From 3d5118d93b36c3cdef922b7e96ce9a046e9020e6 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 30 Jul 2018 14:40:42 +0200
Subject: [PATCH] fix typo in nf files
---
src/nf_modules/FastQC/fastqc.nf | 4 ++--
src/nf_modules/FastQC/tests/fastqc_paired.nf | 2 +-
src/nf_modules/FastQC/tests/fastqc_single.nf | 2 +-
src/nf_modules/MultiQC/multiqc.nf | 4 ++--
src/nf_modules/MultiQC/tests/multiqc_paired.nf | 6 +++---
src/nf_modules/MultiQC/tests/multiqc_single.nf | 6 +++---
6 files changed, 12 insertions(+), 12 deletions(-)
diff --git a/src/nf_modules/FastQC/fastqc.nf b/src/nf_modules/FastQC/fastqc.nf
index 5a8237c..2a725f4 100644
--- a/src/nf_modules/FastQC/fastqc.nf
+++ b/src/nf_modules/FastQC/fastqc.nf
@@ -29,7 +29,7 @@ process fastqc_fastq {
file reads from fastq_files
output:
- file "*.{zip,html}" into fastqc_repport
+ file "*.{zip,html}" into fastqc_report
script:
"""
@@ -59,7 +59,7 @@ process fastqc_fastq {
set pair_id, file(reads) from fastq_files
output:
- file "*.{zip,html}" into fastqc_repport
+ file "*.{zip,html}" into fastqc_report
script:
"""
diff --git a/src/nf_modules/FastQC/tests/fastqc_paired.nf b/src/nf_modules/FastQC/tests/fastqc_paired.nf
index d7cec0d..6755ede 100644
--- a/src/nf_modules/FastQC/tests/fastqc_paired.nf
+++ b/src/nf_modules/FastQC/tests/fastqc_paired.nf
@@ -15,7 +15,7 @@ process fastqc_fastq {
set pair_id, file(reads) from fastq_files
output:
- file "*.{zip,html}" into fastqc_repport
+ file "*.{zip,html}" into fastqc_report
script:
"""
diff --git a/src/nf_modules/FastQC/tests/fastqc_single.nf b/src/nf_modules/FastQC/tests/fastqc_single.nf
index 1ec9ad3..318d20c 100644
--- a/src/nf_modules/FastQC/tests/fastqc_single.nf
+++ b/src/nf_modules/FastQC/tests/fastqc_single.nf
@@ -16,7 +16,7 @@ process fastqc_fastq {
file reads from fastq_files
output:
- file "*.{zip,html}" into fastqc_repport
+ file "*.{zip,html}" into fastqc_report
script:
"""
diff --git a/src/nf_modules/MultiQC/multiqc.nf b/src/nf_modules/MultiQC/multiqc.nf
index eae20b5..b64d7f6 100644
--- a/src/nf_modules/MultiQC/multiqc.nf
+++ b/src/nf_modules/MultiQC/multiqc.nf
@@ -7,12 +7,12 @@
/* MultiQC */
process multiqc {
- tag "$repport.baseName"
+ tag "$report.baseName"
publishDir "results/fastq/multiqc/", mode: 'copy'
cpus = 1
input:
- file repport from fastqc_repport.collect()
+ file report from fastqc_report.collect()
output:
file "*multiqc_*" into multiqc_report
diff --git a/src/nf_modules/MultiQC/tests/multiqc_paired.nf b/src/nf_modules/MultiQC/tests/multiqc_paired.nf
index 7db2ea3..b459a9b 100644
--- a/src/nf_modules/MultiQC/tests/multiqc_paired.nf
+++ b/src/nf_modules/MultiQC/tests/multiqc_paired.nf
@@ -15,7 +15,7 @@ process fastqc_fastq {
set pair_id, file(reads) from fastq_files
output:
- file "*.{zip,html}" into fastqc_repport
+ file "*.{zip,html}" into fastqc_report
script:
"""
@@ -25,12 +25,12 @@ ${reads[0]} ${reads[1]}
}
process multiqc {
- tag "$repport[0].baseName"
+ tag "$report[0].baseName"
publishDir "results/fastq/multiqc/", mode: 'copy'
cpus = 1
input:
- file repport from fastqc_repport.collect()
+ file report from fastqc_report.collect()
output:
file "*multiqc_*" into multiqc_report
diff --git a/src/nf_modules/MultiQC/tests/multiqc_single.nf b/src/nf_modules/MultiQC/tests/multiqc_single.nf
index 30edc7b..4842803 100644
--- a/src/nf_modules/MultiQC/tests/multiqc_single.nf
+++ b/src/nf_modules/MultiQC/tests/multiqc_single.nf
@@ -16,7 +16,7 @@ process fastqc_fastq {
file reads from fastq_files
output:
- file "*.{zip,html}" into fastqc_repport
+ file "*.{zip,html}" into fastqc_report
script:
"""
@@ -25,12 +25,12 @@ fastqc --quiet --threads ${task.cpus} --format fastq --outdir ./ ${reads}
}
process multiqc {
- tag "$repport[0].baseName"
+ tag "$report[0].baseName"
publishDir "results/fastq/multiqc/", mode: 'copy'
cpus = 1
input:
- file repport from fastqc_repport.collect()
+ file report from fastqc_report.collect()
output:
file "*multiqc_*" into multiqc_report
--
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