mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +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
17 lines
643 B
Text
17 lines
643 B
Text
#!/usr/bin/env nextflow
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { GRAPHMAP2_INDEX } from '../../../../modules/graphmap2/index/main.nf' addParams( options: [:] )
|
|
include { GRAPHMAP2_ALIGN } from '../../../../modules/graphmap2/align/main.nf' addParams( options: [:] )
|
|
|
|
workflow test_graphmap2_align {
|
|
|
|
input = [ [ id:'test' ], // meta map
|
|
[ file(params.test_data['sarscov2']['nanopore']['test_fastq_gz'], checkIfExists: true) ]
|
|
]
|
|
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
|
|
|
GRAPHMAP2_INDEX ( fasta )
|
|
GRAPHMAP2_ALIGN ( input, fasta, GRAPHMAP2_INDEX.out.index )
|
|
}
|