From 13ce0fb1259db41cd14a89c6dc6f3772f28f24c3 Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Tue, 4 Jun 2019 13:00:26 +0200
Subject: [PATCH] fix tabix
---
samtools.wdl | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/samtools.wdl b/samtools.wdl
index 32cf622..1a6f10b 100644
--- a/samtools.wdl
+++ b/samtools.wdl
@@ -187,7 +187,7 @@ task Tabix {
String type = "vcf"
String dockerTag = "0.2.6--ha92aebf_0"
}
-
+ # FIXME: It is better to do the indexing on VCF creation. Not in a separate task. With file localization this gets hairy fast.
command {
set -e
mkdir -p $(dirname ~{outputFilePath})
--
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