From 67fed40ad5bd3b932b86e8f9c986d65cf5ec3e2a Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Wed, 4 Apr 2018 12:54:55 +0200
Subject: [PATCH] fix SamplConfig dirname
---
biopet.wdl | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/biopet.wdl b/biopet.wdl
index 8bdf7fb..d394bd5 100644
--- a/biopet.wdl
+++ b/biopet.wdl
@@ -61,7 +61,7 @@ task SampleConfig {
command {
set -e -o pipefail
${preCommand}
- mkdir -p . $(dirname ${jsonOutputPath}) $(dirname ${tsvOutputPath})
+ mkdir -p . ${"$(dirname " + jsonOutputPath + ")"} ${"$(dirname " + tsvOutputPath + ")"}
java -jar ${tool_jar} \
-i ${sep="-i " inputFiles} \
${"--sample " + sample} \
--
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