上传文件至 ''

defaults

+ {
+        "cluster_config":"OnDemand ecs.r6.xlarge img-ubuntu-vpc",
+        "disk_size":"600",
+        "docker_ascat":"registry.cn-shanghai.aliyuncs.com/hcc1395_aliyun/ascat:3.0.0v1"
+        "gender":"XX",
+        "ref_genome":"hg38"
+
+    }

inputs

+{
+"{{ project_name }}.sample_id": "{{ sample_id }}",
+"{{ project_name }}.tumor_bam": "{{ tumor_bam }}",
+"{{ project_name }}.tumor_bam_bai": "{{ tumor_bam_bai }}",
+"{{ project_name }}.normal_bam": "{{ normal_bam }}",
+"{{ project_name }}.normal_bam_bai": "{{ normal_bam_bai }}",
+"{{ project_name }}.gender": "{{ gender }}",
+"{{ project_name }}.ref_genome": "{{ ref_genome }}",
+"{{ project_name }}.cluster_config": "{{cluster_config }}",
+"{{ project_name }}.disk_size": "{{ disk_size }}",
+"{{ project_name }}.docker_ascat": "{{ docker_ascat }}"
+}

workflow.wdl

+version 1.0
+import "./tasks/ASCAT.wdl" as ascat
+
+workflow {{ project_name }} {
+    String sample
+    File tumor_bam
+    File tumor_bam_index
+    File? normal_bam
+    File? normal_bam_index
+    String gender
+    String ref_genome
+    String docker_ascat
+    String cluster_config
+    String disk_size
+
+    call cnvkit.cnvkit as cnvkit{
+        input:
+            sample=sample_id,
+            tumor_bam=tumor_bam,
+            tumor_bam_index=tumor_bam_bai,
+            normal_bam=normal_bam,
+            normal_bam_index=normal_bam_bai,
+            gender=gender,
+            ref_genome=ref_genome,
+            docker=docker_ascat,
+            cluster_config=cluster_config,
+            disk_size=disk_size
+    }
+
+
+}