更新 'tasks/CNVkit.wdl'

tasks/CNVkit.wdl

@@ -11,12 +11,14 @@ task cnvkit{
     String docker
     String cluster_config
     String disk_size
-    String sample=basename(sample_id,".bam")
+    String sample=basename(tumor_bam,".bam")
 
     command <<<
 
         set -o pipefail
         set -e
+        
+        echo ${sample}
 
         /root/miniconda2/bin/cnvkit.py batch ${tumor_bam} -n ${normal_bam} -m wgs -f ${ref_dir} --annotate ${ref_flat} --diagram --scatter