Mercurial > repos > davidvanzessen > argalaxy_tools

comparison igblast/igblast.sh @ 52:124b7fd92a3e draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author davidvanzessen
date Thu, 25 Feb 2021 13:36:15 +0000
parents e35b82f31ec7
children 0ef7f80ea061
comparison
equal deleted inserted replaced
51:e35b82f31ec7 52:124b7fd92a3e
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 $dir/igblastwrp.jar -p 4 -S $species -R $locus ${input} $PWD/blasted_output 2>&1 26 java -Xmx16G -jar $IGBLASTWRP/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