mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
98ed71c8f6
* feat(homer): Add pos2bed module * test(homer): Pass bed format * test(homer): Add upstream dependencies to avoid regressions * Update modules/homer/pos2bed/main.nf Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
33 lines
930 B
Text
33 lines
930 B
Text
def VERSION = '4.11' // Version information not provided by tool on CLI
|
|
|
|
process HOMER_POS2BED {
|
|
tag "$meta.id"
|
|
label 'process_medium'
|
|
|
|
conda (params.enable_conda ? "bioconda::homer=4.11" : null)
|
|
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
|
|
'https://depot.galaxyproject.org/singularity/homer:4.11--pl526hc9558a2_3' :
|
|
'quay.io/biocontainers/homer:4.11--pl526hc9558a2_3' }"
|
|
|
|
input:
|
|
tuple val(meta), path(peaks)
|
|
|
|
output:
|
|
tuple val(meta), path("*.bed"), emit: bed
|
|
path "versions.yml" , emit: versions
|
|
|
|
when:
|
|
task.ext.when == null || task.ext.when
|
|
|
|
script:
|
|
def args = task.ext.args ?: ''
|
|
def prefix = task.ext.prefix ?: "${meta.id}"
|
|
"""
|
|
pos2bed.pl $peaks > ${prefix}.bed
|
|
|
|
cat <<-END_VERSIONS > versions.yml
|
|
"${task.process}":
|
|
homer: $VERSION
|
|
END_VERSIONS
|
|
"""
|
|
}
|