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37 lines
1 KiB
Text
37 lines
1 KiB
Text
process DIAMOND_MAKEDB {
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tag "$fasta"
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label 'process_medium'
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// Dimaond is limited to v2.0.9 because there is not a
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// singularity version higher than this at the current time.
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conda (params.enable_conda ? 'bioconda::diamond=2.0.9' : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/diamond:2.0.9--hdcc8f71_0' :
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'quay.io/biocontainers/diamond:2.0.9--hdcc8f71_0' }"
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input:
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path fasta
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output:
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path "${fasta}.dmnd", emit: db
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path "versions.yml" , emit: versions
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when:
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task.ext.when == null || task.ext.when
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script:
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def args = task.ext.args ?: ''
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"""
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diamond \\
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makedb \\
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--threads $task.cpus \\
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--in $fasta \\
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-d $fasta \\
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$args
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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diamond: \$(diamond --version 2>&1 | tail -n 1 | sed 's/^diamond version //')
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END_VERSIONS
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"""
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}
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