From 9af182a12ca4156d63f9b46c07dc2f3c7816c8b1 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 31 Jul 2018 14:24:05 +0200
Subject: [PATCH] Bowtie2: change toList to collect
---
src/nf_modules/Bowtie2/bowtie2.nf | 4 ++--
src/nf_modules/Bowtie2/tests/mapping_paired.nf | 2 +-
src/nf_modules/Bowtie2/tests/mapping_single.nf | 2 +-
3 files changed, 4 insertions(+), 4 deletions(-)
diff --git a/src/nf_modules/Bowtie2/bowtie2.nf b/src/nf_modules/Bowtie2/bowtie2.nf
index 3a51b5c..d35c344 100644
--- a/src/nf_modules/Bowtie2/bowtie2.nf
+++ b/src/nf_modules/Bowtie2/bowtie2.nf
@@ -64,7 +64,7 @@ process mapping_fastq {
input:
set pair_id, file(reads) from fastq_files
- file index from index_files.toList()
+ file index from index_files.collect()
output:
set pair_id, "*.bam" into bam_files
@@ -114,7 +114,7 @@ process mapping_fastq {
input:
file reads from fastq_files
- file index from index_files.toList()
+ file index from index_files.collect()
output:
file "*.bam" into bam_files
diff --git a/src/nf_modules/Bowtie2/tests/mapping_paired.nf b/src/nf_modules/Bowtie2/tests/mapping_paired.nf
index 4cacca4..7422b14 100644
--- a/src/nf_modules/Bowtie2/tests/mapping_paired.nf
+++ b/src/nf_modules/Bowtie2/tests/mapping_paired.nf
@@ -20,7 +20,7 @@ process mapping_fastq {
input:
set pair_id, file(reads) from fastq_files
- file index from index_files.toList()
+ file index from index_files.collect()
output:
set pair_id, "*.bam" into bam_files
diff --git a/src/nf_modules/Bowtie2/tests/mapping_single.nf b/src/nf_modules/Bowtie2/tests/mapping_single.nf
index 19f491a..5f6a9de 100644
--- a/src/nf_modules/Bowtie2/tests/mapping_single.nf
+++ b/src/nf_modules/Bowtie2/tests/mapping_single.nf
@@ -19,7 +19,7 @@ process mapping_fastq {
input:
file reads from fastq_files
- file index from index_files.toList()
+ file index from index_files.collect()
output:
file "*.bam" into bam_files
--
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