support #402

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: geoflow
-Version: 0.9999.20241210
-Date: 2024-12-10
+Version: 0.9999.20241231
+Date: 2024-12-31
 Title: Orchestrate Geospatial (Meta)Data Management Workflows and Manage FAIR Services
 Description: An engine to facilitate the orchestration and execution of metadata-driven data management workflows, in compliance with FAIR 
   (Findable, Accessible, Interoperable and Reusable) data management principles. By means of a pivot metadata model, relying on the DublinCore standard (<https://dublincore.org/>), 

inst/actions/atom4R_dataverse_deposit_record.yml

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+id: atom4R-dataverse-deposit-record
+fun: atom4R_dataverse_deposit_record.R
+funders:
+  - name: Réseau Zone Ateliers
+    url: https://www.za-inee.org/
+authors:
+  - name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  orphaned: true
+types:
+  - Data upload
+  - Data publication
+  - Metadata publication
+  - DOI management
+def: Deposits/Publish data and/or metetadata on a Dataverse using the Sword API
+target: job
+target_dir: dataverse
+pid_generator: dataverse
+pid_types:
+  doi: DOI_for_version
+generic_uploader: true
+packages:
+  - atom4R
+available_options:
+  depositWithFiles:
+    def: Indicates if the action is uploading files
+    class: logical
+    default: false
+  publish:
+    def: Indicates if the action should publish the deposit. Requires 'depositWithFiles' set to TRUE
+    class: logical
+    default: false
+  deleteOldFiles:
+    def: Indicates if the action should delete old files prior upload new files
+    class: logical
+    default: true
+  update_metadata:
+    def: For an existing deposit, indicates if metadata elements should be updated
+    class: logical
+    default: true
+  update_files:
+    def: For an existing deposit, indicates if files should be updated
+    class: logical
+    default: true

inst/actions/d4storagehub4R_upload_data.yml

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+id: d4storagehub4R-upload-data
+fun: d4storagehub4R_upload_data.R
+funders: []
+authors:
+  - name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  name: Emmanuel Blondel
+  email: [email protected]
+types:
+  - Data upload
+def: Upload data/metadata to a D4Science Workspace
+target: NA
+target_dir: NA
+generic_uploader: true
+packages:
+  - d4storagehub4R
+available_options:
+  depositWithFiles:
+    def: Indicates if the action is uploading files
+    class: logical
+    default: false
+  otherUploadFolders:
+    def: List of Folders (other than 'data' and 'metadata') to upload and which may contain files which should enrich others actions
+    class: character
+    choices: []
+    add_choices: true
+    multiple: true
+    default: NULL

inst/actions/dataone_upload_datapackage.yml

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+id: dataone-upload-datapackage
+fun: dataone_upload_datapackage.R
+funders:
+  - name: Réseau Zone Ateliers
+    url: https://www.za-inee.org/
+authors:
+  - name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  orphaned: true
+types:
+  - Data upload
+  - Data publication
+  - Metadata publication
+  - DOI management
+def: Uploads a data package to a DataOne metacat node
+target: job
+target_dir: dataone
+pid_generator: dataone
+pid_types:
+  packageId: PackageId
+packages:
+  - mime
+  - datapack
+  - dataone
+available_options: []

inst/actions/eml_create_eml.yml

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+id: eml-create-eml
+fun: eml_create_eml.R
+funders:
+  - name: Réseau Zone Ateliers
+    url: https://www.za-inee.org/
+authors:
+  - name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  orphaned: true
+types:
+  - Metadata production
+def: Produce an EML metadata object
+target: entity
+target_dir: metadata
+packages:
+  - EML
+  - emld
+available_options:
+  subject_taxonomy:
+    def: Identifier of the subject handling the Taxonomic coverage
+    class: character
+    default: taxonomy

inst/actions/geometa_create_iso_19110.yml

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+id: geometa-create-iso-19110
+fun: geometa_create_iso_19110.R
+funders:
+  - name: R Consortium
+    url: https://r-consortium.org/
+  - name: UN-FAO 
+    url: https://www.fao.org
+  - name: IRD
+    url: https:/www.ird.fr
+  - name: INRAE
+    url: https://www.inrae.fr
+authors:
+  - 
+    name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  name: Emmanuel Blondel
+  email: [email protected]
+types:
+  - Metadata production
+def: Produce an ISO 19110 metadata object and export it to XML
+target: entity
+target_dir: metadata
+packages:
+  - geometa
+available_options:
+  doi:
+    def: Add entity DOI - if defined - as metadata identifier and online resource
+    class: logical
+    default: false
+  exclude_attributes:
+    def: Attributes that should be excluded from the ISO 19110 production
+    class: character
+    choices: []
+    add_choices: true
+    multiple: true
+    default: NULL
+  exclude_attributes_not_in_dictionary:
+    def: Enable to exclude all attributes/variables not referenced as dictionary/featuretype
+    class: logical
+    default: false
+  exclude_values_for_attributes:
+    def: Attribute names for which listed values should not be produced
+    class: character
+    choices: []
+    add_choices: true
+    multiple: true
+    default: NULL
+  extra_attributes:
+    def: Extra attributes to add as feature catalog attributes although not in data
+    class: character
+    choices: []
+    add_choices: true
+    multiple: true
+    default: NULL
+  default_min_occurs:
+    def: The default min occurs value for feature attributes cardinality
+    class: integer
+    default: 0
+  default_max_occurs:
+    def: The default max occurs value for feature attribute cardinality
+    class: numeric
+    default: Inf

