From 0c6f1f23c6dc5361c77b39b9df63a916f9746f83 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Mon, 7 May 2018 12:33:07 +0200
Subject: [PATCH] fix splitNCigarReads index output
---
gatk.wdl | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/gatk.wdl b/gatk.wdl
index 8107d1e..56e2bd4 100644
--- a/gatk.wdl
+++ b/gatk.wdl
@@ -278,7 +278,7 @@ task SplitNCigarReads {
output {
File bam = output_bam
- File bam_index = output_bam + ".bai"
+ File bam_index = sub(output_bam, ".bam$", ".bai")
}
runtime {
--
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