2e3c89f43f3bb9d386178270200d0acce9fc8050
lrnassar
  Fri Nov 22 17:47:13 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/affyRatio.html src/hg/makeDb/trackDb/affyRatio.html
index 851b4ca..cc01d9e 100644
--- src/hg/makeDb/trackDb/affyRatio.html
+++ src/hg/makeDb/trackDb/affyRatio.html
@@ -1,56 +1,56 @@
 <H2>Description</H2>
 <P>
 This track shows expression data from <A HREF="https://www.gnf.nibr.com/"
 TARGET=_blank">GNF</A> (The Genomics Institute of the Novartis Research 
 Foundation) using <A HREF="https://www.thermofisher.com/us/en/home/life-science/microarray-analysis.html" 
 TARGET=_blank>Affymetrix</A> GeneChips. The chip types, chip IDs or tissue 
 averages associated with experiments can be displayed by selecting the 
 appropriate option from the Experiment Display menu on the track 
 description page. For more information, see the Track Configuration section.
 </P>  
 
 <H2>Methods</H2>
 <P>
 For detailed information about the experiments, see Su <em>et al.</em> 2002 
 in the References section below. Alignments displayed on the track correspond 
 to the target sequences used by Affymetrix to choose probes.</P> 
 <P>
 In dense display mode, the track color denotes the average signal over all
 experiments on a log base 2 scale. Lighter colors correspond to lower 
 signals and darker colors correspond to higher signals. In full display
 mode, the color of each item represents the log base 2 ratio of the signal 
 of that particular experiment to the median signal of all experiments for 
 that probe.</P>
 <P>
 More information about individual probes and probe sets is available on the
-<A HREF="http://www.affymetrix.com/support/technical/manual/probe_set_display_manual.affx" 
+<A HREF="https://www.affymetrix.com:443/support/technical/manual/probe_set_display_manual.affx" 
 TARGET=_blank>Affymetrix</A> website. </P>
 
 <H2>Track Configuration</H2>
 <P>
 This track may be configured to change the display mode and colors or 
 vary the type of experiment information shown. The configuration controls are
 located at the top of the track description page, which is accessed via 
 the small button to the left of the track's graphical display or the link 
 on the track's control menu. 
 <UL>
 <LI><B>Display mode:</B> To change the display mode for the track, select 
 the desired display setting from the Display Mode pulldown list.
 <LI><B>Combine Arrays:</B> All arrays may be displayed with either the chip ID 
 or the tissue type as the label.  Replicate arrays may also be combined by
 expression medians.
 </UL></P>
 <P>
 When you have finished making changes, click the <em>Submit</em> button to
 commit your changes and return to the Genome Browser tracks display.</P>
 
 <H2>Credits</H2>
 <P>Thanks to GNF for providing these data.</P>
 
 <H2>References</H2>
 <P>
 Su, A.I., Cooke, M.P., Ching, K.A., Hakak, Y., Walker, J.R., Wiltshire, T., 
 Orth, A.P., Vega, R.G., Sapinoso, L.M., Moqrich, A. <em>et al</em>. 
 <A HREF="https://www.pnas.org/content/99/7/4465"
 TARGET=_blank>Large-scale analysis of the human and mouse transcriptomes</A>. 
 <I>Proc Natl Acad Sci USA</I> <B>99</B>(7), 4465-70 (2002).</P>