mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 19:18:17 +00:00
e937c7950a
* Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml
35 lines
No EOL
1.3 KiB
Text
35 lines
No EOL
1.3 KiB
Text
#!/usr/bin/env nextflow
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { SUBREAD_FEATURECOUNTS } from '../../../../modules/subread/featurecounts/main.nf' addParams( options: [args:'-t CDS'] )
|
|
|
|
workflow test_subread_featurecounts_forward {
|
|
|
|
def input = []
|
|
input = [ [ id:'test', single_end:true, strandedness:'forward' ], // meta map
|
|
file(params.test_data['sarscov2']['illumina']['test_single_end_bam'], checkIfExists: true),
|
|
file(params.test_data['sarscov2']['genome']['genome_gtf'], checkIfExists: true) ]
|
|
|
|
SUBREAD_FEATURECOUNTS ( input )
|
|
}
|
|
|
|
workflow test_subread_featurecounts_reverse {
|
|
|
|
def input = []
|
|
input = [ [ id:'test', single_end:true, strandedness:'reverse' ], // meta map
|
|
file(params.test_data['sarscov2']['illumina']['test_single_end_bam'], checkIfExists: true),
|
|
file(params.test_data['sarscov2']['genome']['genome_gtf'], checkIfExists: true) ]
|
|
|
|
SUBREAD_FEATURECOUNTS ( input )
|
|
}
|
|
|
|
workflow test_subread_featurecounts_unstranded {
|
|
|
|
def input = []
|
|
input = [ [ id:'test', single_end:true, strandedness:'unstranded' ], // meta map
|
|
file(params.test_data['sarscov2']['illumina']['test_single_end_bam'], checkIfExists: true),
|
|
file(params.test_data['sarscov2']['genome']['genome_gtf'], checkIfExists: true) ]
|
|
|
|
SUBREAD_FEATURECOUNTS ( input )
|
|
} |