fa29b7e72d8fb2a9519bf14f1122feccfd79eca2
lrnassar
  Thu Jun 11 04:46:21 2026 -0700
Retire mastermind track by gating it to alpha and noting retirement on the varsInPubs description page. refs #37753

The Genomenon Mastermind track no longer updates and the provider asked us to
take it down. Added release alpha to the mastermind subtrack so it stays on
dev/sandbox but is removed from beta and public for both hg38 and hg19, and
updated the varsInPubs.html bullet to note the track has been retired.

diff --git src/hg/makeDb/trackDb/human/trackDb.ra src/hg/makeDb/trackDb/human/trackDb.ra
index a1f5fa0f221..54ab61d9ca4 100644
--- src/hg/makeDb/trackDb/human/trackDb.ra
+++ src/hg/makeDb/trackDb/human/trackDb.ra
@@ -155,30 +155,31 @@
 mouseOverField trait
 bigDataUrl /gbdb/$D/bbi/phegeni.bb
 urls studyId=https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=$$ geneId1=https://www.ncbi.nlm.nih.gov/gene/?term=$$%5Buid%5D geneId2=https://www.ncbi.nlm.nih.gov/gene/?term=$$%5Buid%5D analysisId=https://www.ncbi.nlm.nih.gov/projects/SNP/gViewer/gView.cgi?aid=$$ catalogId=https://www.ebi.ac.uk/gwas/search?query=$$
 
 track varsInPubs
 shortLabel Variants in Papers
 longLabel Genetic Variants mentioned in scientific publications
 superTrack on
 group phenDis
 type bed 3
 pennantIcon Updated red
 
         track mastermind
         shortLabel Mastermind Variants
         longLabel Genomenon Mastermind Variants extracted from full text publications
+        release alpha
         visibility dense
         type bigBed 9 +
         urls url=$$
         bigDataUrl /gbdb/$D/bbi/mastermind.bb
         noScoreFilter on
         exonNumbers off
         mouseOver <b>Variant</b>: $name<br>  <b>Gene</b>: $gene<br> <b>Linkout</b>: <a href="$url" target="_blank">$_mouseOver</a><br> <b>Article count 1</b>: $mmcnt1<br> <b>Article count 2</b>: $mmcnt2<br> <b>Article count 3</b>: $mmcnt3
         itemRgb on
         filter.mmcnt1 0
         filter.mmcnt2 0
         filter.mmcnt3 0
         dataVersion /gbdb/$D/bbi/mastermindRelease.txt
         parent varsInPubs pack
         maxWindowCoverage 40000
         maxItems 1000000