nf-core_modules/tests/modules/graphmap2/align/main.nf

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#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { GRAPHMAP2_INDEX } from '../../../../modules/graphmap2/index/main.nf' addParams( options: [:] )
include { GRAPHMAP2_ALIGN } from '../../../../modules/graphmap2/align/main.nf' addParams( options: [:] )
workflow test_graphmap2_align {
input = [ [ id:'test' ], // meta map
[ file(params.test_data['sarscov2']['nanopore']['test_fastq_gz'], checkIfExists: true) ]
]
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
GRAPHMAP2_INDEX ( fasta )
GRAPHMAP2_ALIGN ( input, fasta, GRAPHMAP2_INDEX.out.index )
}