cwlVersion: v1.2

$namespaces:
  s: https://schema.org/
  edam: http://edamontology.org/

$graph:

- class: CommandLineTool

  id: mpa_sintef

  baseCommand: python
  arguments:
   - /mpa/runnorkystforecast.py
  inputs:
    aqua_site_file:
      type: string
      doc: aqua_site_file
      inputBinding:
        prefix: --aqua_site_file
    aqua_site_distances_files:
      type: string
      doc: aqua_site_distances_files
      inputBinding:
        prefix: --aqua_site_distances_files
    aqua_opendrift_particles_per_site:
      type: int
      doc: aqua_opendrift_particles_per_site
      inputBinding:
        prefix: --aqua_opendrift_particles_per_site
    aqua_opendrift_simulation_duration_hours:
      type: int
      doc: aqua_opendrift_simulation_duration_hours
      inputBinding:
        prefix: --aqua_opendrift_simulation_duration_hours
    aqua_connectivity_number_of_neighbours:
      type: int
      doc: aqua_connectivity_number_of_neighbours
      inputBinding:
        prefix: --aqua_connectivity_number_of_neighbours
    aqua_connectivity_radius:
      type: int
      doc: aqua_connectivity_radius
      inputBinding:
        prefix: --aqua_connectivity_radius
    starttime:
      type: string?
      doc: The start time of the simulation
      inputBinding:
        prefix: --starttime

  outputs:
    simulation:
      format: edam:format_3650 # NetCDF
      type: File
      outputBinding:
        glob: "modeloutput/salmon_midnor.nc"
    connectivity:
      format: edam:format_3620 # xlsx
      type: File
      outputBinding:
        glob: "modeloutput/salmon_midnor_connectivity.xlsx"
    connectivity_with_locality_id:
      format: edam:format_3620 # xlsx
      type: File
      outputBinding:
        glob: "modeloutput/salmon_midnor_connectivity_withLocalityId.xlsx"

  requirements:
    NetworkAccess:
      networkAccess: true
    ResourceRequirement: {}
    InlineJavascriptRequirement: {}
    DockerRequirement:
      dockerPull: iliad-repository.inesctec.pt/mpa-sintef:0.2.0

  s:name: mpa_sintef
  s:description: Runs (i) OpenDrift, and (ii) the connectivity analysis for aquaculture sites in Norway using the NorKyst800 model data, for Marine Protected Areas (MPAs).
  s:keywords:
    - opendrift
    - mpa
    - aquaculture
    - connectivity
    - norway
    - norkyst800
  s:programmingLanguage: python
  s:softwareVersion: 0.2.0
  s:producer:
    class: s:Organization
    s:name: SINTEF OCEAN
    s:url: https://sintef.no/en/ocean/
    s:address:
        class: s:PostalAddress
        s:addressCountry: "NO"
  s:sourceOrganization:
    - class: s:Organization
      s:name: INESCTEC
      s:url: https://inesctec.pt
      s:address:
          class: s:PostalAddress
          s:addressCountry: PT
    - class: s:Organization
      s:name: SINTEF OCEAN
      s:url: https://sintef.no/en/ocean/
      s:address:
          class: s:PostalAddress
          s:addressCountry: "NO"
  s:author:
    - class: s:Person
      s:name: Raymond Nepstad
      s:email: raymond.nepstad@sintef.no
    - class: s:Person
      s:name: Volker Hoffmann
      s:email: volker.hoffmann@sintef.no
    - class: s:Person
      s:name: Antoine Pultier
      s:email: antoine.pultier@sintef.no
  s:contributor:
    - class: s:Person
      s:name: Miguel Correia
      s:email: miguel.r.correia@inesctec.pt
  s:codeRepository: https://github.com/ILIAD-ocean-twin/application_package/tree/main/mpa-norway
  s:dateCreated: "2025-11-25T11:24:32Z"