8c2f7318d8d821de9b2a25750586a94ab5e8c1bb
lrnassar
  Fri Nov 15 18:50:19 2024 -0800
Giving the UI link cronjob some love by fixing all the 301 redirects. These are the bulk of the items listed on the cron. No RM.

diff --git src/hg/makeDb/trackDb/nestedRepeats.html src/hg/makeDb/trackDb/nestedRepeats.html
index f49f44e..566a5e9 100644
--- src/hg/makeDb/trackDb/nestedRepeats.html
+++ src/hg/makeDb/trackDb/nestedRepeats.html
@@ -1,20 +1,20 @@
 <h2>Description</h2>
 
 <p>
 This track shows joined fragments of interrupted repeats extracted
-from the output of the <a href="http://www.repeatmasker.org/" target="_blank">
+from the output of the <a href="https://www.repeatmasker.org/" target="_blank">
 RepeatMasker</a> program which screens DNA sequences
 for interspersed repeats and low complexity DNA sequences using the
 <a href="https://www.girinst.org/repbase/update/index.html" target="_blank">
 Repbase Update</a> library of repeats from the
 <a href="https://www.girinst.org/" target="_blank">Genetic
 Information Research Institute</a> (GIRI). Repbase Update is described in
 Jurka (2000) in the References section below.
 </p>
 
 <p>
 The detailed annotations from RepeatMasker are in the RepeatMasker track.  This
 track shows fragments of original repeat insertions which have been interrupted
 by insertions of younger repeats or through local rearrangements.  The fragments
 are joined using the ID column of RepeatMasker output.
 </p>
@@ -53,32 +53,32 @@
 <a href="../FAQ/FAQdownloads#download16" target="_blank">FAQ</a> for more information.
 </p>
 
 <h2>Credits</h2>
 
 <p>
 Thanks to Arian Smit, Robert Hubley and GIRI for providing the tools and
 repeat libraries used to generate this track.
 </p>
 
 <h2>References</h2>
 
 <p>
 Smit AFA, Hubley R, Green P.
 <em>RepeatMasker Open-3.0</em>.
-<a href="http://www.repeatmasker.org" target="_blank">
-http://www.repeatmasker.org</a>. 1996-2010.
+<a href="https://www.repeatmasker.org/" target="_blank">
+https://www.repeatmasker.org/</a>. 1996-2010.
 </p>
 
 <p>
 Repbase Update is described in:
 </p>
 
 <p>
 Jurka J.
 <a href="https://www.sciencedirect.com/science/article/pii/S016895250002093X" target="_blank">
 Repbase Update: a database and an electronic journal of repetitive elements</a>.
 <em>Trends Genet</em>. 2000 Sep;16(9):418-420.
 PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/10973072" target="_blank">10973072</a>
 </p>
 
 <p>