q30/workflow.wdl

import "./tasks/deduped_Metrics.wdl" as deduped_Metrics

workflow {{ project_name }} {
    File ref_dir
	String SENTIEON_INSTALL_DIR
	String sample
	String fasta
	File Dedup_bam
	File Dedup_bam_index
	String docker
	String cluster_config
	String disk_size

	call deduped_Metrics.deduped_Metrics as deduped_Metrics {
		input:	
		ref_dir=ref_dir,
		SENTIEON_INSTALL_DIR=SENTIEON_INSTALL_DIR,
		sample=sample,
		fasta=fasta,
		Dedup_bam=Dedup_bam,
		Dedup_bam_index=Dedup_bam_index,
		docker=docker,
		cluster_config=cluster_config,
		disk_size=disk_size
	}
}