process GUNC_RUN { tag "$meta.id" label 'process_medium' conda (params.enable_conda ? "bioconda::gunc=1.0.5" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/gunc:1.0.5--pyhdfd78af_0' : 'quay.io/biocontainers/gunc:1.0.5--pyhdfd78af_0' }" input: tuple val(meta), path(fasta) path(db) output: tuple val(meta), path("*maxCSS_level.tsv") , emit: maxcss_level_tsv tuple val(meta), path("*all_levels.tsv") , optional: true, emit: all_levels_tsv path "versions.yml" , emit: versions script: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" """ gunc \\ run \\ --input_fasta $fasta \\ --db_file $db \\ --threads $task.cpus \\ $args cat <<-END_VERSIONS > versions.yml "${task.process}": gunc: \$( gunc --version ) END_VERSIONS """ }