From 72ebdbc7de7236d27f5b962daa2bc6d3ca6a4049 Mon Sep 17 00:00:00 2001
From: jboom1 <j.boom.me@lumc.nl>
Date: Fri, 6 Sep 2019 15:45:51 +0200
Subject: [PATCH] Reset set -e
---
minimap2.wdl | 2 ++
1 file changed, 2 insertions(+)
diff --git a/minimap2.wdl b/minimap2.wdl
index d6fa35f..b4e4d4e 100644
--- a/minimap2.wdl
+++ b/minimap2.wdl
@@ -36,6 +36,7 @@ task Indexing {
}
command {
+ set -e
mkdir -p $(dirname ~{outputPrefix})
minimap2 \
~{true="-H" false="" useHomopolymerCompressedKmer} \
@@ -92,6 +93,7 @@ task Mapping {
}
command {
+ set -e
mkdir -p $(dirname ~{outputPrefix})
minimap2 \
~{"-x " + presetOption} \
--
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