first commit

inputs

+{
+  "{{ project_name }}.fq1": "{{ fq1 }}",
+  "{{ project_name }}.fq2": "{{ fq2 }}",
+  "{{ project_name }}.fq3": "{{ fq3 }}",
+  "{{ project_name }}.docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/sentieon-genomics:v2018.08.01",
+  "{{ project_name }}.disk_size": "{{ disk_size }}",
+  "{{ project_name }}.cluster_config": "OnDemand bcs.a2.large img-ubuntu-vpc"
+}

tasks/catreads.wdl

+task catreads {
+	File fq1
+	File fq2
+	String fq3
+	String disk_size
+	String docker
+	String cluster_config
+
+	command <<<
+		cat ${fq1} ${fq2} > ${fq3}
+	>>>
+
+	runtime {
+		docker: docker
+		systemDisk: "cloud_ssd 40"
+		cluster: cluster_config
+		dataDisk:"cloud_ssd " + disk_size + " /cromwell_root/"
+	}
+
+	output {
+		File fq3 = "${fq3}"
+	}

workflow.wdl

+import "./tasks/catreads.wdl" as catreads
+
+workflow {{ project_name }} {
+	String docker
+	String disk_size
+	File fq1
+	File fq2
+	String fq3
+	String cluster_config
+
+	call catreads.catreads as catreads {
+		input:
+			fq1=fq1,
+			fq2=fq2,
+			fq3=fq3,
+			docker=docker,
+			disk_size=disk_size,
+			cluster_config=cluster_config
+	}
+}