first commit

tasks/GVCFtyper.wdl

@@ -16,7 +16,7 @@ command <<<
 		set -e
 		export SENTIEON_LICENSE=192.168.0.55:8990
 		nt=$(nproc)	
-		${SENTIEON_INSTALL_DIR}/bin/sentieon driver -r ${ref_dir}/${fasta} --algo GVCFtyper ${project}.${chromo}joint.g.vcf ${sep=" " gvcfs}
+		${SENTIEON_INSTALL_DIR}/bin/sentieon driver -r ${ref_dir}/${fasta} --algo GVCFtyper ${project}.${chromo}.joint.g.vcf ${sep=" " gvcfs}
 	>>>
 	
 	runtime {
@@ -27,7 +27,7 @@ command <<<
 	}
 
 	output {
-		File gvcf = "${project}.${chromo}joint.g.vcf"
+		File gvcf = "${project}.${chromo}.joint.g.vcf"
 		File gvcf_idx = "${project}.${chromo}.joint.g.vcf.idx"
 	}
 }