region

tasks/Deepvariant.wdl

@@ -19,6 +19,7 @@ task Deepvariant {
 		--ref=${ref_dir}/${fasta} \
 		--reads=${Dedup_bam} \
 		--num_shards=$nt \
+		--regions="'chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10 chr11 chr12 chr13 chr14 chr15 chr16 chr17 chr18 chr19 chr20 chr21 chr22 chrX'"
 		--call_variants_extra_args="use_openvino=true" \
 		--output_vcf=${sample}_DP.vcf.gz
 	>>>