更新 'workflow.wdl'

workflow.wdl

@@ -1,11 +1,13 @@
 import "./tasks/CNVkit.wdl" as cnvkit
 import "./tasks/AnnotSV.wdl" as AnnotSV
+import "./tasks/HRD.wdl" as HRD
 
 workflow {{ project_name }} {
     String sample_id
     File ref_fasta_dir
     String ref_fasta
     File ref_flat
+    File gc
     File tumor_bam
     File tumor_bam_bai
     File? normal_bam
@@ -15,6 +17,23 @@ workflow {{ project_name }} {
     String disk_size
     File annotsv_database
     String docker_annotsv
+    String docker_sequenza
+
+    call HRD.HRD as HRD{
+        input:
+            sample=sample_id,
+            fasta=ref_fasta,
+            ref_dir=ref_fasta_dir,
+            gc=gc,
+            normal_bam=normal_bam,
+            normal_bam_index=normal_bam_bai,
+            tumor_bam=tumor_bam,
+            tumor_bam_index=tumor_bam_bai,
+            docker=docker_sequenza,
+            cluster_config=cluster_config,
+            disk_size=disk_size
+    }
+
 
     call cnvkit.cnvkit as cnvkit{
         input: