nf-core_modules/tests/modules/lofreq/call/main.nf

#!/usr/bin/env nextflow

nextflow.enable.dsl = 2

include { LOFREQ_CALL } from '../../../../modules/lofreq/call/main.nf' addParams( options: [:] )

workflow test_lofreq_call {

    input = [ [ id:'test', single_end:false ], // meta map
              file(params.test_data['sarscov2']['illumina']['test_paired_end_bam'], checkIfExists: true) ]
    fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)

    LOFREQ_CALL ( input, fasta )
}
Lofreq call (#564) * created templates * updated functions.nf to the one on dev * Created test main * Fasta added and docker, conda, singularity passing * Fixed output version lint 2021-07-06 09:41:00 +00:00			`#!/usr/bin/env nextflow`

			`nextflow.enable.dsl = 2`

Rename software/ directory to modules/ to re-organise module structure (#567) * 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 2021-07-07 09:10:18 +00:00			`include { LOFREQ_CALL } from '../../../../modules/lofreq/call/main.nf' addParams( options: [:] )`
Lofreq call (#564) * created templates * updated functions.nf to the one on dev * Created test main * Fasta added and docker, conda, singularity passing * Fixed output version lint 2021-07-06 09:41:00 +00:00
			`workflow test_lofreq_call {`

			`input = [ [ id:'test', single_end:false ], // meta map`
			`file(params.test_data['sarscov2']['illumina']['test_paired_end_bam'], checkIfExists: true) ]`
			`fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)`

			`LOFREQ_CALL ( input, fasta )`
			`}`