mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-11 04:33:10 +00:00
0b402ffda8
* initial 'modules create' of minia * fixed tests * finished meta.yml * fixed filters.yml * resolved issues in pytest_software.yml * add newline * Update software/minia/main.nf * fixing a bunch of module tests * remove vscode * fixed minia * move test data directory to nf-core/test-datasets * bump multiqc version * remove the test data * updated test data link * update README Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
35 lines
1.2 KiB
Text
35 lines
1.2 KiB
Text
// Import generic module functions
|
|
include { initOptions; saveFiles; getSoftwareName } from './functions'
|
|
|
|
params.options = [:]
|
|
options = initOptions(params.options)
|
|
|
|
process MULTIQC {
|
|
label 'process_medium'
|
|
publishDir "${params.outdir}",
|
|
mode: params.publish_dir_mode,
|
|
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), meta:[:], publish_by_meta:[]) }
|
|
|
|
conda (params.enable_conda ? "bioconda::multiqc=1.10.1" : null)
|
|
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {
|
|
container "https://depot.galaxyproject.org/singularity/multiqc:1.10.1--py_0"
|
|
} else {
|
|
container "quay.io/biocontainers/multiqc:1.10.1--py_0"
|
|
}
|
|
|
|
input:
|
|
path multiqc_files
|
|
|
|
output:
|
|
path "*multiqc_report.html", emit: report
|
|
path "*_data" , emit: data
|
|
path "*_plots" , optional:true, emit: plots
|
|
path "*.version.txt" , emit: version
|
|
|
|
script:
|
|
def software = getSoftwareName(task.process)
|
|
"""
|
|
multiqc -f $options.args .
|
|
multiqc --version | sed -e "s/multiqc, version //g" > ${software}.version.txt
|
|
"""
|
|
}
|