Mercurial > repos > davidvanzessen > argalaxy_tools

comparison igblast/igblast.sh @ 8:34d5e6df3247 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author davidvanzessen
date Thu, 30 Jul 2015 09:56:17 -0400
parents c5cffbd8fe9d
children 079eed22fdb6
comparison
equal deleted inserted replaced
7:c5cffbd8fe9d 8:34d5e6df3247
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/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
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