mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-14 21:53:10 +00:00
22 lines
919 B
Text
22 lines
919 B
Text
|
#!/usr/bin/env nextflow
|
||
|
|
nextflow.preview.dsl = 2
|
||
|
|
include '../main.nf' params(params)
|
||
|
|
|
||
|
|
// Define input channels
|
||
|
|
paired_end_input = Channel.fromFilePairs('../../../test-datasets/tools/cutadapt/input/*_{1,2}.fastq' )
|
||
|
|
|
||
|
|
// TODO: params.single_end is set to false in nextflow config
|
||
|
|
// But most of this module is not functional currently anyway....
|
||
|
|
single_end_input = Channel.from([
|
||
|
|
['SRR4238351', '../../../test-datasets/tools/cutadapt/input/SRR4238351_subsamp.fastq.gz'],
|
||
|
|
['SRR4238355', '../../../test-datasets/tools/cutadapt/input/SRR4238355_subsamp.fastq.gz'],
|
||
|
|
['SRR4238359', '../../../test-datasets/tools/cutadapt/input/SRR4238359_subsamp.fastq.gz'],
|
||
|
|
['SRR4238379', '../../../test-datasets/tools/cutadapt/input/SRR4238379_subsamp.fastq.gz']
|
||
|
|
]).map { row -> [ row[0], [ file(row[1]) ] ] }
|
||
|
|
|
||
|
|
// Run the workflow
|
||
|
|
workflow {
|
||
|
|
cutadapt(paired_end_input)
|
||
|
|
cutadapt(single_end_input)
|
||
|
|
}
|