/*
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    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/smrnaseq -profile test_index,<docker/singularity> --outdir <OUTDIR>

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

params {
    config_profile_name        = 'Test index profile'
    config_profile_description = 'Minimal test dataset to check pipeline function with bowtie index'

    // Limit resources so that this can run on GitHub Actions
    max_cpus   = 2
    max_memory = '6.GB'
    max_time   = '6.h'

    // Input data

    input            = 'https://github.com/nf-core/test-datasets/raw/smrnaseq/samplesheet/v2.0/samplesheet.csv'
    fasta            = 'https://github.com/nf-core/test-datasets/raw/smrnaseq/reference/genome.fa'
    bowtie_index     = 'https://github.com/nf-core/test-datasets/raw/smrnaseq/reference/bowtie_index.tar.gz'

    mirtrace_species         = 'hsa'
    protocol                 = 'illumina'
    skip_mirdeep             = true
    save_merged              = false
    save_aligned_mirna_quant = false

    cleanup                  = true //Otherwise tests dont run through properly.
}
