65c23c156f13dfd1d7acf81390842bc021989cfe
angie
  Fri Dec 20 15:37:51 2024 -0800
cleanup typo fix

diff --git src/hg/utils/otto/sarscov2phylo/getNcbi.sh src/hg/utils/otto/sarscov2phylo/getNcbi.sh
index ef56ce8..40d4192 100755
--- src/hg/utils/otto/sarscov2phylo/getNcbi.sh
+++ src/hg/utils/otto/sarscov2phylo/getNcbi.sh
@@ -152,16 +152,16 @@
 
 # It turns out that sometimes new sequences sneak into ncbi_dataset.tsv before they're included in
 # genomic.fna.  Filter those out so we don't have missing pangolin and nextclade for just-added
 # COG-UK sequences.  (https://github.com/theosanderson/taxodium/issues/10#issuecomment-876800176)
 grep -Fwf gb.names ncbi_dataset.plusBioSample.tsv > tmp
 wc -l tmp ncbi_dataset.plusBioSample.tsv
 mv tmp ncbi_dataset.plusBioSample.tsv
 
 rm -f $ottoDir/ncbi.latest
 ln -s ncbi.$today $ottoDir/ncbi.latest
 
 rm -f ~angie/public_html/sarscov2phylo/ncbi.$today
 ln -s $ottoDir/ncbi.$today ~angie/public_html/sarscov2phylo/ncbi.$today
 
 # Clean up
-rm -r ncbi_dataset genbank.maybeDups.fa
+rm -rf ncbi_dataset genbank.maybeDups.fa