From 079c85ae94a8817a23585fa814eac9c879feddf9 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Wed, 6 Jan 2021 22:18:15 -0600
Subject: [PATCH] Fix log in infer species if ambiguous
---
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 b8d8b54..cec1b29 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -836,8 +836,9 @@ process inferMetadata {
bam="GRCm.sampled.sorted.bam"
bed="./GRCm/genome.bed"
fi
+ else
+ echo -e "LOG: inference of species results in: \${species}" >> ${repRID}.inferMetadata.log
fi
- echo -e "LOG: inference of species results in: \${species}" >> ${repRID}.inferMetadata.log
# infer experimental setting from dedup bam
echo -e "LOG: infer experimental setting from dedup bam" >> ${repRID}.inferMetadata.log
--
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