Mercurial > repos > davidvanzessen > argalaxy_tools

comparison igblast/igblast.sh @ 51:e35b82f31ec7 draft

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Uploaded
author davidvanzessen
date Thu, 08 Aug 2019 07:40:36 -0400
parents 4d2a8f98a502
children 124b7fd92a3e
comparison
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50:2e3de43ff471 51:e35b82f31ec7
21 exit 1 21 exit 1
22 fi 22 fi
23 23
24 echo "$input $species $locus $output" 24 echo "$input $species $locus $output"
25 25
26 java -Xmx16G -jar $IGBLASTWRP/igblastwrp.jar -p 4 -S $species -R $locus ${input} $PWD/blasted_output 2>&1 26 java -Xmx16G -jar $dir/igblastwrp.jar -p 4 -S $species -R $locus ${input} $PWD/blasted_output 2>&1
27 27
28 Rscript --verbose $dir/igblast.r "$PWD/blasted_output.L2.txt" "$output" 2>&1 28 Rscript --verbose $dir/igblast.r "$PWD/blasted_output.L2.txt" "$output" 2>&1