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comparison igblast/igblast.sh @ 9:079eed22fdb6 draft

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author davidvanzessen
date Thu, 30 Jul 2015 10:00:08 -0400
parents 34d5e6df3247
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8:34d5e6df3247 9:079eed22fdb6
8 output=$4 8 output=$4
9 9
10 10
11 echo "$input $species $locus $output" 11 echo "$input $species $locus $output"
12 12
13 java -Xmx64G -jar $IGBLASTWRP/igblastwrp.jar -cf -S $species -R $locus ${input} $PWD/blasted_output 13 java -Xmx64G -jar $IGBLASTWRP/igblastwrp.jar -cf -S $species -R $locus ${input} $PWD/blasted_output 2>&1
14 14
15 Rscript --verbose $dir/igblast.r "$PWD/blasted_output.L2.txt" "$output" 2>&1 15 Rscript --verbose $dir/igblast.r "$PWD/blasted_output.L2.txt" "$output" 2>&1