sister

tasks/mendelian.wdl

@@ -36,8 +36,8 @@ task mendelian {
 		rtg index -f vcf ${family_name}.consistent.vcf.gz
 
 		zcat ${child_vcf_gz} | grep '##' > child_header
-		zcat ${family_name}.violation.vcf.gz | grep -v '##' | cut -f1-10 | awk '$10!~/\./' | cat header - > ${child_name}.violation.vcf		
-		zcat ${family_name}.consistent.vcf.gz | grep -v '##' | cut -f1-10 | awk '$10!~/\./' | cat header - > ${child_name}.consistent.vcf
+		zcat ${family_name}.violation.vcf.gz | grep -v '##' | cut -f1-10 | awk '$10!~/\./' | cat child_header - > ${child_name}.violation.vcf		
+		zcat ${family_name}.consistent.vcf.gz | grep -v '##' | cut -f1-10 | awk '$10!~/\./' | cat child_header - > ${child_name}.consistent.vcf
 
 		rtg bgzip ${child_name}.violation.vcf
 		rtg index -f vcf ${child_name}.violation.vcf.gz