From 3026d63e50108fa297815a456d75c8f919e7ad78 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 2 Mar 2021 12:04:24 -0600
Subject: [PATCH] Change getData fastqForce varible to param
---
rna-seq.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/rna-seq.nf b/rna-seq.nf
index 5c2c96d..478b742 100644
--- a/rna-seq.nf
+++ b/rna-seq.nf
@@ -266,7 +266,7 @@ process getData {
echo -e "LOG: unzipped" >> ${repRID}.getData.log
# bag fetch fastq's only and rename by repRID
- if [ "${fastqsForce}" != "" ]
+ if [ "${params.fastqsForce}" != "" ]
then
echo -e "LOG: fetching replicate bdbag" >> ${repRID}.getData.log
fastqCount=\$(sh ${script_bdbagFetch} \${replicate::-13} ${repRID})
--
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