kkonganti@17: process DOWNLOAD_PDG_METADATA {
kkonganti@17:     tag "dl_pdg_metadata.py"
kkonganti@17:     label "process_pico"
kkonganti@17: 
kkonganti@17:     module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
kkonganti@17:     conda (params.enable_conda ? "conda-forge::python=3.10.4" : null)
kkonganti@17:     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
kkonganti@17:         'https://depot.galaxyproject.org/singularity/python:3.10.4' :
kkonganti@17:         'quay.io/biocontainers/python:3.10.4' }"
kkonganti@17: 
kkonganti@17:     input:
kkonganti@17:         val pdg_release
kkonganti@17: 
kkonganti@17:     output:
kkonganti@17:         path "**${params.fs}*.metadata.tsv"                     , emit: pdg_metadata
kkonganti@17:         path "**${params.fs}*.reference_target.cluster_list.tsv", emit: snp_cluster_metadata
kkonganti@17:         path "**${params.fs}*accs_all.txt"                      , emit: accs
kkonganti@17:         path 'versions.yml'                                     , emit: versions
kkonganti@17: 
kkonganti@17:     when:
kkonganti@17:         task.ext.when == null || task.ext.when
kkonganti@17: 
kkonganti@17:     script:
kkonganti@17:         def args = task.ext.args ?: ''
kkonganti@17:         args += (pdg_release ? " -rel ${pdg_release}" : '')
kkonganti@17:         """
kkonganti@17:         dl_pdg_metadata.py \\
kkonganti@17:             $args
kkonganti@17: 
kkonganti@17:         cat <<-END_VERSIONS > versions.yml
kkonganti@17:         "${task.process}":
kkonganti@17:             python: \$( python --version | sed 's/Python //g' )
kkonganti@17:         END_VERSIONS
kkonganti@17:         """
kkonganti@17: 
kkonganti@17: }