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c3bacb9fdd
* Add deeparg download data * Tweak downloaddata test.yml * Add deeparg tests * Apply suggestions from code review * Fix output file paths in test * Fix tests again md5sum to string
40 lines
1.2 KiB
Text
40 lines
1.2 KiB
Text
def VERSION="1.0.2"
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process DEEPARG_PREDICT {
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tag "$meta.id"
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label 'process_medium'
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conda (params.enable_conda ? "bioconda::deeparg=1.0.2" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity//deeparg:1.0.2--pyhdfd78af_1' :
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'quay.io/biocontainers/deeparg:1.0.2--pyhdfd78af_1' }"
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input:
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tuple val(meta), path(fasta), val(model)
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tuple path(db)
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output:
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tuple val(meta), path("*.align.daa") , emit: daa
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tuple val(meta), path("*.align.daa.tsv") , emit: daa_tsv
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tuple val(meta), path("*.mapping.ARG") , emit: arg
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tuple val(meta), path("*.mapping.potential.ARG"), emit: potential_arg
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path "versions.yml" , emit: versions
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script:
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def args = task.ext.args ?: ''
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def prefix = task.ext.prefix ?: "${meta.id}"
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"""
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deeparg \\
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predict \\
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$args \\
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-i $fasta \\
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-o ${prefix} \\
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-d $db \\
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--model $model
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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deeparg: $VERSION
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END_VERSIONS
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"""
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}
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