     longLabel Clinical Genome Resource (ClinGen) Structural Variants
     html clinGenSv
     type bigBed 9 +
     itemRgb on
     visibility dense
     mergeSpannedItems off
     bigDataUrl /gbdb/$D/bbi/clinGen/clinGenCnv.bb
     mouseOverField _mouseOver
+    filterByRange.size on
     filterLabel.size Variant Size
     filterValues.variantType copy_number_loss|loss,copy_number_gain|gain
     filterLabel.variantType Variant Type
     filterValues.clinicalInterpretation Pathogenic|pathogenic,Benign|benign
     filterLabel.clinicalInterpretation Clinical Significance
     url https://www.ncbi.nlm.nih.gov/dbvar/variants/$$
     urlLabel NCBI DbVar:
-    urls pubMed="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$" clinGenId="https://dosage.clinicalgenome.org/clingen_region.cgi?id=$$&page=print"
+    urls pubMed="https://pubmed.ncbi.nlm.nih.gov/$$/?from_single_result=$$&expanded_search_query=$$" clinGenId="$$"