Commit e472f8fa authored by Thomas Van Parys's avatar Thomas Van Parys
Browse files

Filter spaces out of gene ids (#55)

parent 2c325682
......@@ -178,7 +178,7 @@ process download_plaza_fasta{
for fasta in *.fasta
do
cleaned_fasta=`echo \$fasta | sed s/'.raw'/''/g`
cat \$fasta | map-fasta --headers -- cut -f2 -d'|' | clean > \$cleaned_fasta
cat \$fasta | map-fasta --headers -- cut -f2 -d'|' | map-fasta --headers -- sed -r s/'\s+'/'_'/g | clean > \$cleaned_fasta
done
rm *raw*
"""
......
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