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Faqcs patch (#1367)

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* faqcs update to capture debug output

* change paths

Co-authored-by: Cipriano <rrn8@cdc.gov>
This commit is contained in:
Michael J Cipriano 2022-03-02 08:27:38 -05:00 committed by GitHub
parent 4983f77796
commit 2cd502a236
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2 changed files with 5 additions and 0 deletions
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1
modules/faqcs/main.nf
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@ -13,6 +13,7 @@ process FAQCS {
output: output:
tuple val(meta), path('*.trimmed.fastq.gz') , emit: reads tuple val(meta), path('*.trimmed.fastq.gz') , emit: reads
tuple val(meta), path('*.stats.txt') , emit: stats tuple val(meta), path('*.stats.txt') , emit: stats
tuple val(meta), path('*.txt') , optional:true, emit: txt
tuple val(meta), path('*_qc_report.pdf') , optional:true, emit: statspdf tuple val(meta), path('*_qc_report.pdf') , optional:true, emit: statspdf
tuple val(meta), path('*.log') , emit: log tuple val(meta), path('*.log') , emit: log
tuple val(meta), path('*.discard.fastq.gz') , optional:true, emit: reads_fail tuple val(meta), path('*.discard.fastq.gz') , optional:true, emit: reads_fail

4
modules/faqcs/meta.yml
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@ -54,6 +54,10 @@ output:
type: file type: file
description: trimming/qc text stats file description: trimming/qc text stats file
pattern: "*.stats.txt" pattern: "*.stats.txt"
- txt:
type: file
description: trimming/qc text txt files from --debug option
pattern: "*.txt"
- statspdf: - statspdf:
type: file type: file
description: trimming/qc pdf report file description: trimming/qc pdf report file