process PORECHOP { tag "$meta.id" label 'process_medium' conda (params.enable_conda ? "bioconda::porechop=0.2.4" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/porechop:0.2.4--py39h7cff6ad_2' : 'quay.io/biocontainers/porechop:0.2.4--py38h8c62d01_2' }" input: tuple val(meta), path(reads) output: tuple val(meta), path("*.fastq.gz"), emit: reads path "versions.yml" , emit: versions script: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" """ porechop \\ -i $reads \\ -t $task.cpus \\ $args \\ -o ${prefix}.fastq.gz cat <<-END_VERSIONS > versions.yml "${task.process}": porechop: \$( porechop --version ) END_VERSIONS """ }