From af4b5d0403d5285fd8494f7a3dee6ce614ec2acd Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 13 Sep 2020 23:08:37 -0500
Subject: [PATCH] Move bed only on non ERCC

---
 workflow/rna-seq.nf | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index e35317f..8f95d42 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -454,7 +454,6 @@ process getRefInfer {
       deriva-hatrac-cli --host ${referenceBase} get \${refURL}
       unzip \$(basename \${refURL})
       mv \${fName}/* .
-      mv bed ${refName}/
     fi
     echo -e "LOG: fetched" >> ${repRID}.${refName}.getRefInfer.log
 
@@ -465,6 +464,8 @@ process getRefInfer {
       rm -rf ${refName}/bed
       mkdir ${refName}/bed
       touch ${refName}/bed/temp
+    else
+      mv bed ${refName}/
     fi
     """
 }
-- 
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