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0.0.4
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ababaian committed Oct 28, 2021
1 parent 1ee33d8 commit a7dd1cf
Showing 1 changed file with 3 additions and 3 deletions.
6 changes: 3 additions & 3 deletions scripts/palmid.sh
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Expand Up @@ -133,9 +133,9 @@ palmscan -search_pp $INPUT -loconf -rdrp \
# hack to fix qlen to total input query length
# (but we now assume aa-sequence input)
seqkit stats -T $INPUT | tail -n-1 - \
> fa.stats
SEQTYPE=$(cut -f 3 fa.stats)
SEQLEN=$(cut -f 5 fa.stats)
> $OUTDIR/$OUTNAME.stats
SEQTYPE=$(cut -f 3 $OUTDIR/$OUTNAME.stats)
SEQLEN=$(cut -f 5 $OUTDIR/$OUTNAME.stats)

if [ "$SEQTYPE" == "DNA" ]
then
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