nf-core_modules/tests/modules/expansionhunter/main.nf

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#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { EXPANSIONHUNTER } from '../../../modules/expansionhunter/main.nf' addParams( options: [:] )
workflow test_expansionhunter {
input = [ [ id:'test', gender:'male' ], // meta map
file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
]
fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)
variant_catalog = file(params.test_data['homo_sapiens']['genome']['repeat_expansions'], checkIfExists: true)
EXPANSIONHUNTER ( input, fasta, variant_catalog )
}