def VERSION = '377' // Version information not provided by tool on CLI process UCSC_LIFTOVER { tag "$meta.id" label 'process_low' conda (params.enable_conda ? "bioconda::ucsc-liftover=377" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/ucsc-liftover:377--h0b8a92a_3' : 'quay.io/biocontainers/ucsc-liftover:377--h0b8a92a_3' }" input: tuple val(meta), path(bed) path(chain) output: tuple val(meta), path("*.lifted.bed") , emit: lifted tuple val(meta), path("*.unlifted.bed"), emit: unlifted path "versions.yml" , emit: versions script: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" """ liftOver \\ $args \ $bed \\ $chain \\ ${prefix}.lifted.bed \\ ${prefix}.unlifted.bed cat <<-END_VERSIONS > versions.yml "${task.process}": ucsc: $VERSION END_VERSIONS """ }