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Fix multiqc tests

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This commit is contained in:
drpatelh 2021-02-03 17:43:14 +00:00
parent 0683efc679
commit ff6f0642d2
3 changed files with 12 additions and 11 deletions
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1
.github/filters.yml vendored
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@ -49,6 +49,7 @@ gffread:
- tests/software/gffread/**
multiqc:
- software/fastqc/**
- software/multiqc/**
- tests/software/multiqc/**

16
tests/software/multiqc/main.nf
View file

@ -2,15 +2,15 @@
nextflow.enable.dsl = 2
include { MULTIQC } from '../../../software/multiqc/main.nf' addParams(options: [publish_dir: 'test_multiqc'])
include { test_paired_end } from '../fastqc/main.nf' addParams(options: [publish_dir: 'test_paired_end'])
include { FASTQC } from '../../../software/fastqc/main.nf' addParams( options: [:] )
include { MULTIQC } from '../../../software/multiqc/main.nf' addParams( options: [:] )
workflow test_multiqc {
test_paired_end()
input = [
test_paired_end.out.zip.collect { it[1] }.ifEmpty([])
]
MULTIQC(*input)
def input = []
input = [ [ id: 'test', single_end: false ],
[ file("${launchDir}/tests/data/fastq/rna/test_R1.fastq.gz", checkIfExists: true),
file("${launchDir}/tests/data/fastq/rna/test_R2.fastq.gz", checkIfExists: true) ] ]
FASTQC ( input )
MULTIQC ( FASTQC.out.zip.collect { it[1] } )
}

4
tests/software/multiqc/test.yml
View file

@ -1,7 +1,7 @@
- name: multiqc
command: nextflow run ./tests/software/multiqc/ -entry test_multiqc -c tests/config/nextflow.config
command: nextflow run ./tests/software/multiqc -entry test_multiqc -c tests/config/nextflow.config
tags:
- multiqc
files:
- path: output/test_multiqc/multiqc_report.html
- path: output/multiqc/multiqc_report.html