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Verified Commit 3d5118d9 authored by Laurent Modolo's avatar Laurent Modolo
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fix typo in nf files

parent 4f6d0692
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...@@ -29,7 +29,7 @@ process fastqc_fastq { ...@@ -29,7 +29,7 @@ process fastqc_fastq {
file reads from fastq_files file reads from fastq_files
output: output:
file "*.{zip,html}" into fastqc_repport file "*.{zip,html}" into fastqc_report
script: script:
""" """
...@@ -59,7 +59,7 @@ process fastqc_fastq { ...@@ -59,7 +59,7 @@ process fastqc_fastq {
set pair_id, file(reads) from fastq_files set pair_id, file(reads) from fastq_files
output: output:
file "*.{zip,html}" into fastqc_repport file "*.{zip,html}" into fastqc_report
script: script:
""" """
......
...@@ -15,7 +15,7 @@ process fastqc_fastq { ...@@ -15,7 +15,7 @@ process fastqc_fastq {
set pair_id, file(reads) from fastq_files set pair_id, file(reads) from fastq_files
output: output:
file "*.{zip,html}" into fastqc_repport file "*.{zip,html}" into fastqc_report
script: script:
""" """
......
...@@ -16,7 +16,7 @@ process fastqc_fastq { ...@@ -16,7 +16,7 @@ process fastqc_fastq {
file reads from fastq_files file reads from fastq_files
output: output:
file "*.{zip,html}" into fastqc_repport file "*.{zip,html}" into fastqc_report
script: script:
""" """
......
...@@ -7,12 +7,12 @@ ...@@ -7,12 +7,12 @@
/* MultiQC */ /* MultiQC */
process multiqc { process multiqc {
tag "$repport.baseName" tag "$report.baseName"
publishDir "results/fastq/multiqc/", mode: 'copy' publishDir "results/fastq/multiqc/", mode: 'copy'
cpus = 1 cpus = 1
input: input:
file repport from fastqc_repport.collect() file report from fastqc_report.collect()
output: output:
file "*multiqc_*" into multiqc_report file "*multiqc_*" into multiqc_report
......
...@@ -15,7 +15,7 @@ process fastqc_fastq { ...@@ -15,7 +15,7 @@ process fastqc_fastq {
set pair_id, file(reads) from fastq_files set pair_id, file(reads) from fastq_files
output: output:
file "*.{zip,html}" into fastqc_repport file "*.{zip,html}" into fastqc_report
script: script:
""" """
...@@ -25,12 +25,12 @@ ${reads[0]} ${reads[1]} ...@@ -25,12 +25,12 @@ ${reads[0]} ${reads[1]}
} }
process multiqc { process multiqc {
tag "$repport[0].baseName" tag "$report[0].baseName"
publishDir "results/fastq/multiqc/", mode: 'copy' publishDir "results/fastq/multiqc/", mode: 'copy'
cpus = 1 cpus = 1
input: input:
file repport from fastqc_repport.collect() file report from fastqc_report.collect()
output: output:
file "*multiqc_*" into multiqc_report file "*multiqc_*" into multiqc_report
......
...@@ -16,7 +16,7 @@ process fastqc_fastq { ...@@ -16,7 +16,7 @@ process fastqc_fastq {
file reads from fastq_files file reads from fastq_files
output: output:
file "*.{zip,html}" into fastqc_repport file "*.{zip,html}" into fastqc_report
script: script:
""" """
...@@ -25,12 +25,12 @@ fastqc --quiet --threads ${task.cpus} --format fastq --outdir ./ ${reads} ...@@ -25,12 +25,12 @@ fastqc --quiet --threads ${task.cpus} --format fastq --outdir ./ ${reads}
} }
process multiqc { process multiqc {
tag "$repport[0].baseName" tag "$report[0].baseName"
publishDir "results/fastq/multiqc/", mode: 'copy' publishDir "results/fastq/multiqc/", mode: 'copy'
cpus = 1 cpus = 1
input: input:
file repport from fastqc_repport.collect() file report from fastqc_report.collect()
output: output:
file "*multiqc_*" into multiqc_report file "*multiqc_*" into multiqc_report
......
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