nf-core_modules/tests/modules/mash/screen/main.nf
Mahesh Binzer-Panchal 2926ec0abb Add mash screen
2022-05-20 13:23:11 +00:00

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Text

#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { MASH_SKETCH } from '../../../../modules/mash/sketch/main.nf'
include { MASH_SCREEN } from '../../../../modules/mash/screen/main.nf'
workflow test_mash_screen {
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)
]
]
fastx_db = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
MASH_SKETCH ( input )
MASH_SCREEN ( MASH_SKETCH.out.mash, fastx_db )
}