wgs metrics

tasks/deduped_Metrics.wdl

@@ -16,7 +16,7 @@ task deduped_Metrics {
 		set -e
 		export SENTIEON_LICENSE=192.168.0.55:8990
 		nt=$(nproc)
-		${SENTIEON_INSTALL_DIR}/bin/sentieon driver -r ${ref_dir}/${fasta} -t $nt -i ${Dedup_bam} --algo QualityYield ${sample}_deduped_QualityYield --algo WgsMetricsAlgo ${sample}_deduped_WgsMetricsAlgo --algo CoverageMetrics ${sample}_deduped_CoverageMetrics
+		${SENTIEON_INSTALL_DIR}/bin/sentieon driver -r ${ref_dir}/${fasta} -t $nt -i ${Dedup_bam} --algo QualityYield ${sample}_deduped_QualityYield --algo WgsMetricsAlgo ${sample}_deduped_WgsMetricsAlgo
 	>>>
 
 	runtime {
@@ -29,6 +29,5 @@ task deduped_Metrics {
 	output {
 		File deduped_QualityYield = "${sample}_deduped_QualityYield"
 		File deduped_WgsMetricsAlgo = "${sample}_deduped_WgsMetricsAlgo"
-		File deduped_CoverageMetrics = "${sample}_deduped_CoverageMetrics"
 	}
 }