cat

tasks/merge_chromo.wdl

@@ -10,11 +10,11 @@ task merge_chromo {
 
 		cat ${sep=" " mendelian_vote_snv} > ${sample_name}.snv.txt
 
-		cat ${sep=" " mendelian_vote_indel} > ${sample_name}.indel
+		cat ${sep=" " mendelian_vote_indel} > ${sample_name}.indel.txt
 
-		cat ${sample_name}.snv |  cut -f3,4 | sort | uniq -c > ${sample_name}.snv.summary.txt
+		cat ${sample_name}.snv.txt |  cut -f3,4 | sort | uniq -c > ${sample_name}.snv.summary.txt
 
-		cat ${sample_name}.indel |  cut -f3,4 | sort | uniq -c > ${sample_name}.indel.summary.txt
+		cat ${sample_name}.indel.txt |  cut -f3,4 | sort | uniq -c > ${sample_name}.indel.summary.txt
 
 	>>>