更新 'tasks/CNVkit.wdl'

tasks/CNVkit.wdl

@@ -2,7 +2,7 @@
 task cnvkit{
     String sample
     File ref_dir
-    String fasta
+    String? fasta
     File ref_flat
     File tumor_bam
     File tumor_bam_index
@@ -17,7 +17,7 @@ task cnvkit{
         set -o pipefail
         set -e
 
-        /root/miniconda2/bin/cnvkit.py batch ${tumor_bam} -n ${normal_bam} -m wgs -f ${ref_dir}/${fasta} --annotate ${ref_flat}
+        /root/miniconda2/bin/cnvkit.py batch ${tumor_bam} -n ${normal_bam} -m wgs -f ${ref_dir} --annotate ${ref_flat}
 
         /root/miniconda2/bin/cnvkit.py scatter ${sample}.cnr -s ${sample}.cns -o ${sample}_scatter.pdf