Mercurial > repos > davidvanzessen > argalaxy_tools
comparison igblast/igblast.sh @ 15:6e068ef43336 draft
Uploaded
author | davidvanzessen |
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date | Fri, 07 Aug 2015 08:42:58 -0400 |
parents | dca3273a7291 |
children |
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14:dca3273a7291 | 15:6e068ef43336 |
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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 -S $species -R $locus ${input} $PWD/blasted_output 2>&1 | 13 java -Xmx64G -jar $IGBLASTWRP/igblastwrp.jar -p 4 -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 |