process BBMAP_INDEX { tag "$fasta" label 'process_long' conda (params.enable_conda ? "bioconda::bbmap=38.92" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/bbmap:38.92--he522d1c_0' : 'quay.io/biocontainers/bbmap:38.92--he522d1c_0' }" input: path fasta output: path 'ref' , emit: index path "versions.yml" , emit: versions script: def args = task.ext.args ?: '' """ bbmap.sh \\ ref=${fasta} \\ $args \\ threads=$task.cpus \\ -Xmx${task.memory.toGiga()}g cat <<-END_VERSIONS > versions.yml "${task.process}": bbmap: \$(bbversion.sh) END_VERSIONS """ }