mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
7b3315591a
* Remove def software line * Replace version with versions in emit statement * Fix default software names
37 lines
1.2 KiB
Text
37 lines
1.2 KiB
Text
// Import generic module functions
|
|
include { initOptions; saveFiles; getSoftwareName; getProcessName } from './functions'
|
|
|
|
params.options = [:]
|
|
options = initOptions(params.options)
|
|
|
|
process BWAMETH_INDEX {
|
|
tag "$fasta"
|
|
label 'process_high'
|
|
publishDir "${params.outdir}",
|
|
mode: params.publish_dir_mode,
|
|
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', meta:[:], publish_by_meta:[]) }
|
|
|
|
conda (params.enable_conda ? "bioconda::bwameth=0.2.2" : null)
|
|
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {
|
|
container "https://depot.galaxyproject.org/singularity/bwameth:0.2.2--py_1"
|
|
} else {
|
|
container "quay.io/biocontainers/bwameth:0.2.2--py_1"
|
|
}
|
|
|
|
input:
|
|
path fasta, stageAs: "bwameth/*"
|
|
|
|
output:
|
|
path "bwameth" , emit: index
|
|
path "versions.yml" , emit: versions
|
|
|
|
script:
|
|
"""
|
|
bwameth.py index $fasta
|
|
|
|
cat <<-END_VERSIONS > versions.yml
|
|
${getProcessName(task.process)}:
|
|
${getSoftwareName(task.process)}: \$(echo \$(bwameth.py --version 2>&1) | cut -f2 -d" ")
|
|
END_VERSIONS
|
|
"""
|
|
}
|