nf-core_modules/tests/modules/minimap2/align/main.nf

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#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { MINIMAP2_ALIGN } from '../../../../modules/minimap2/align/main.nf' addParams( options: [:] )
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workflow test_minimap2_align_single_end {
input = [ [ id:'test', single_end:true ], // meta map
[ file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true)]
]
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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MINIMAP2_ALIGN ( input, fasta )
}
workflow test_minimap2_align_paired_end {
input = [ [ id:'test', single_end:false ], // meta map
[ file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true),
file(params.test_data['sarscov2']['illumina']['test_2_fastq_gz'], checkIfExists: true) ]
]
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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MINIMAP2_ALIGN ( input, fasta )
}