command line

tasks/NGScheckMates.wdl

@@ -9,7 +9,7 @@ task NGScheckMates {
 		set -o pipefail
 		set -e
 		nt=$(nproc)
-		python /opt/NGSCheckMate/ncm_fastq.py -l ${input_file} -pt /opt/NGSCheckMate/SNP/SNP.pt -O './' -p $nt -f
+		python /opt/NGSCheckMate/ncm_fastq.py -l ${input_file} -pt /opt/NGSCheckMate/SNP/SNP.pt -O '.' -p $nt -f -nz
 	>>>
 
 	runtime {