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#!/bin/sh
echo Test: Gzip compressed
echo Output sequences of all apps are not wrapped to fixed length.
echo -en "\n============================================\n";
for f in dataset_*.f{a,q}.gz; 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 -o $f.seqkit.gz --compress-level 6;
pigz -cd $f.seqkit.gz | md5sum;
/bin/rm $f.seqkit.gz;
echo -en "\n------------------------------------\n";
echo == seqkit_t1
echo data: $f;
memusg -t -H seqkit seq $f -w 0 -j 1 -o $f.seqkit.gz --compress-level 6;
pigz -cd $f.seqkit.gz | md5sum;
/bin/rm $f.seqkit.gz;
echo -en "\n------------------------------------\n";
echo == seqtk+gzip
echo data: $f;
memusg -t -H seqtk seq $f | gzip -c > $f.seqtk.gz;
pigz -cd $f.seqtk.gz | md5sum
/bin/rm $f.seqtk.gz;
echo -en "\n------------------------------------\n";
echo == seqtk+pigz
echo data: $f;
memusg -t -H seqtk seq $f | pigz -p 4 -c > $f.seqtk.gz;
pigz -cd $f.seqtk.gz | md5sum
/bin/rm $f.seqtk.gz;
done
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