1a2f5a5b07855da8d191c0b9358c945d6abe9f74
braney
  Mon Sep 28 15:17:28 2026 -0700
trackDb: fix the netThaSir1 chain table and drop missing hg18 pgSnp prediction tables, refs #37424

The hg38 netThaSir1 stanza was copied from netAnoCar1 and kept its type line, so
hgc looked for chainAnoCar1 and every click failed. It now names thaSir1 and
chainThaSir1.

The hg18 pgKb1Comb, pgNb1, pgMd8, pgTk1 and pgAbtSolid tracks named SIFT and
PolyPhen tables that exist only on hgwdev and were never released. The details
page warned on every click on beta and the RR. The two settings are removed.

diff --git src/hg/makeDb/trackDb/human/hg18/trackDb.ra src/hg/makeDb/trackDb/human/hg18/trackDb.ra
index 1fab9101854..c0c17ee88f6 100644
--- src/hg/makeDb/trackDb/human/hg18/trackDb.ra
+++ src/hg/makeDb/trackDb/human/hg18/trackDb.ra
@@ -457,51 +457,30 @@
 xrefQuery select ucscRetroInfo1.name, geneSymbol from %s where geneSymbol like '%s%%' and kgName = kgID 
 searchPriority 3.53
 
 track knownGeneOld3
 shortLabel Old UCSC Genes
 longLabel Previous Version of UCSC Genes
 group genes
 visibility hide
 color 82,82,160
 type genePred
 hgsid on
 oldToNew kg3ToKg4
 baseColorUseCds given
 baseColorDefault genomicCodons
 
-# Overrides for track pgSnp:
-    track pgKb1Comb override
-    pgSiftPredTab pgKb1Sift
-    pgPolyphenPredTab pgPolyKb1
-
-    track pgNb1 override
-    pgSiftPredTab pgNb1Sift
-    pgPolyphenPredTab pgPolyNb1
-
-    track pgMd8 override
-    pgSiftPredTab pgMd8Sift
-    pgPolyphenPredTab pgPolyMd8
-
-    track pgTk1 override
-    pgSiftPredTab pgTk1Sift
-    pgPolyphenPredTab pgPolyTk1
-
-    track pgAbtSolid override
-    pgSiftPredTab pgAbtSift
-    pgPolyphenPredTab pgPolyAbt
-
 
 track pgPop
 compositeTrack on
 shortLabel Pop Vars
 longLabel Population Genome Variants
 group varRep
 visibility hide
 color 0,153,0
 type bed 4 +
 
     track pgPopYRI
     parent pgPop
     shortLabel YRI variants
     longLabel YRI variants from the 1000 genomes low coverage data
     group varRep