process DOWNLOAD_PUBMLST_SCHEME {
    tag "dl_pubmlst_profiles_and_schemes.py"
    label "process_pico"

    module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
    conda (params.enable_conda ? "conda-forge::python=3.10.4" : null)
    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
        'https://depot.galaxyproject.org/singularity/python:3.10.4' :
        'quay.io/biocontainers/python:3.10.4' }"

    input:
        val organism

    output:
        path "${organism}" , emit: pubmlst_dir
        path 'versions.yml', emit: versions

    when:
        task.ext.when == null || task.ext.when

    script:
        def args = task.ext.args ?: ''
        """
        dl_pubmlst_profiles_and_schemes.py \\
            -f \\
            $args

        cat <<-END_VERSIONS > versions.yml
        "${task.process}":
            python: \$( python --version | sed 's/Python //g' )
        END_VERSIONS
        """

}