mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-11 04:33:10 +00:00
691feeafdc
* fasta_fai_dict tuple is now split into separate input channels * fix: lint errors * fix: pytest errors * Update modules/gatk4/splitncigarreads/meta.yml * Update modules/gatk4/splitncigarreads/main.nf Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>
16 lines
714 B
Text
16 lines
714 B
Text
#!/usr/bin/env nextflow
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { GATK4_SPLITNCIGARREADS } from '../../../../modules/gatk4/splitncigarreads/main.nf' addParams( options: [:] )
|
|
|
|
workflow test_gatk4_splitncigarreads {
|
|
input = [ [ id:'test' ], // meta map
|
|
[ file(params.test_data['sarscov2']['illumina']['test_paired_end_bam'], checkIfExists: true) ]
|
|
]
|
|
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
|
fai = file(params.test_data['sarscov2']['genome']['genome_fasta_fai'], checkIfExists: true)
|
|
dict = file(params.test_data['sarscov2']['genome']['genome_dict'], checkIfExists: true)
|
|
|
|
GATK4_SPLITNCIGARREADS ( input, fasta, fai, dict )
|
|
}
|