3820fe7ad2022db9e9783e53004212c867f0fff3
lrnassar
  Wed Jul 24 13:02:20 2024 -0700
Archiving/restructuring rarely used tracks into superTracks. This commit covers a few different tickets, all related to refs #32813.

diff --git src/hg/makeDb/trackDb/human/covidHgiGwas.alpha.ra src/hg/makeDb/trackDb/human/covidHgiGwas.alpha.ra
deleted file mode 100644
index eda386d..0000000
--- src/hg/makeDb/trackDb/human/covidHgiGwas.alpha.ra
+++ /dev/null
@@ -1,92 +0,0 @@
-track covidHgiGwasR4Pval
-shortLabel COVID GWAS v4
-longLabel COVID risk variants from GWAS meta-analyses by the COVID-19 Host Genetics Initiative (Rel 4, Oct 2020)
-compositeTrack on
-superTrack covid pack
-autoScale on
-maxHeightPixels 48:75:128
-type bigLolly 9 +
-lollyField 13
-mouseOver $name $ref/$alt effect $effectSize pVal $pValue studies $sourceCount
-maxItems 500000
-viewLimits 0:10
-filter.sourceCount 1
-filterLabel.sourceCount Minimum number of studies
-filter.pValueLog 3
-filter.effectSize -1.6:2.2
-filterLimits.effectSize -1.6:2.2
-filterLabel.effectSize Effect size range
-filterByRange.effectSize on
-filter._effectSizeAbs 0
-filterLabel._effectSizeAbs Minimum effect size +-
-noScoreFilter on
-bedNameLabel SNP
-priority 2
-chromosomes chr1,chr2,chr3,chr4,chr5,chr6,chr7,chr8,chr9,chr10,chr11,chr12,chr13,chr14,chr15,chr16,chr17,chr18,chr19,chr20,chr21,chr22
-
-    track covidHgiGwasR4PvalA2
-    parent covidHgiGwasR4Pval on
-    shortLabel Severe COVID vars
-    longLabel Severe respiratory COVID risk variants from the COVID-19 HGI GWAS Analysis A2 (4336 cases, 12 studies, Rel 4: Oct 2020)
-    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4.A2.$D.bb
-    priority 1
-
-    track covidHgiGwasR4PvalB2
-    parent covidHgiGwasR4Pval on
-    shortLabel Hosp COVID vars
-    longLabel Hospitalized COVID risk variants from the COVID-19 HGI GWAS Analysis B2 (7885 cases, 21 studies, Rel 4: Oct 2020)
-    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4.B2.$D.bb
-    priority 2
-
-    track covidHgiGwasR4PvalC1
-    parent covidHgiGwasR4Pval on
-    shortLabel Tested COVID vars
-    longLabel Tested COVID risk variants from the COVID-19 HGI GWAS Analyis C1 (11085 cases, 20 studies, Rel 4: Oct 2020)
-    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4.C1.$D.bb
-    priority 3
-
-    track covidHgiGwasR4PvalC2
-    parent covidHgiGwasR4Pval on
-    shortLabel All COVID vars
-    longLabel COVID risk variants from the COVID-19 HGI GWAS Analysis C2 (17965 cases, 33 studies, Rel 4: Oct 2020)
-    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasR4.C2.$D.bb
-    priority 4
-
-track covidHgiGwas
-shortLabel COVID GWAS v3
-longLabel GWAS meta-analyses from the COVID-19 Host Genetics Initiative
-compositeTrack on
-superTrack covid hide
-autoScale on
-maxHeightPixels 48:75:128
-type bigLolly 9 +
-lollyField 21
-mouseOver $name $ref/$alt effect $effectSize pval $pValue studies $sourceCount
-maxItems 500000
-filter.sourceCount 1
-filterLabel.sourceCount Minimum number of studies
-filter.pValueLog 3
-viewLimits -13:21
-filter.effectSize -13:21
-filterLimits.effectSize -13:21
-filterLabel.effectSize Effect size range
-filterByRange.effectSize on
-filter._effectSizeAbs 0
-filterLabel._effectSizeAbs Minimum effect size +-
-noScoreFilter on
-bedNameLabel SNP
-priority 2.1
-chromosomes chr1,chr2,chr3,chr4,chr5,chr6,chr7,chr8,chr9,chr10,chr11,chr12,chr13,chr14,chr15,chr16,chr17,chr18,chr19,chr20,chr21,chr22
-
-    track covidHgiGwasC2
-    parent covidHgiGwas on
-    shortLabel COVID GWAS
-    longLabel COVID GWAS from the COVID-19 Host Genetics Initiative (6696 cases, 18 studies)
-    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasC2.$D.bb
-
-    track covidHgiGwasB2
-    parent covidHgiGwas off
-    shortLabel Hosp COVID GWAS
-    longLabel Hospitalized COVID GWAS from the COVID-19 Host Genetics Initiative (3199 cases, 8 studies)
-    bigDataUrl /gbdb/$D/covidHgiGwas/covidHgiGwasB2.$D.bb
-