mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-26 23:43:19 -05:00
b6fe5d2643
* add atlas/pmd * update atlas/pmd tests * Add atlas/PMD module * Remove comment * Run Prettier * Incorporate Review by @jfy133 Co-authored-by: maxibor <maxime.borry@gmail.com> Co-authored-by: Maxime Borry <maxibor@users.noreply.github.com> Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
19 lines
694 B
Text
19 lines
694 B
Text
#!/usr/bin/env nextflow
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { ATLAS_PMD } from '../../../../modules/atlas/pmd/main.nf'
|
|
|
|
workflow test_atlas_pmd {
|
|
|
|
input = [
|
|
[ id:'test', single_end:false ], // meta map
|
|
file(params.test_data['homo_sapiens']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true),
|
|
file(params.test_data['homo_sapiens']['illumina']['test_paired_end_sorted_bam_bai'], checkIfExists: true),
|
|
[]
|
|
]
|
|
fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)
|
|
fai = file(params.test_data['homo_sapiens']['genome']['genome_fasta_fai'], checkIfExists: true)
|
|
|
|
ATLAS_PMD ( input, fasta, fai )
|
|
}
|