nf-core_modules/modules/dragmap/hashtable/main.nf

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process DRAGMAP_HASHTABLE {
tag "$fasta"
label 'process_high'
conda (params.enable_conda ? "bioconda::dragmap=1.2.1" : null)
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/dragmap:1.2.1--hd4ca14e_0':
'quay.io/biocontainers/dragmap:1.2.1--hd4ca14e_0' }"
input:
path fasta
output:
path "dragmap" , emit: hashmap
path "versions.yml" , emit: versions
script:
def args = task.ext.args ?: ''
"""
mkdir dragmap
dragen-os \\
--build-hash-table true \\
--ht-reference $fasta \\
--output-directory dragmap \\
$args \\
--ht-num-threads $task.cpus
cat <<-END_VERSIONS > versions.yml
"${task.process}":
dragmap: \$(echo \$(dragen-os --version 2>&1))
END_VERSIONS
"""
}