更新 'tasks/strelka.wdl'

tasks/strelka.wdl

@@ -17,6 +17,7 @@ task strelka_calling{
     String out_dir = "${sample_id}_result"
     command <<<
     set -exo pipefail
+    nt=$(nproc)
     /home/biosoft/strelka-2.9.10.centos6_x86_64/bin/configureStrelkaSomaticWorkflow.py \
     --normalBam ${normal_bam} \
     --tumorBam ${tumour_bam} \
@@ -26,7 +27,7 @@ task strelka_calling{
     
     ls ${out_dir}
 
-    python2.7 ${out_dir}/runWorkflow.py -m local -j ${cpu} 
+    python2.7 ${out_dir}/runWorkflow.py -m local -j $nt
 
     ls ${out_dir}