f2ef97844c0973a30cbbc1afcdd01b4096143a69
lrnassar
  Wed Jun 3 10:56:07 2026 -0700
Add date-based dataVersion to composite/superTrack otto containers. refs #36455

Composite and superTrack container pages do not display 'Data last updated at
UCSC' (printUpdateTime returns early for them), so a dataVersion file is the
only freshness signal a user sees there. Add one to the dbVar (dbVarSv),
panelApp, clinGen (clinGenComp) and decipher (decipherContainer) containers.

Each otto build script writes a per-assembly 'Last updated <date>' file when it
actually updates the data, and the container stanza points to it via dataVersion.
clinGen's container date is written by its three displayed feeds (makeDosage,
makeGeneValidity, makeClinGenCspec); decipher writes hg38 only (hg19 is frozen).

diff --git src/hg/makeDb/trackDb/human/panelApp.ra src/hg/makeDb/trackDb/human/panelApp.ra
index 2cb33ffa1b6..32d13c23a33 100644
--- src/hg/makeDb/trackDb/human/panelApp.ra
+++ src/hg/makeDb/trackDb/human/panelApp.ra
@@ -1,127 +1,128 @@
 track panelApp
 shortLabel PanelApp
 longLabel Genomics England and Australia PanelApp Diagnostics
 type bigBed 9 +
 visibility hide
 group phenDis
 compositeTrack on
 noParentConfig on
+dataVersion /gbdb/$D/panelApp/version.txt
 showCfg on
 
     track panelAppGenes
     parent panelApp on
     shortLabel PanelApp GE Genes
     longLabel Genomics England PanelApp Genes
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/genes.bb
     itemRgb on
     url https://panelapp.genomicsengland.co.uk/panels/$<panelID>/gene/$<geneSymbol>/
     urlLabel Link to PanelApp
     urls omimGene="https://www.omim.org/entry/$$" ensemblGenes="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" geneSymbol="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
     mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     labelFields geneSymbol
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes,entityName,tags,status,mouseOverField
     filterValues.confidenceLevel 3,2,1,0
     priority 1
     filter.panelVersion 1
     filterLabel.panelVersion Minimum panel version to display
 
     track panelAppCNVs
     parent panelApp on
     shortLabel PanelApp GE CNVs
     longLabel Genomics England PanelApp CNV Regions
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/cnv.bb
     itemRgb on
     urls omimGene="https://www.omim.org/entry/$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" entityName="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
     labelFields entityName
     skipEmptyFields on
     mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     skipFields chrom,chromStart,blockStarts,blockSizes
     filterValues.confidenceLevel 3,2,1,0
     priority 2
     filter.versionCreated 1
     filterLabel.versionCreated Minimum panel version to display
 
     track panelAppTandRep
     parent panelApp on
     shortLabel PanelApp GE STRs
     longLabel Genomics England PanelApp Short Tandem Repeats
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/tandRep.bb
     itemRgb on
     urls omimGene="https://www.omim.org/entry/$$" ensemblID="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/$$" panelID="https://panelapp.genomicsengland.co.uk/panels/$$/" geneSymbol="https://panelapp.genomicsengland.co.uk/panels/entities/$$"
     labelFields hgncSymbol
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes,mouseOverField
     filterValues.confidenceLevel 3,2,1,0
     mouseOver <b>Gene name:</b> $geneName<br><b>Panel:</b> $name<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     priority 3
     filter.version 1
     filterLabel.version Minimum panel version to display
 
