nf-core_modules/tests/software/bwamem2/mem/main.nf

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Text

#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { BWAMEM2_MEM } from '../../../../software/bwamem2/mem/main.nf' addParams( options: [:] )
/*
* Test with single-end data
*/
workflow test_bwamem2_mem_single_end {
def input = []
input = [ [ id:'test', single_end:true ], // meta map
[ file("${launchDir}/tests/data/fastq/dna/Ecoli_DNA_R1.fastq.gz", checkIfExists: true) ] ]
BWAMEM2_MEM (
input,
file("${launchDir}/tests/data/index/E_coli/bwamem2/", checkIfExists: true)
)
}
/*
* Test with paired-end data
*/
workflow test_bwamem2_mem_paired_end {
def input = []
input = [ [ id:'test', single_end:false ], // meta map
[ file("${launchDir}/tests/data/fastq/dna/Ecoli_DNA_R1.fastq.gz", checkIfExists: true),
file("${launchDir}/tests/data/fastq/dna/Ecoli_DNA_R2.fastq.gz", checkIfExists: true) ] ]
BWAMEM2_MEM (
input,
file("${launchDir}/tests/data/index/E_coli/bwamem2/", checkIfExists: true)
)
}