From 9b1dd698de8ef23fc788dc75ea54bc2ae85b75d6 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Wed, 6 Jan 2021 22:30:26 -0600
Subject: [PATCH] Fix fail on ambiguous species
---
workflow/rna-seq.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index d57b8e0..af5dc1a 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -840,7 +840,7 @@ process inferMetadata {
fi
fi
- if [ !\${speciesError} ] && [ "${speciesForce}" = "" ]
+ if !\${speciesError} && [ "${speciesForce}" = "" ]
then
# infer experimental setting from dedup bam
echo -e "LOG: infer experimental setting from dedup bam" >> ${repRID}.inferMetadata.log
--
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