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#!/bin/bash | |
cd ../example/ecoli/output/local/ | |
for l in 100; do | |
for o in 0; do | |
for s in 0.02; do | |
for i in 0; do | |
for d in 0; do | |
rm -rf ecoli.l$l.o$o.qA.s$s.i$i.d$d; | |
mkdir ecoli.l$l.o$o.qA.s$s.i$i.d$d; | |
cd ecoli.l$l.o$o.qA.s$s.i$i.d$d; | |
rm -fr ./* | |
date >> ../timestamp.txt | |
echo "l:$l" >> ../timestamp.txt | |
echo "q:$q" >> ../timestamp.txt | |
echo "s:$s" >> ../timestamp.txt | |
echo "i:$i" >> ../timestamp.txt | |
echo "d:$d" >> ../timestamp.txt | |
echo "o:$o" >> ../timestamp.txt | |
echo "t:$t" >> ../timestamp.txt | |
echo "f:$f" >> ../timestamp.txt | |
echo "b:$b" >> ../timestamp.txt | |
echo "x:$x" >> ../timestamp.txt | |
echo "m:$m" >> ../timestamp.txt | |
echo "p:$p" >> ../timestamp.txt | |
echo "--" >> ../timestamp.txt | |
cat ../../../input/ppd/NC_000913.fa.ppd | ../../../../../bin/mapper runall -l $l -q A -s $s -i $i -d $d -o $o -t 20 -f ref.fa -b 70 -x ../../../input/index/NC_000913.fna -p ../../../../../bin 1> map.txt | |
echo "sorting..." | |
cat map.txt | sort > mapsort.txt | |
echo "complete" | |
echo "=====================================" | |
echo "analyzing..." | |
cat mapsort.txt | ../../../../../bin/reducer analyzer -l $l -t 20 -o $o 1> mapred.txt | |
echo "=====================================" | |
echo "reducer is done" | |
echo "=====================================" | |
done; | |
done; | |
done; | |
done; | |
done; | |
cd ../../../../../script/ | |
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