From 64d24abf3a57a0fb611b754e5bee47875ba2f00d Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <ffinfo@users.noreply.github.com>
Date: Thu, 27 Sep 2018 11:40:07 +0200
Subject: [PATCH] Update sampleconfig.wdl
---
biopet/sampleconfig.wdl | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/biopet/sampleconfig.wdl b/biopet/sampleconfig.wdl
index dacf47e..3e530ac 100644
--- a/biopet/sampleconfig.wdl
+++ b/biopet/sampleconfig.wdl
@@ -103,14 +103,14 @@ task CaseControl {
mkdir -p $(dirname ~{outputPath})
~{toolCommand} CromwellArrays \
-i ~{sep="-i " inputFiles} \
- -s ~{sep="-s " inputFiles} \
+ -s ~{sep="-s " sampleConfigs} \
~{"-o " + outputPath} \
~{"--controlTag " + controlTag}
}
output {
File outputFile = outputPath
- Array[CaseControl] controls = read_json(outputFile)
+ Array[CaseControl] caseControls = read_json(outputFile)
}
runtime {
--
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