1318c99c7958fcfacf703bf6047b7ae25bd6efc9
angie
  Sun Mar 20 10:25:12 2022 -0700
Make hgwdev URL to share daily directories with processed COG-UK files.

diff --git src/hg/utils/otto/sarscov2phylo/getCogUk.sh src/hg/utils/otto/sarscov2phylo/getCogUk.sh
index 1d418c2..6cac2c6 100755
--- src/hg/utils/otto/sarscov2phylo/getCogUk.sh
+++ src/hg/utils/otto/sarscov2phylo/getCogUk.sh
@@ -65,15 +65,18 @@
             --input-dataset $nDataDir \
             --output-dir $outDir \
             --output-basename out \
             --output-tsv $outTsv >& nextclade.log
         tail -n+2 $outTsv | sed -re 's/"//g;' >> nextclade.full.tsv
         xz -T 20 < $outDir/out.aligned.fasta >> nextalign.fa.xz
         rm -f $outTsv $outDir/*
     done
     rm -rf $outDir
     rm -rf $splitDir
 fi
 pigz -f -p 8 nextclade.full.tsv
 
 rm -f $ottoDir/cogUk.latest
 ln -s cogUk.$today $ottoDir/cogUk.latest
+
+rm -f ~angie/public_html/sarscov2phylo/cogUk.$today
+ln -s $ottoDir/cogUk.$today ~angie/public_html/sarscov2phylo/cogUk.$today