fix bugs

tasks/NGScheckMates.wdl

@@ -1,7 +1,6 @@
 task NGScheckMates {
 	File fastq_dir
 	File input_file
-	File out_dir
 	String docker
 	String cluster_config
 	String disk_size
@@ -10,7 +9,7 @@ task NGScheckMates {
 		set -o pipefail
 		set -e
 		nt=$(nproc)
-		python ncm_fastq.py -l ${input_file} -pt SNP/SNP.pt –O ./ -p $nt -s 0.3 -f
+		python ncm_fastq.py -l ${input_file} -pt SNP/SNP.pt –O './' -p $nt -s 0.3 -f
 	>>>
 
 	runtime {