e6bcec351aa8f5bc7218e8862e15c149aadb3479
lrnassar
  Fri Jul 10 12:18:40 2026 -0700
lrSv: complete the longReadVariants rename - reparent subtracks and update refs. refs #36258

Completes the previous rename commit (which carried only the colorsDbLegacy file
moves). Renames "track lrSv" to "track longReadVariants" in lrSv.ra (adds
"html lrSv" to keep the existing description page), reparents all subtracks plus
the merged lrSvAll and its lrSvMergeAll.py generator, and updates the hs1
override, relatedTracks.ra, and the mei/meiHgsvc3/srSv/lrSvAll cross-links.
Retitles the retired colorsDbLegacy track and reparents its subtracks. Only the
internal track name changes; subtrack names, /gbdb/$D/lrSv/ data paths, and the
lrSv.ra filename are unchanged.

diff --git src/hg/makeDb/trackDb/human/meiHgsvc3.html src/hg/makeDb/trackDb/human/meiHgsvc3.html
index 35d9544510a..e1711b8e13b 100644
--- src/hg/makeDb/trackDb/human/meiHgsvc3.html
+++ src/hg/makeDb/trackDb/human/meiHgsvc3.html
@@ -33,31 +33,31 @@
 of the inserted mobile element (the ALT allele minus the anchor base).
 </p>
 
 <h2>Display Conventions and Configuration</h2>
 <p>
 An insertion has zero length on the reference: it attaches between two
 adjacent reference bases without replacing any of them. Following the
 VCF convention used by the underlying PAV calls and by the other
 long-read SV tracks, each MEI is drawn as a <b>1-bp block sitting on the
 anchor base</b> &mdash; the reference base immediately to the left of
 the insertion attachment point. The inserted mobile element itself is
 not present in the reference and is therefore not drawn; its length is
 reported on the detail page (svLen) and in the item label
 (<tt>class-svLen:carrierCount</tt>). bigBed does support truly zero-width
 features between nucleotides, but for consistency with the
-<a href="hgTrackUi?g=lrSv">long-read SV tracks</a>, this track uses the
+<a href="hgTrackUi?g=longReadVariants">long-read SV tracks</a>, this track uses the
 1-bp anchor representation instead.
 </p>
 <p>
 Items are colored by element class:
 </p>
 <ul>
   <li><span style="display:inline-block;background-color:#0072B2;width:18px;height:12px;vertical-align:middle;"></span> <b>Alu</b> &mdash; SINE (Short INterspersed Element)</li>
   <li><span style="display:inline-block;background-color:#D55E00;width:18px;height:12px;vertical-align:middle;"></span> <b>L1</b> &mdash; LINE-1 (Long INterspersed Element-1)</li>
   <li><span style="display:inline-block;background-color:#009E73;width:18px;height:12px;vertical-align:middle;"></span> <b>SVA</b> (SINE-VNTR-Alu) &mdash; composite retrotransposon</li>
   <li><span style="display:inline-block;background-color:#CC79A7;width:18px;height:12px;vertical-align:middle;"></span> <b>HERVK</b> (Human Endogenous Retrovirus K) &mdash; endogenous retrovirus</li>
   <li><span style="display:inline-block;background-color:#000000;width:18px;height:12px;vertical-align:middle;"></span> <b>snRNA</b> &mdash; small nuclear RNA</li>
 </ul>
 <p>
 The score column encodes the alt-allele frequency on a 0-1000 scale.
 Filters allow restricting to specific element classes, length ranges,