From e3d1b73ffb74ec5079635aa6bf6a5c0ed3052849 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Thu, 24 May 2018 09:56:48 +0200
Subject: [PATCH] fix mergeCounts
---
mergecounts.wdl | 1 +
1 file changed, 1 insertion(+)
diff --git a/mergecounts.wdl b/mergecounts.wdl
index c2373f7..e93068e 100644
--- a/mergecounts.wdl
+++ b/mergecounts.wdl
@@ -9,6 +9,7 @@ task MergeCounts {
# Based on a script by Szymon Kielbasa/Ioannis Moustakas
command <<<
set -e -o pipefail
+ mkdir -p ${sub(outputFile, basename(outputFile) + "$", "")}
${preCommand}
R --no-save --slave <<CODE > ${outputFile}
library(dplyr)
--
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