process BAMTOOLS_STATS { tag "$meta.id" label 'process_single' conda (params.enable_conda ? "bioconda::bamtools=2.5.1" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/bamtools:2.5.1--h9a82719_9' : 'quay.io/biocontainers/bamtools:2.5.1--h9a82719_9' }" input: tuple val(meta), path(bam) output: tuple val(meta), path("*.stats"), emit: stats path "versions.yml" , emit: versions when: task.ext.when == null || task.ext.when script: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" """ bamtools \\ stats \\ -in $bam \\ >${prefix}.bam.stats cat <<-END_VERSIONS > versions.yml "${task.process}": bamtools: \$( bamtools --version | grep -e 'bamtools' | sed 's/^.*bamtools //' ) END_VERSIONS """ }