     track panelAppAusGenes
     parent panelApp on
     shortLabel PanelApp Australia Genes
     longLabel PanelApp Australia Genes Panels
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/genesAus.bb
     url https://panelapp-aus.org/panels/$<panelID>/gene/$<geneSymbol>/
     urlLabel Link to PanelApp Australia
     urls omimGene="https://www.omim.org/entry/$$" ensemblGenes="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:$$" panelID="https://panelapp-aus.org/panels/$$/" geneSymbol="https://panelapp-aus.org/panels/entities/$$"
     mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     labelFields geneSymbol
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes,entityName,tags,status,mouseOverField
     filterValues.confidenceLevel 3|Green (3),2|Amber (2),1|Red (1),0|Red (0)
     filterValuesDefault.confidenceLevel 3,2,1
     filter.panelVersion 0
     filterLabel.panelVersion Minimum panel version to display
     filterValues.panelName Mendeliome,Incidentalome,Intellectual disability syndromic and non-syndromic,Fetal anomalies,Genomic newborn screening: BabyScreen+
     filterValuesDefault.panelName Mendeliome,Incidentalome
     filterLabel.panelName Panel Name (only 5 common shown, use all to display all panels)
     filterText.name *
     filterLabel.name item name: gene (panel name)
     filterValues.modeOfInheritance BIALLELIC,, autosomal or pseudoautosomal|BIALLELIC (autosomal/pseudoautosomal),MONOALLELIC,, autosomal or pseudoautosomal,, imprinted status unknown|MONOALLELIC (autosomal/pseudoautosomal) imprinted status unknown,MONOALLELIC,, autosomal or pseudoautosomal,, maternally imprinted (paternal allele expressed)|MONOALLELIC (autosomal/pseudoautosomal) maternally imprinted (paternal allele expressed),MONOALLELIC,, autosomal or pseudoautosomal,, paternally imprinted (maternal allele expressed)|MONOALLELIC (autosomal/pseudoautosomal) paternally imprinted (maternal allele expressed),MONOALLELIC,, autosomal or pseudoautosomal,, NOT imprinted|MONOALLELIC (autosomal/pseudoautosomal) NOT imprinted,BOTH monoallelic and biallelic,, autosomal or pseudoautosomal|BOTH monoallelic/biallelic (autosomal/pseudoautosomal),BOTH monoallelic and biallelic (but BIALLELIC mutations cause a more SEVERE disease form),, autosomal or pseudoautosomal|BOTH monoallelic/biallelic (but BIALLELIC mutations more SEVERE)(autosomal/pseudoautosomal),X-LINKED: hemizygous mutation in males,, biallelic mutations in females|X-LINKED: hemizygous mutation in males,, biallelic mutations in females,X-LINKED: hemizygous mutation in males,, monoallelic mutations in females may cause disease (may be less severe,, later onset than males)|X-LINKED: hemizygous mutation in males,, monoallelic mutations in females may cause disease,MITOCHONDRIAL|MITOCHONDRIAL,Other|Other,Unknown|Unknown
     priority 4
 
     track panelAppAusCNVs
     parent panelApp on
     shortLabel PanelApp Australia CNVs
     longLabel PanelApp Australia CNV Regions
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/cnvAus.bb
     itemRgb on
     urls omimGene="https://www.omim.org/entry/$$" panelID="https://panelapp-aus.org/panels/$$/" entityName="https://panelapp-aus.org/panels/entities/$$"
     labelFields entityName
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes
     mouseOver <b>Gene:</b> $entityName<br><b>Panel:</b> $panelName<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     filterValues.confidenceLevel 3,2,1,0
     filter.versionCreated 0
     filterLabel.versionCreated Minimum panel version to display
     priority 5
 
     track panelAppAusTandRep
     parent panelApp on
     shortLabel PanelApp Australia STRs
     longLabel PanelApp Australia Short Tandem Repeats
     type bigBed 9 +
     visibility pack
     bigDataUrl /gbdb/$D/panelApp/tandRepAus.bb
     itemRgb on
     urls omimGene="https://www.omim.org/entry/$$" ensemblID="https://ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=$$" hgncID="https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/$$" panelID="https://panelapp-aus.org/panels/$$/" geneSymbol="https://panelapp-aus.org/panels/entities/$$"
     mouseOver <b>Gene name:</b> $geneName<br><b>Panel:</b> $name<br><b>MOI:</b> $modeOfInheritance<br><b>Phenotypes: </b> $phenotypes<br><b>Confidence level:</b> $confidenceLevel
     labelFields hgncSymbol
     skipEmptyFields on
     skipFields chrom,chromStart,blockStarts,blockSizes,mouseOverField
     filterValues.confidenceLevel 3,2,1,0
     priority 6
     filter.version 0
     filterLabel.version Minimum panel version to display