mendelian_vote_summary/tasks/summary_mendelian.wdl

task summary_mendelian {
	File mendelian_vote
	String output_prefix
	String docker
	String cluster_config
	String disk_size
	
	command <<<

		cat ${mendelian_vote} | cut -f3,4 | sort | uniq -c > ${output_prefix}.summary.txt

	>>>

	runtime {
		docker:docker
		cluster: cluster_config
		systemDisk: "cloud_ssd 40"
		dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/"
	}
	output {
		File mendelian_vote_summary = "${output_prefix}.summary.txt"
	}
}