Alter thread

tasks/vaf_ncm.wdl

   command <<<
     set -o pipefail
     set -e
-    nt=$(nproc)
+    #nt=$(nproc)
     export NCM_HOME=/opt/NGSCheckMate
 
-    mkdir -p /ncm/fastq_vaf
-    cp ${sep=" " vaf} /ncm/fastq_vaf
+    mkdir -p /ncm/fastq_vaf/
+    cp ${sep=" " vaf} /ncm/fastq_vaf/
 
-    python /opt/NGSCheckMate/vaf_ncm.py -I /ncm/fastq_vaf/ -O '.' -nz $nt
+    python /opt/NGSCheckMate/vaf_ncm.py -I /ncm/fastq_vaf/ -O '.'
   >>>
 
   runtime {