Module: BiologicalAssociation::DwcExtensions

Extended by:
ActiveSupport::Concern
Included in:
BiologicalAssociation
Defined in:
app/models/biological_association/dwc_extensions.rb

Instance Method Summary collapse

Instance Method Details

#darwin_core_extension_json(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 46

def darwin_core_extension_json(inverted = false)

end

#darwin_core_extension_row(inverted: false) ⇒ Object

Don’t use dwc_ !! inverted means subject and object have already been switched, but relationship must use ‘inverted_name` instead of `name`.



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# File 'app/models/biological_association/dwc_extensions.rb', line 25

def darwin_core_extension_row(inverted: false)
  Export::CSV::Dwc::Extension::BiologicalAssociations::HEADERS.collect{|h| send(DWC_EXTENSION_MAP[h.to_sym], inverted)}
end

#dwc_related_resource(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 96

def dwc_related_resource(inverted = false)
  case biological_association_object.class.base_class.name
  when 'Otu'
    ApplicationController.helpers.label_for_otu(biological_association_object)
  when 'CollectionObject'
    ApplicationController.helpers.label_for_collection_object(biological_association_object)
  end
end

#dwc_related_resource_id(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 87

def dwc_related_resource_id(inverted = false)
  case biological_association_object.class.base_class.name
  when 'Otu'
    biological_association_object.uuid || biological_association_object.uri || biological_association_object.id
  when 'CollectionObject'
    biological_association_object.dwc_occurrence_id
  end
end

#dwc_relationship_according_to(inverted = false) ⇒ Object

TODO: Should reference DOIs, Identifiers, or identifiers in lieu of short citations



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# File 'app/models/biological_association/dwc_extensions.rb', line 106

def dwc_relationship_according_to(inverted = false)
  ApplicationController.helpers.short_sources_tag(sources)

  # Could be collectors (ORCID or ...)
  # Could be citation providers

  t = [biological_association_subject_type , biological_association_object_type]

  case t
  when %w{Otu Otu} # Published or nothing
    ApplicationController.helpers.short_sources_tag(sources)
  when %w{CollectionObject Otu} # Assume exists on label
    biological_association_subject.dwc_recorded_by || ApplicationController.helpers.short_sources_tag(sources)
  when %w{Otu CollectionObject} # Assume exists on label
    biological_association_object.dwc_recorded_by || ApplicationController.helpers.short_sources_tag(sources)
  when %w{CollectionObject CollectionObject}
    # Lots of assumptions behind this.  What if specimens were marked as collected in 2 different events, that would be odd
    # but perhaps not impossible
    biological_association_subject.dwc_recorded_by || biological_association_object.dwc_recorded_by
  else
    'BAD DATA: TYPE ERROR'
  end
end

#dwc_relationship_established_date(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 130

def dwc_relationship_established_date(inverted = false)
  t = [biological_association_subject_type , biological_association_object_type]

  case t
  when %w{Otu Otu}
    ApplicationController.helpers.short_sources_year_tag(sources)
  when %w{CollectionObject Otu}
    biological_association_subject.dwc_event_date || ApplicationController.helpers.short_sources_year_tag(sources)
  when %w{Otu CollectionObject}
    biological_association_object.dwc_event_date || ApplicationController.helpers.short_sources_year_tag(sources)
  when %w{CollectionObject CollectionObject}
    # Lots of assumptions behind this.  What if specimens were marked as collected in 2 different events, that would be odd
    # but perhaps not impossible
    biological_association_subject.dwc_event_date || biological_association_object.dwc_event_date
  else
    'BAD DATA: TYPE ERROR'
  end
end

#dwc_relationship_of_resource(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 79

def dwc_relationship_of_resource(inverted = false)
  if inverted
    biological_relationship.inverted_name
  else
    biological_relationship.name
  end
end

#dwc_relationship_of_resource_id(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 72

def dwc_relationship_of_resource_id(inverted = false)
  s = biological_relationship.uris.first&.cached || biological_relationship_id

  # TODO: this might mess up uri handling
  inverted ? "#{s} inverted" : s
end

#dwc_relationship_remarks(inverted = false) ⇒ Object

TODO: Generic helper



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# File 'app/models/biological_association/dwc_extensions.rb', line 150

def dwc_relationship_remarks(inverted = false)
  Utilities::Strings.sanitize_for_csv( notes.collect{|n| n.text}.join(' | ')).presence
end

#dwc_resource(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 63

def dwc_resource(inverted = false)
  case biological_association_subject.class.base_class.name
  when 'Otu'
    ApplicationController.helpers.label_for_otu(biological_association_subject)
  when 'CollectionObject'
    ApplicationController.helpers.label_for_collection_object(biological_association_subject)
  end
end

#dwc_resource_id(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 54

def dwc_resource_id(inverted = false)
  case biological_association_subject.class.base_class.name
  when 'Otu'
    biological_association_subject.uuid || biological_association_subject.uri || biological_association_subject.id
  when 'CollectionObject'
    biological_association_subject.dwc_occurrence_id
  end
end

#dwc_resource_relationship_coreid(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 40

def dwc_resource_relationship_coreid(inverted = false)
  # Note that this could be subject or object of the original association (see
  # note above on `inverted`), which is what we want.
  dwc_resource_id(inverted)
end

#dwc_resource_relationship_id(inverted = false) ⇒ Object 



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# File 'app/models/biological_association/dwc_extensions.rb', line 50

def dwc_resource_relationship_id(inverted = false)
  uuid || id
end

#globi_extension_json ⇒ Object

Don’t use dwc_



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# File 'app/models/biological_association/dwc_extensions.rb', line 30

def globi_extension_json
  r = {}
   Export::CSV::Dwc::Extension::BiologicalAssociations::HEADERS.each do |h|
    if m = DWC_EXTENSION_MAP[h.to_sym]
      r[h] = send(m, false)
    end
  end
  r
end