nf-core_modules/tests/software/methyldackel/extract/main.nf
Charles Plessy 894349b9b5
Fix 459 (#534)
* Update test data names.

Closes: #459

Thanks: @FriederikeHanssen

(`samtools` tests are already fixed by another commit)

* Fix file names in tests.

The update of test data name required changes in the test yml files.

I also updated the `bismark/summary/main.nf` file to get its data
from the `params.test_data` map.
2021-06-14 12:24:59 +01:00

15 lines
758 B
Text

#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { METHYLDACKEL_EXTRACT } from '../../../../software/methyldackel/extract/main.nf' addParams( options: [:] )
workflow test_methyldackel_extract {
input = [ [ id:'test', single_end:false ], // meta map
file(params.test_data['sarscov2']['illumina']['test_paired_end_methylated_sorted_bam'], checkIfExists: true),
file(params.test_data['sarscov2']['illumina']['test_paired_end_methylated_sorted_bam_bai'], checkIfExists: true) ]
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
fai = file(params.test_data['sarscov2']['genome']['genome_fasta_fai'], checkIfExists: true)
METHYLDACKEL_EXTRACT ( input, fasta, fai )
}