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comparison igblast/igblast.sh @ 7:c5cffbd8fe9d draft

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author davidvanzessen
date Thu, 30 Jul 2015 09:53:27 -0400
parents c7c7000de220
children 34d5e6df3247
comparison
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6:e61d06912e86 7:c5cffbd8fe9d
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 -jar igblastwrp.jar -cf -S $species -R $locus ${input} $PWD/blasted_output 13 java -jar $IGBLASTWRP/igblastwrp.jar -cf -S $species -R $locus ${input} $PWD/blasted_output
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