process PAIRIX { tag "$meta.id" label 'process_medium' conda (params.enable_conda ? "bioconda::pairix=0.3.7" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/pairix:0.3.7--py36h30a8e3e_3' : 'quay.io/biocontainers/pairix:0.3.7--py36h30a8e3e_3' }" input: tuple val(meta), path(pair) output: tuple val(meta), path(pair), path("*.px2"), emit: index path "versions.yml" , emit: versions script: def args = task.ext.args ?: '' """ pairix \\ $args \\ $pair cat <<-END_VERSIONS > versions.yml "${task.process}": pairix: \$(echo \$(pairix --help 2>&1) | sed 's/^.*Version: //; s/Usage.*\$//') END_VERSIONS """ }