From 3324d1ea693a02b98fece4e55c10230eb5ceccbc Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Fri, 12 Feb 2021 16:50:20 -0600
Subject: [PATCH] Change symlink to cp for cookie in getData
---
rna-seq.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/rna-seq.nf b/rna-seq.nf
index 65b4565..763581a 100644
--- a/rna-seq.nf
+++ b/rna-seq.nf
@@ -258,7 +258,7 @@ process getData {
# link deriva cookie for authentication
echo -e "LOG: linking deriva cookie" >> ${repRID}.getData.log
mkdir -p ~/.bdbag
- ln -sf `readlink -e cookies.txt` ~/.bdbag/deriva-cookies.txt
+ cp `readlink -e cookies.txt` ~/.bdbag/deriva-cookies.txt
echo -e "LOG: linked" >> ${repRID}.getData.log
# get bag basename
--
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