66cc826badeb152795b09b2081232bbfa4fd98ac
angie
  Wed May 27 23:34:03 2020 -0700
Argh, forgot -r for directory.  refs #25188

diff --git src/hg/utils/otto/nextstrainNcov/doUpdate.sh src/hg/utils/otto/nextstrainNcov/doUpdate.sh
index a03adc3..1050c03 100755
--- src/hg/utils/otto/nextstrainNcov/doUpdate.sh
+++ src/hg/utils/otto/nextstrainNcov/doUpdate.sh
@@ -78,31 +78,31 @@
     | perl -wne '@w=split("\t");
                  $w[7] =~ m/AC=(\d+)[\d,]*;AN=(\d+)/ ||
                           die "Cant find AC and AN in |$w[7]|";
                  print join("\t", $w[0], $w[1]-1, $w[1], (sprintf "%.06f", $1 / $2)) . "\n";' \
       > $base.bedGraph
     bedGraphToBigWig $base.bedGraph $chromSizes $base.bigWig
 done
 
 # Install public track files
 mkdir $ottoDir/install
 cp -pf $runDir/nextstrainGene.bb $runDir/nextstrainClade.bb \
     $runDir/nextstrain*.vcf.gz{,.tbi} \
     $runDir/nextstrain*.nh \
     $runDir/nextstrainSamples*.bigWig \
     $ottoDir/install/
-rm -f $ottoDir/current.bak
+rm -rf $ottoDir/current.bak
 mv -f $ottoDir/current $ottoDir/current.bak
 mv $ottoDir/install $ottoDir/current
 rm -r $gbdbDir
 mkdir $gbdbDir
 ln -sf $ottoDir/current/nextstrainGene.bb $ottoDir/current/nextstrainClade.bb \
     $ottoDir/current/nextstrain*.vcf.gz{,.tbi} \
     $ottoDir/current/nextstrain*.nh \
     $ottoDir/current/nextstrainSamples*.bigWig \
     $gbdbDir/
 
 # Install but don't archive (for now) the experimental tracks for David.
 cp -pf $runDir/nextstrain{Discarded,Blacklisted,Informative}.bb \
     $runDir/nextstrainParsimony.bw \
     $ottoDir/current/
 ln -sf $ottoDir/current/nextstrain{Discarded,Blacklisted,Informative}.bb \