first commit

inputs

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+{
+  "{{ project_name }}.disk_size": "100",
+  "{{ project_name }}.docker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/high_confidence_call_manuscript:v1.4",
+  "{{ project_name }}.fastq": "{{ fastq }}",
+  "{{ project_name }}.cluster_config": "OnDemand bcs.ps.g.xlarge img-ubuntu-vpc",
+  "{{ project_name }}.sample": "{{ sample }}"
+}

tasks/q30.wdl

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+task q30 {
+	File fastq
+	String sample
+	String docker
+	String cluster_config
+	String disk_size
+	
+	command <<<
+		python /opt/q30.py ${fastq} > ${sample}.q30.txt
+
+	>>>
+
+	runtime {
+		docker:docker
+		cluster: cluster_config
+		systemDisk: "cloud_ssd 40"
+		dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/"
+	}
+	output {
+		File result = "${sample}.q30.txt"
+	}
+}

workflow.wdl

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+import "./tasks/q30.wdl" as q30
+
+workflow {{ project_name }} {
+	File fastq
+	String sample
+	String docker
+	String cluster_config
+	String disk_size
+
+	call q30.q30 as q30 {
+		input:	
+		fastq=fastq,
+		sample=sample,
+		docker=docker,
+		cluster_config=cluster_config,
+		disk_size=disk_size
+	}
+}