From eff1af580450083233b25229dba61c568865929a Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Thu, 14 Jun 2018 14:30:31 +0200
Subject: [PATCH] more sensible names
---
biopet.wdl | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
diff --git a/biopet.wdl b/biopet.wdl
index 6e5ae10..c87c03d 100644
--- a/biopet.wdl
+++ b/biopet.wdl
@@ -280,7 +280,7 @@ task Seqstat {
String? preCommand
File? toolJar
File fastq
- String outputFile
+ String outputFilePath
Float? memory
Float? memoryMultiplier
Int mem = ceil(select_first([memory, 4.0]))
@@ -292,13 +292,13 @@ task Seqstat {
command {
set -e -o pipefail
${preCommand}
- mkdir -p ${outputFile}
+ mkdir -p ${outputFilePath}
${toolCommand} \
--fastq ${fastq} \
- --output ${outputFile}
+ --output ${outputFilePath}
}
output {
- File seqstatsJson = outputFile
+ File json = outputFilePath
}
runtime {
memory: ceil(mem * select_first([memoryMultiplier, 2.0]))
--
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