nf-core_modules/tests/modules/tiddit/cov/main.nf

#!/usr/bin/env nextflow

nextflow.enable.dsl = 2

include { TIDDIT_COV as TIDDIT_COV_BED } from '../../../../modules/tiddit/cov/main.nf'
include { TIDDIT_COV as TIDDIT_COV_WIG } from '../../../../modules/tiddit/cov/main.nf'

workflow test_tiddit_cov_cram_bed {

    input = [ [ id:'test', single_end:false ], // meta map
            file(params.test_data['homo_sapiens']['illumina']['test_paired_end_sorted_cram'], checkIfExists: true) ]

    fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)

    TIDDIT_COV_BED ( input, fasta )
}

workflow test_tiddit_cov_bam_bed {

    input = [ [ id:'test', single_end:false ], // meta map
            file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]

    TIDDIT_COV_BED ( input, [] )
}

workflow test_tiddit_cov_cram_wig {

    input = [ [ id:'test', single_end:false ], // meta map
            file(params.test_data['homo_sapiens']['illumina']['test_paired_end_sorted_cram'], checkIfExists: true) ]

    fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)

    TIDDIT_COV_WIG ( input, fasta )
}

workflow test_tiddit_cov_bam_wig {

    input = [ [ id:'test', single_end:false ], // meta map
            file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]

    TIDDIT_COV_WIG ( input, [] )
}