From c6be6b3908c6e492398ad44e425533ab37c1d78f Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Thu, 15 Apr 2021 11:38:33 +0200
Subject: [PATCH] bwa: test if file_id is Map
---
src/nf_modules/bwa/main.nf | 11 +++++++----
1 file changed, 7 insertions(+), 4 deletions(-)
diff --git a/src/nf_modules/bwa/main.nf b/src/nf_modules/bwa/main.nf
index 1fd03feb..11aac606 100644
--- a/src/nf_modules/bwa/main.nf
+++ b/src/nf_modules/bwa/main.nf
@@ -49,10 +49,13 @@ process mapping_fastq {
if (file_id instanceof List){
library = file_id[0]
file_prefix = file_id[0]
- if (file_id.containsKey('library')) {
- library = file_id.library
- file_prefix = file_id.id
- }
+ } else if (file_id instanceof Map)
+ library = file_id[0]
+ file_prefix = file_id[0]
+ if (file_id.containsKey('library')) {
+ library = file_id.library
+ file_prefix = file_id.id
+ }
} else {
library = file_id
file_prefix = file_id
--
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