d2a02f56a0e84d51213d44955b694ce7daace230
jnavarr5
  Fri May 31 11:41:50 2019 -0700
Updating redirected links for hg18, uiLinks cronjob.

diff --git src/hg/makeDb/trackDb/human/hgdpGeo.html src/hg/makeDb/trackDb/human/hgdpGeo.html
index c1428e5..8acb96e 100644
--- src/hg/makeDb/trackDb/human/hgdpGeo.html
+++ src/hg/makeDb/trackDb/human/hgdpGeo.html
@@ -1,70 +1,70 @@
 <H2>Description</H2>
 <P>
 This track shows the 657,000 SNPs genotyped in 53 populations worldwide by the 
 <a href="http://www.hagsc.org/hgdp/" target="_blank">Human
 Genome Diversity Project</a> in collaboration with the
 <a href="http://www.cephb.fr/en/hgdp_panel.php" target="_blank">Centre d'Etude
 du Polymorphisme Humain</a> (HGDP-CEPH).
 This track and several others are available from the 
 <A HREF="http://hgdp.uchicago.edu/" TARGET=_BLANK>HGDP Selection Browser</A>.
 </P>
 
 <H2>Methods</H2>
 <P>
 Samples collected by the HGDP-CEPH from 1,043 individuals from around the
 world were genotyped for 657,000 SNPs at
 <a href="http://www.hagsc.org/hgdp/" target="_blank">Stanford</a>.
 Ancestral states for all SNPs were estimated using whole genome
 human-chimpanzee alignments from the UCSC database.
 For each SNP in the human genome (NCBI Build 35, UCSC database hg17), the 
 allele at the corresponding position in the chimp genome (Build 2 version 1,
 UCSC database pantro2) was used as ancestral.
 </P>
 <P>
 Allele frequencies were plotted on a world map using programs included in the
 <A HREF="http://gmt.soest.hawaii.edu/" TARGET=_BLANK>Generic Mapping Tools</A>.
 </P>
 
 <H2>Credits</H2>
 <P>
 Thanks to the HGDP-CEPH, the <a href="http://web.stanford.edu/group/pritchardlab/home.html"
 target="_blank">Pritchard lab</a> at Stanford University, Joe
 Pickrell and John Novembre for sharing the data and plotting scripts 
 for this track.
 </P>
 
 
 <H2>References</H2>
 <p>
 Cann HM, de Toma C, Cazes L, Legrand MF, Morel V, Piouffre L, Bodmer J, Bodmer WF, Bonne-Tamir B,
 Cambon-Thomsen A <em>et al</em>.
-<a href="http://science.sciencemag.org/content/296/5566/261.2" target="_blank">
+<a href="https://science.sciencemag.org/content/296/5566/261.2" target="_blank">
 A human genome diversity cell line panel</a>.
 <em>Science</em>. 2002 Apr 12;296(5566):261-2.
 PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/11954565" target="_blank">11954565</a>
 </p>
 
 <p>
 Li JZ, Absher DM, Tang H, Southwick AM, Casto AM, Ramachandran S, Cann HM, Barsh GS, Feldman M,
 Cavalli-Sforza LL <em>et al</em>.
-<a href="http://science.sciencemag.org/content/319/5866/1100" target="_blank">
+<a href="https://science.sciencemag.org/content/319/5866/1100" target="_blank">
 Worldwide human relationships inferred from genome-wide patterns of variation</a>.
 <em>Science</em>. 2008 Feb 22;319(5866):1100-4.
 PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/18292342" target="_blank">18292342</a>
 </p>
 
 <p>
 Pickrell JK, Coop G, Novembre J, Kudaravalli S, Li JZ, Absher D, Srinivasan BS, Barsh GS, Myers RM,
 Feldman MW <em>et al</em>.
 <a href="https://genome.cshlp.org/content/19/5/826.long" target="_blank">
 Signals of recent positive selection in a worldwide sample of human populations</a>.
 <em>Genome Res</em>. 2009 May;19(5):826-37.
 PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/19307593" target="_blank">19307593</a>; PMC: <a
 href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675971/" target="_blank">PMC2675971</a>
 </p>
 
 <P>
 Wessel P, Smith WHF.
 <a href="https://agupubs.onlinelibrary.wiley.com/doi/abs/10.1029/98EO00426" target="_blank">
 New, improved version of Generic Mapping Tools released</a>.
 <em>EOS, Trans. Amer. Geophys. U.</em> 1998;79(47):579.</P>