mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-24 11:48:17 +00:00
33 lines
1.3 KiB
Text
33 lines
1.3 KiB
Text
|
#!/usr/bin/env nextflow
|
||
|
|
|
||
|
|
nextflow.enable.dsl = 2
|
||
|
|
|
||
|
|
include { BISCUIT_INDEX } from '../../../../modules/biscuit/index/main.nf'
|
||
|
|
include { BISCUIT_BLASTER as BISCUIT_BLASTER_SE } from '../../../../modules/biscuit/biscuitblaster/main.nf'
|
||
|
|
include { BISCUIT_BLASTER as BISCUIT_BLASTER_PE } from '../../../../modules/biscuit/biscuitblaster/main.nf'
|
||
|
|
|
||
|
|
// Single-end test
|
||
|
|
workflow test_biscuit_blaster_single {
|
||
|
|
|
||
|
|
input = [ [ id:'test' ], // meta map
|
||
|
|
[ file(params.test_data['sarscov2']['illumina']['test_methylated_1_fastq_gz'], checkIfExists: true) ]
|
||
|
|
]
|
||
|
|
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
||
|
|
|
||
|
|
BISCUIT_INDEX ( fasta )
|
||
|
|
BISCUIT_BLASTER_SE (input, BISCUIT_INDEX.out.index )
|
||
|
|
}
|
||
|
|
|
||
|
|
// paired-end test
|
||
|
|
workflow test_biscuit_blaster_paired {
|
||
|
|
|
||
|
|
input = [ [ id:'test' ], // meta map
|
||
|
|
[ file(params.test_data['sarscov2']['illumina']['test_methylated_1_fastq_gz'], checkIfExists: true),
|
||
|
|
file(params.test_data['sarscov2']['illumina']['test_methylated_2_fastq_gz'], checkIfExists: true) ]
|
||
|
|
]
|
||
|
|
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
||
|
|
|
||
|
|
BISCUIT_INDEX ( fasta )
|
||
|
|
BISCUIT_BLASTER_PE (input, BISCUIT_INDEX.out.index )
|
||
|
|
}
|