#!/usr/bin/env cwl-runner # Copyright (C) 2018 EMBL - European Bioinformatics Institute # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. # You may obtain a copy of the License at # http://www.apache.org/licenses/LICENSE-2.0 # Unless required by applicable law or agreed to in writing, software # distributed under the License is distributed on an "AS IS" BASIS, # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. cwlVersion: v1.0 class: Workflow inputs: accessions: string method: string outformat: string email: string outputs: workflow_output: type: File outputSource: phobius_step/phobius_out steps: dbfetch_step: run: 'dbfetch.cwl' in: accessions-string: accessions method: method outformat: outformat out: [sequences] phobius_step: run: 'phobius.cwl' in: sequence: dbfetch_step/sequences email: email out: [phobius_out]