sister

tasks/sister.wdl

@@ -16,17 +16,17 @@ task sister {
 
 		rtg vcfeval -b ${sister_vcf_gz} -c ${consistent_vcf_gz} -o consistent -t ${sdf}
 
-		mv violation/tp.vcf.gz ${child_name}.violation.sister.vcf.gz
-		mv violation/fp.vcf.gz ${child_name}.violation.nonsister.vcf.gz
-		mv violation/tp.vcf.gz.tbi ${child_name}.violation.sister.vcf.gz.tbi
-		mv violation/fp.vcf.gz.tbi ${child_name}.violation.nonsister.vcf.gz.tbi
-		mv violation/summary.txt ${child_name}.violation.summary.txt
+		mv violation/tp.vcf.gz ${family_name}.violation.sister.vcf.gz
+		mv violation/fp.vcf.gz ${family_name}.violation.nonsister.vcf.gz
+		mv violation/tp.vcf.gz.tbi ${family_name}.violation.sister.vcf.gz.tbi
+		mv violation/fp.vcf.gz.tbi ${family_name}.violation.nonsister.vcf.gz.tbi
+		mv violation/summary.txt ${family_name}.violation.summary.txt
 
-		mv consistent/tp.vcf.gz ${child_name}.consistent.sister.vcf.gz
-		mv consistent/fp.vcf.gz ${child_name}.consistent.nonsister.vcf.gz
-		mv consistent/tp.vcf.gz.tbi ${child_name}.consistent.sister.vcf.gz.tbi
-		mv consistent/fp.vcf.gz.tbi ${child_name}.consistent.nonsister.vcf.gz.tbi		
-		mv consistent/summary.txt ${child_name}.consistent.summary.txt
+		mv consistent/tp.vcf.gz ${family_name}.consistent.sister.vcf.gz
+		mv consistent/fp.vcf.gz ${family_name}.consistent.nonsister.vcf.gz
+		mv consistent/tp.vcf.gz.tbi ${family_name}.consistent.sister.vcf.gz.tbi
+		mv consistent/fp.vcf.gz.tbi ${family_name}.consistent.nonsister.vcf.gz.tbi		
+		mv consistent/summary.txt ${family_name}.consistent.summary.txt
 	>>>
 
 	runtime {
@@ -36,15 +36,15 @@ task sister {
 		dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/"
 	}
 	output {
-		File child_violation_sister = "${child_name}.violation.sister.vcf.gz"
-		File child_violation_sister_idx = "${child_name}.violation.sister.vcf.gz.tbi"
-		File child_violation_nonsister = "${child_name}.violation.nonsister.vcf.gz"
-		File child_violation_nonsister_idx = "${child_name}.violation.nonsister.vcf.gz.tbi"
-		File child_consistent_sister = "${child_name}.consistent.sister.vcf.gz"
-		File child_consistent_sister_idx = "${child_name}.consistent.sister.vcf.gz.tbi"
-		File child_consistent_nonsister = "${child_name}.consistent.nonsister.vcf.gz"
-		File child_consistent_nonsister_idx = "${child_name}.consistent.nonsister.vcf.gz.tbi"
-		File violation_summary = "${child_name}.violation.summary.txt"
-		File consistent_summary = "${child_name}.consistent.summary.txt"	
+		File child_violation_sister = "${family_name}.violation.sister.vcf.gz"
+		File child_violation_sister_idx = "${family_name}.violation.sister.vcf.gz.tbi"
+		File child_violation_nonsister = "${family_name}.violation.nonsister.vcf.gz"
+		File child_violation_nonsister_idx = "${family_name}.violation.nonsister.vcf.gz.tbi"
+		File child_consistent_sister = "${family_name}.consistent.sister.vcf.gz"
+		File child_consistent_sister_idx = "${family_name}.consistent.sister.vcf.gz.tbi"
+		File child_consistent_nonsister = "${family_name}.consistent.nonsister.vcf.gz"
+		File child_consistent_nonsister_idx = "${family_name}.consistent.nonsister.vcf.gz.tbi"
+		File violation_summary = "${family_name}.violation.summary.txt"
+		File consistent_summary = "${family_name}.consistent.summary.txt"	
 	}
 }