funcscan/conf/test_preannotated_cazyme.config at 97c9bb90141a4e3c8b0029bf1aa9572ac5ad8593 · HaidYi/funcscan · GitHub

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/*
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    Nextflow config file for running minimal tests
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    Defines input files and everything required to run a fast and simple pipeline test.

    Use as follows:
        nextflow run nf-core/funcscan -profile test_preannotated_cazyme,<docker/singularity> --outdir <OUTDIR>

----------------------------------------------------------------------------------------
*/

process {
    resourceLimits = [
        cpus: 4,
        memory: '15.GB',
        time: '1.h'
    ]
}

params {
    config_profile_name        = 'CAZyme test profile - preannotated input'
    config_profile_description = 'Minimal test dataset to check CAZyme workflow function'

    // Input data
    input                      = params.pipelines_testdata_base_path + 'funcscan/samplesheet_preannotated.csv'

    annotation_tool            = 'pyrodigal'

    run_arg_screening          = false
    run_amp_screening          = false
    run_bgc_screening          = false
    run_cazyme_screening       = true

    dbcan_skip_cgc             = false   // CGC annotation enabled as .gff is provided in samplesheet
    dbcan_skip_substrate       = false   // Substrate annotation enabled as .gff is provided in samplesheet
}