HaplotypeCaller/workflow.wdl

import "./tasks/HC.wdl" as HC

workflow {{ project_name }} {

    File ref_dir
    File dbsnp_dir

	String SENTIEON_INSTALL_DIR
	String fasta
	File bam
	File bam_index
	String dbsnp
	String sample
	String docker
	String cluster_config
	String disk_size

	call HC.HC as HC {
		input:
		ref_dir=ref_dir,
		dbsnp_dir=dbsnp_dir,
		SENTIEON_INSTALL_DIR=SENTIEON_INSTALL_DIR,
		fasta=fasta,
		bam=bam,
		bam_index=bam_index,
		dbsnp=dbsnp,
		sample=sample,
		docker=docker,
		disk_size=disk_size,
		cluster_config=cluster_config
	}
}