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https://github.com/MillironX/taxprofiler.git
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25 lines
693 B
Text
25 lines
693 B
Text
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process KRAKEN_STANDARD_REPORT {
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tag "$meta.id"
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label 'process_low'
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conda (params.enable_conda ? 'conda-forge::sed=4.8' : null)
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if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {
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container 'https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv2/biocontainers_v1.2.0_cv2.img'
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} else {
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container 'biocontainers/biocontainers:v1.2.0_cv2'
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}
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input:
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tuple val(meta), path(report)
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output:
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tuple val(meta), path(result), emit: report
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script:
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result = "${report.baseName}_standardized.kraken2.report.txt"
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"""
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cut -f1-3,6-8 "${report}" > "${result}"
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"""
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}
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