From e8af9d1e90c23e6a0ff62a92eb1eb80671a3d889 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Thu, 9 Aug 2018 13:11:19 +0200
Subject: [PATCH] add missing option in unpaired vardict
---
vardict.wdl | 1 +
1 file changed, 1 insertion(+)
diff --git a/vardict.wdl b/vardict.wdl
index a421fd7..4d80738 100644
--- a/vardict.wdl
+++ b/vardict.wdl
@@ -37,6 +37,7 @@ task VarDict {
-G ~{refFasta} \
-N ~{tumorSampleName} \
-b "~{tumorBam}~{"|" + normalBam}" \
+ ~{true="-z" false="" defined(normalBam)} \
-c ~{chromosomeColumn} \
-S ~{startColumn} \
-E ~{endColumn} \
--
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