nf-core_modules/tests/modules/muscle/main.nf
Harshil Patel e937c7950a
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 10:10:18 +01:00

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#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { MUSCLE } from '../../../modules/muscle/main.nf' addParams( options: ['args': '-fasta -verbose -phys -phyi -maxiters 2'])
include { MUSCLE as MUSCLE_TREE } from '../../../modules/muscle/main.nf' addParams( options: ['args': '-maketree'])
workflow test_muscle {
input = [ [ id:'test' ], // meta map
file(params.test_data['sarscov2']['genome']['informative_sites_fas'], checkIfExists: true) ]
MUSCLE ( input )
MUSCLE_TREE ( MUSCLE.out.aligned_fasta )
}