/*

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

    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 main.nf -profile test_ibis,<docker/singularity> --outdir <OUTDIR>

----------------------------------------------------------------------------------------

*/

params {

    config_profile_name        = 'Test ibis profile - with preprocessing'

    config_profile_description = 'Minimal ibis test dataset (with preprocessing) to check pipeline functions'

    // Input data

    data                 = params.pipelines_testdata_base_path + 'deepmodeloptim/testdata/ibis/ibis_SP140/SP140_ghts.peaks'

    data_config          = params.pipelines_testdata_base_path + 'deepmodeloptim/testdata/ibis/data.yaml'

    model                = params.pipelines_testdata_base_path + 'deepmodeloptim/testdata/ibis/ConvBasic_withEfficientKAN.py'

    model_config         = params.pipelines_testdata_base_path + 'deepmodeloptim/testdata/ibis/ConvBasic_withEfficientKAN.yaml'

    preprocessing_config = params.pipelines_testdata_base_path + 'deepmodeloptim/testdata/ibis/ibis_SP140/preprocessing.yaml'

    genome               = 'GRCh38'

    bed_peak_size        = 40

    // output

    save_data    = true

}

// Limit resources so that this can run on GitHub Actions

process {

    maxRetries = params.max_retries

    errorStrategy = params.err_start

    withLabel:process_low {

        cpus   = { 1                    }

        memory = { 4.GB * task.attempt  }

        time   = { 10.m  * task.attempt }

    }

    withLabel:process_medium {

        cpus   = { 2                    }

        memory = { 6.GB * task.attempt  }

        time   = { 30.m  * task.attempt }

    }

    withLabel:process_high {

        cpus   = { 4                    }

        memory = { 8.GB * task.attempt  }

        time   = { 1.h  * task.attempt  }

    }

}