mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-13 05:13:09 +00:00
e937c7950a
* Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml
25 lines
861 B
Text
25 lines
861 B
Text
#!/usr/bin/env nextflow
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { QUAST } from '../../../modules/quast/main.nf' addParams(options: [:])
|
|
|
|
workflow test_quast_ref {
|
|
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
|
gff = file(params.test_data['sarscov2']['genome']['genome_gtf'], checkIfExists: true)
|
|
consensus = file(params.test_data['sarscov2']['genome']['transcriptome_fasta'], checkIfExists: true)
|
|
use_fasta = true
|
|
use_gtf = true
|
|
|
|
QUAST ( consensus, fasta, gff, use_fasta, use_gtf )
|
|
}
|
|
|
|
workflow test_quast_noref {
|
|
fasta = file('fasta_dummy')
|
|
gff = file('gff_dummy')
|
|
consensus = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
|
use_fasta = false
|
|
use_gtf = false
|
|
|
|
QUAST ( consensus, fasta, gff, use_fasta, use_gtf )
|
|
}
|