更新 'workflow.wdl'

workflow.wdl

@@ -1,27 +1,27 @@
-task BAMReadCount {
+import "./tasks/BAMReadCount.wdl" as BAMReadCount
 
-	String sample_id
+workflow {{ project_name }} {
 	File fa
 	File fai
 	File bed
 	File bam
 	File bai
+	String sample_id
 	String docker
 	String cluster_config
 	String disk_size
+	
 
-	command <<<
-		bam-readcount -f ${reference} -l ${bedfile} ${bamfile} > ${sample_id}.readcount
-	>>>
-
-	runtime {
-		docker: docker
-		cluster: cluster_config
-		systemDisk: "cloud_ssd 40"
-		dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/"
-	}
-
-	output {
-		File BAMReadCount = "${sample_id}.readcount"
+	call BAMReadCount.BAMReadCount as BAMReadCount {
+		input:
+		fa = fa,
+		fai = fai,
+		bed = bed,
+		bam = bam,
+		bai = bai,
+		docker = docker,
+		disk_size = disk_size,
+		cluster_config=cluster_config,
+		sample_id=sample_id
 	}
 }