inst/actions/geometa_create_iso_19115.yml

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+id: geometa-create-iso-19115
+fun: geometa_create_iso_19115.R
+funders:
+  - name: R Consortium
+    url: https://r-consortium.org/
+  - name: UN-FAO 
+    url: https://www.fao.org
+  - name: IRD
+    url: https:/www.ird.fr
+  - name: INRAE
+    url: https://www.inrae.fr
+authors:
+  - 
+    name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  name: Emmanuel Blondel
+  email: [email protected]
+types:
+  - Metadata production
+def: Produce an ISO/OGC 19115 metadata object and export it to XML
+target: entity
+target_dir: metadata
+packages:
+  - geometa
+  - ows4R
+available_options:
+  use_uuid:
+    def: Use UUID as metadata identifier, if not defined the UUID is pre-generated
+    class: logical
+    default: false
+  doi:
+    def: Add entity DOI - if defined - as metadata identifier and online resource
+    class: logical
+    default: false
+  doi_thumbnail:
+    def: if option 'doi' is true and this option enabled, a DOI thumbnail will be added
+    class: logical
+    default: false
+  inspire:
+    def: Validates ISO 19139 metadata with INSPIRE reference validator
+    class: logical
+    default: false
+  logo:
+    def: Add configure profile logo(s) - if defined - as metadata thumbnail(s)
+    class: logical
+    default: false
+  addfeatures:
+    def: Add entity data features - if defined - as metadata bounding polygon(s)
+    class: logical
+    default: false
+  featureid:
+    def: ID of entity data features used to identify bounding polygon(s) with option 'addfeatures'
+    class: character
+    default: NA
+  subject_geography:
+    def: Identifier of the subject handling a Geographic coverage.
+    class: character
+    default: geography
+  include_service_identification:
+    def: Include service identification info metadata block
+    class: logical
+    default: false
+  include_coverage_data_dimension_values:
+    def: Include data dimensions's range values to coverage description
+    class: logical
+    default: false
+  include_coverage_service_dimension_values:
+    def: Include ogc dimensions's range values to coverage description
+    class: logical
+    default: false

inst/actions/geonapi_publish_iso_19139.yml

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+id: geonapi-publish-iso-19139
+fun: geonapi_publish_iso_19139.R
+funders:
+  - name: UN-FAO 
+    url: https://www.fao.org
+  - name: IRD
+    url: https:/www.ird.fr
+  - name: INRAE
+    url: https://www.inrae.fr
+authors:
+  - name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  name: Emmanuel Blondel
+  email: [email protected]
+types:
+  - Metadata publication
+def: Publish/Update an ISO/OGC 19139 metadata object with GeoNetwork API
+target: entity
+target_dir: metadata
+packages:
+  - geometa
+  - geonapi
+available_options:
+  geometa_inspire:
+    def: Validates ISO 19139 metadata with INSPIRE reference validator before publication
+    class: logical
+    default: false
+  privileges:
+    def: Geonetwork privileges to set for the metadata to be published
+    class: character
+    choices: 
+      - view
+      - dynamic
+      - download
+      - editing
+      - notify
+      - featured
+    default:
+      - view
+      - dynamic
+      - download
+      - featured
+    multiple: true
+  group:
+    def: Geonetwork user group to which the metadata should be associated
+    class: character
+    default: 2
+  category:
+    def: Category of metadata resources to which the metadata record should be associated
+    class: character
+    default: datasets
+  add_metadata_link:
+    def: Adds a link (as online resource) that points to the published metadata (as OGC CSW GetRecordById URL)
+    class: logical
+    default: true
+  publish_thumbnails:
+    def: Uploads local thumbnails as attachments and publish them as thumbnails / graphic overviews
+    class: logical
+    default: false
+  create_doi_on_datacite:
+    def: Creates DOIs on DataCite. Requires a DataCite account to be registered in the GeoNetwork administration panel.
+    class: logical
+    default: false

inst/actions/geonode4R_publish_ogc_services.yml

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+id: geonode4R-publish-ogc-services
+fun: geonode4R_publish_ogc_services.R
+funders:
+  - name: IRD
+    url: https:/www.ird.fr
+authors:
+  - name: Emmanuel Blondel
+    email: [email protected]
+maintainer:
+  name: Emmanuel Blondel
+  email: [email protected]
+types:
+  - Data upload
+  - Data publication
+  - Metadata publication
+def: Publish data to GeoNode OGC web-services (WMS/WFS/WCS)
+target: NA
+target_dir: NA
+packages:
+  - geonode4R
+available_options: []