file name

tasks/merge.wdl

@@ -11,9 +11,9 @@ task merge {
 
 		cat ${family_name}.mendelian.txt | cut -f13 | sort | uniq -c > ${family_name}.sister.reproducibility.txt
 
-		cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep '1:1:1' > ${family_name}.mendelian.txt
-		cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep 'Ref:1:1' >> ${family_name}.mendelian.txt
-		cat ${family_name}.mendelian.txt | cut -f12 | sort | uniq -c | grep 'yes' >> ${family_name}.mendelian.txt
+		cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep '1:1:1' > ${family_name}.mendelian.summary.txt
+		cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep 'Ref:1:1' >> ${family_name}.mendelian.summary.txt
+		cat ${family_name}.mendelian.txt | cut -f12 | sort | uniq -c | grep 'yes' >> ${family_name}.mendelian.summary.txt
 
 	>>>
 
@@ -26,6 +26,6 @@ task merge {
 	output {
 		File family_all_info = "${family_name}.mendelian.txt"
 		File sister_consistency = "${family_name}.sister.reproducibility.txt"
-		File family_mendelian = "${family_name}.mendelian.txt"
+		File family_mendelian = "${family_name}.mendelian.summary.txt"
 	}
 }