mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 19:18:17 +00:00
40 lines
1.2 KiB
Text
40 lines
1.2 KiB
Text
#!/usr/bin/env nextflow
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { RHOCALL_ANNOTATE } from '../../../../modules/rhocall/annotate/main.nf'
|
|
include { BCFTOOLS_ROH } from '../../../../modules/bcftools/roh/main.nf'
|
|
|
|
workflow test_rhocall_annotate {
|
|
|
|
input = [ [ id:'test' ], // meta map
|
|
file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true),
|
|
file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)]
|
|
|
|
af_file = [[],[]]
|
|
gen_map = []
|
|
regions = []
|
|
targets = []
|
|
samples = []
|
|
|
|
BCFTOOLS_ROH ( input, af_file, gen_map, regions, samples, targets )
|
|
RHOCALL_ANNOTATE ( input, BCFTOOLS_ROH.out.roh, [])
|
|
|
|
}
|
|
|
|
workflow test_rhocall_annotate_stub {
|
|
|
|
input = [ [ id:'test' ], // meta map
|
|
file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true),
|
|
file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)]
|
|
|
|
af_file = [[],[]]
|
|
gen_map = []
|
|
regions = []
|
|
targets = []
|
|
samples = []
|
|
|
|
BCFTOOLS_ROH ( input, af_file, gen_map, regions, samples, targets )
|
|
RHOCALL_ANNOTATE ( input, BCFTOOLS_ROH.out.roh, [])
|
|
|
|
}
|