From bdbe616fdc24dae1a48364ff3f66b29a5e95bfa6 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Fri, 12 Feb 2021 15:49:27 -0600
Subject: [PATCH] Convert ls to find
---
rna-seq.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/rna-seq.nf b/rna-seq.nf
index 9765d7b..d877bfb 100644
--- a/rna-seq.nf
+++ b/rna-seq.nf
@@ -275,7 +275,7 @@ process getData {
sh ${script_bdbagFetch} \${replicate::-13} ${repRID}
echo -e "LOG: fetched" >> ${repRID}.getData.log
- fastqCount=\$(ls *.fastq.gz | wc -l)
+ fastqCount=\$(find . -name *.fastq.gz | wc -l)
if [ "\${fastqCount}" == "0" ]
then
touch dummy.R1.fastq.gz
--
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