5c903d730ffe0f61eee22a328942eb807d543239
chmalee
  Wed Jul 24 09:57:06 2019 -0700
Adding all.joiner rules for omimGeneMap2, refs #23863

diff --git src/hg/makeDb/schema/all.joiner src/hg/makeDb/schema/all.joiner
index 8b68875..254fd5e 100644
--- src/hg/makeDb/schema/all.joiner
+++ src/hg/makeDb/schema/all.joiner
@@ -5676,31 +5676,32 @@
 "International Human Gene Identifier"
     hgFixed.refLink.name
     $hg.atlasOncoGene.locusSymbol
     $hg.kgAlias.alias
     $hg.kgSpAlias.alias minCheck=0.1
     $hg.kgXref.geneSymbol
     $hg.refFlat.geneName
     $hg.jaxOrtholog.humanSymbol
     $hg.omimMorbidMap.geneSymbols
     visiGene.gene.name
     $rn,!rn5.rgdGeneXref3.geneSymbol
 
 identifier kgGeneSymbol
 "UCSC Genes Gene Symbol"
     $hg.kgXref.geneSymbol dupeOk
-    $hg.omimGeneMap.geneSymbol comma minCheck=0.38
+    $hg.omimGeneMap.geneSymbol comma minCheck=0.37
+    $hg.omimGeneMap2.geneSymbol comma minCheck=0.37
     $hg.omimMorbidMap.geneSymbols comma minCheck=0.25
     hgFixed.ggLink.gene1 minCheck=0.8
     hgFixed.ggLink.gene2 minCheck=0.8
     hgFixed.ggGeneClass.gene minCheck=0.8
     hgFixed.ggGeneName.gene minCheck=0.6
 
 identifier mouseGeneName fuzzy
 "Mouse gene name from Jackson Labs/RefSeq"
     $hg.jaxOrtholog.mouseSymbol
     hgFixed.refLink.name
     visiGene.gene.name
 
 # Model Organism Database Identifiers
 
 identifier jaxMgiId
@@ -6594,42 +6595,44 @@
 
 # Other NCBI Identifiers
 
 identifier locusLinkId external=LocusLink
 "NCBI LocusLink ID"
     hgFixed.refLink.locusLinkId dupeOk
     $gbd.keggPathway.locusID minCheck=0.98
     $kgDb,!hg16,!mm8.knownToLocusLink.value minCheck=0.98
     hg16,mm8.knownToLocusLink.value minCheck=0.96
     $hg.omim2gene.geneId minCheck=0.60
     $rn.rgdGene2ToLocusLink.value minCheck=0.70
 
 identifier omimLocationId external=OMIM
 "Online Mendelian Inheritance in Man (OMIM) Location ID"
     $hg.omimLocation.name dupeOk exclude=0
-    $hg.omimGeneMap.omimId full minCheck=0.08
+    $hg.omimGeneMap.omimId full minCheck=0.07
+    $hg.omimGeneMap2.omimId full minCheck=0.07
 
 identifier omimAvSnpId external=OMIM
 "Online Mendelian Inheritance in Man (OMIM) AV SNP ID"
     $hg.omimAvSnp.name dupeOk exclude=0
 
 identifier omimId external=OMIM
 "Online Mendelian Inheritance in Man (OMIM) ID"
     hgFixed.refLink.omimId dupeOk exclude=0
     $hg.omimGene2.name minCheck=0.90
     $hg.omimPhenotype.omimId minCheck=0.75
     $hg.omimGeneMap.omimId minCheck=0.85
+    $hg.omimGeneMap2.omimId minCheck=0.85
     $hg.omim2gene.omimId minCheck=0.60
 
 identifier omimAvId external=OMIM
 "Online Mendelian Inheritance in Man (OMIM) AV ID"
     $hg.omimAv.avId dupeOk exclude=0
     $hg.omimAvRepl.avId minCheck=0.90
     $hg.omimAvSnp.name minCheck=0.90
 
 identifier omimGene2Id
 "omimGene2 ID"
     $hg.omimGene2.name dupeOk
     $hg.omimGeneSymbol.omimId minCheck=0.90
     $hg.omimAv.omimId minCheck=0.90
     $hg.omimAvRepl.omimId minCheck=0.90
     $hg.omimPhenotype.omimId minCheck=0.75