74a92d6585c2ce31334ab80849982caea1ccca60
markd
  Wed Aug 6 13:17:30 2025 -0700
hopefully fixed composite control issues on clsLongReadRna

diff --git src/hg/makeDb/outside/clsLongReadRna/clsTrackTool src/hg/makeDb/outside/clsLongReadRna/clsTrackTool
index dc7ca43947e..535bc0a5405 100755
--- src/hg/makeDb/outside/clsLongReadRna/clsTrackTool
+++ src/hg/makeDb/outside/clsLongReadRna/clsTrackTool
@@ -354,30 +354,31 @@
     view targets_view
     parent clsLongReadRnaTrack
     shortLabel Targets
     visibility dense
     type bigBed
     noScoreFilter on
 
         track target_regions
         parent targets_view off
         subGroups view=targets_view sample=combined type=targets
         shortLabel CLS targets
         longLabel CLS target regions
         labelFields name
         defaultLabelFields none
         type bigBed 6 +
+        visibility hide
         color 0,100,0
         bigDataUrl {bigDataUrl}
         priority 1
 
 """
 
 MODELS_TDB = """\
     track models_view
     view models_view
     parent clsLongReadRnaTrack
     shortLabel Models
     visibility pack
     type bigBed
     noScoreFilter on
 
@@ -401,70 +402,71 @@
     shortLabel Sample models
     visibility squish
     type bigBed
     noScoreFilter on
 
 """
 
 SAMPLE_MODELS_TDB = """\
         track {sample}_models
         parent sample_models_view on
         shortLabel {shortLabel}
         longLabel {longLabel}
         bigDataUrl {bigDataUrl}
         type bigBed 12 +
         color 100,22,180
+        visibility squish
         subGroups view=sample_models_view sample={sample} type=models
 
 """
 
 EXPR_READS_VIEW_TDB = """\
     track per_expr_reads_view
     view per_expr_reads_view
     parent clsLongReadRnaTrack on
     shortLabel Reads
-    visibility squish
+    visibility hide
     type bam
 
 """
 
 EXPR_READS_TDB = """\
         track {track}
-        parent per_expr_reads_view on
+        parent per_expr_reads_view off
         shortLabel {shortLabel}
         longLabel {longLabel}
         bigDataUrl {bigDataUrl}
         type bam
         visibility hide
         subGroups view=per_expr_reads_view sample={sample} type={type}
 
 """
 
 EXPR_MODELS_VIEW_TDB = """\
     track per_expr_models_view
     view per_expr_models_view
     parent clsLongReadRnaTrack on
     shortLabel Models
     visibility dense
-    type bam
+    type bigBed
     noScoreFilter on
 
 """
 
 EXPR_MODELS_TDB = """\
         track {track}
-        parent per_expr_models_view on
+        parent per_expr_models_view off
         shortLabel {shortLabel}
         longLabel {longLabel}
         bigDataUrl {bigDataUrl}
         type bigBed 12 +
         noScoreFilter on
         color 100,22,180
         visibility hide
         subGroups view=per_expr_models_view sample={sample} type={type}
 
 """
 
 def sampleGrpName(clsMeta):
     return clsMeta.stage.lower() + "_" + clsMeta.tissue.lower()
 
 def buildSampleSubGroupDef(clsMeta):