70952dc60bde84f731bfae4d9a7af4ba50b29bdb
jnavarr5
  Wed May 12 07:02:54 2021 -0700
Updating redirected links found the the uiLinks cronjob for danRer3, no Redmine

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 </p>
 
 <p>
 For more information on the different gene tracks, see our <a target=_blank 
 href="/FAQ/FAQgenes.html">Genes FAQ</a>.</p>
 
 <h2>Methods</h2>
 
 <p>
 Statistical signal models were built for splice sites, branch-point
 patterns, translation start sites, and the poly-A signal.
 Furthermore, models were built for the sequence content of
 protein-coding and non-coding regions as well as for the length distributions
 of different exon and intron types. Detailed descriptions of most of these different models
 can be found in Mario Stanke's
-<a href="http://ediss.uni-goettingen.de/handle/11858/00-1735-0000-0006-B3F8-4" target="_blank">dissertation</a>.
+<a href="https://ediss.uni-goettingen.de/handle/11858/00-1735-0000-0006-B3F8-4" target="_blank">dissertation</a>.
 This track shows the most likely gene structure according to a
 Semi-Markov Conditional Random Field model.
 Alternative splicing transcripts were obtained with
 a sampling algorithm (<tt>--alternatives-from-sampling=true --sample=100 --minexonintronprob=0.2
 --minmeanexonintronprob=0.5 --maxtracks=3 --temperature=2</tt>).
 </p>
 
 <p>
 The different models used by Augustus were trained on a number of different species-specific
 gene sets, which included 1000-2000 training gene structures. The <tt>--species</tt> option allows
 one to choose the species used for training the models. Different training species were used
 for the <tt>--species</tt> option when generating these predictions for different groups of
 assemblies.
 <table class="stdTbl">
 	<tr>