mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-11 04:33:10 +00:00
29 lines
863 B
Text
29 lines
863 B
Text
|
#!/usr/bin/env nextflow
|
||
|
|
|
||
|
|
nextflow.enable.dsl = 2
|
||
|
|
|
||
|
|
include { UNTAR } from '../../../../modules/untar/main.nf'
|
||
|
|
include { SRATOOLS_FASTERQDUMP } from '../../../../modules/sratools/fasterqdump/main.nf' addParams( options: [:] )
|
||
|
|
|
||
|
|
workflow test_sratools_fasterqdump_single_end {
|
||
|
|
|
||
|
|
archive = file(params.test_data['sarscov2']['illumina']['SRR13255544_tar_gz'], checkIfExists: true)
|
||
|
|
UNTAR ( archive )
|
||
|
|
|
||
|
|
def input = Channel.of([ id:'test_single_end', single_end:true ])
|
||
|
|
.combine(UNTAR.out.untar)
|
||
|
|
|
||
|
|
SRATOOLS_FASTERQDUMP ( input )
|
||
|
|
}
|
||
|
|
|
||
|
|
workflow test_sratools_fasterqdump_paired_end {
|
||
|
|
|
||
|
|
archive = file(params.test_data['sarscov2']['illumina']['SRR11140744_tar_gz'], checkIfExists: true)
|
||
|
|
UNTAR ( archive )
|
||
|
|
|
||
|
|
def input = Channel.of([ id:'test_paired_end', single_end:false ])
|
||
|
|
.combine(UNTAR.out.untar)
|
||
|
|
|
||
|
|
SRATOOLS_FASTERQDUMP ( input )
|
||
|
|
}
|