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#!/bin/sh
echo Test: FASTA/Q Parsing
echo Output sequences of all apps are not wrapped to fixed length.
echo -en "\n============================================\n";
for f in dataset_*.f{a,q}; do
echo read file once with cat
cat $f > /dev/null;
echo -en "\n------------------------------------\n";
echo == seqkit
echo data: $f;
memusg -t -H seqkit seq $f -w 0 > $f.seqkit.fa;
md5sum $f.seqkit.fa;
/bin/rm $f.seqkit.fa;
echo -en "\n------------------------------------\n";
echo == seqtk
echo data: $f;
memusg -t -H seqtk seq $f > $f.seqtk.fa;
md5sum $f.seqtk.fa;
/bin/rm $f.seqtk.fa;
done
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