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kdm9/bench.sh

Created May 20, 2015 01:20
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bench.sh
fastq=~/ws/gbstrim/data/em_10B8.fq
for ext in 'uncomp' 'gz' 'zstd'
do
for i in {1..4}
do
echo $ext $i
/usr/bin/time -f 'TIME %U %S %e %M' load-into-counting.py \
-T 1 \
-N 4 \
-x 1e8 \
-k 20 \
-b \
test${i}.kh.$ext \
$fastq |& grep 'TIME'
/usr/bin/time -f 'TIME %U %S %e %M' abundance-dist.py \
test${i}.kh.$ext \
$fastq \
test${i}.adist.$ext |& grep 'TIME'
done
done
@mr-c
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mr-c commented May 20, 2015

FYI: http://linux-mm.org/Drop_Caches

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