From e13bd1eb6547dae645f5ad818beb704b3cf9dff4 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Thu, 15 Apr 2021 10:52:40 +0200
Subject: [PATCH] bwa: fix library variable definition
---
src/nf_modules/bwa/main.nf | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/bwa/main.nf b/src/nf_modules/bwa/main.nf
index d61f5a95..5ae36893 100644
--- a/src/nf_modules/bwa/main.nf
+++ b/src/nf_modules/bwa/main.nf
@@ -52,10 +52,11 @@ process mapping_fastq {
library = file_id.library
file_prefix = file_id.id
} else {
- library = file_id
- file_prefix = file_id
+ library = file_id[0]
+ file_prefix = file_id[0]
}
} else {
+ library = file_id
file_prefix = file_id
}
bwa_mem_R = "@RG\\tID:${library}\\tSM:${library}\\tLB:lib_${library}\\tPL:illumina"
--
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