Module: Bolognese::DataciteUtils

Included in:
MetadataUtils
Defined in:
lib/bolognese/datacite_utils.rb

Instance Method Summary collapse

Instance Method Details

#datacite_errors(xml: nil, schema_version: nil) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 13

def datacite_errors(xml: nil, schema_version: nil)
  if xml.present?
    namespaces = Nokogiri::XML(xml, nil, 'UTF-8').root.namespaces
    schema_version = namespaces.fetch('xmlns',nil).presence || namespaces.fetch('xmlns:ns0',nil).presence
  else
    schema_version = schema_version.to_s.start_with?("http://datacite.org/schema/kernel") ? schema_version : "http://datacite.org/schema/kernel-4"
  end

  kernel = schema_version.to_s.split("/").last
  filepath = File.expand_path("../../../resources/#{kernel}/metadata.xsd", __FILE__)
  schema = Nokogiri::XML::Schema(open(filepath))

  schema.validate(Nokogiri::XML(xml, nil, 'UTF-8')).map { |error| error.to_s }.unwrap
rescue Nokogiri::XML::SyntaxError => e
  e.message
end

#datacite_xml ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 5

def datacite_xml
  @datacite_xml ||= Nokogiri::XML::Builder.new(:encoding => 'UTF-8') do |xml|
    xml.resource(root_attributes) do
      insert_work(xml)
    end
  end.to_xml
end

#insert_alternate_identifiers(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 135

def insert_alternate_identifiers(xml)
  alternate_identifiers = Array.wrap(identifiers).select { |r| r["identifierType"] != "DOI" }
  return xml unless alternate_identifiers.present?

  xml.alternateIdentifiers do
    Array.wrap(alternate_identifiers).each do |alternate_identifier|
      xml.alternateIdentifier(alternate_identifier["identifier"], 'alternateIdentifierType' => alternate_identifier["identifierType"])
    end
  end
end

#insert_contributors(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 67

def insert_contributors(xml)
  return xml unless contributors.present?

  xml.contributors do
    Array.wrap(contributors).each do |con|
      xml.contributor("contributorType" => con["contributorType"] || "Other") do
        insert_person(xml, con, "contributor")
      end
    end
  end
end

#insert_creators(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 57

def insert_creators(xml)
  xml.creators do
    Array.wrap(creators).each do |au|
      xml.creator do
        insert_person(xml, au, "creator")
      end
    end
  end
end

#insert_dates(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 146

def insert_dates(xml)
  return xml unless Array.wrap(dates).present?

  xml.dates do
    Array.wrap(dates).each do |date|
      attributes = { 'dateType' => date["dateType"] || "Issued", 'dateInformation' => date["dateInformation"] }.compact
      xml.date(date["date"], attributes)
    end
  end
end

#insert_descriptions(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 336

def insert_descriptions(xml)
  return xml unless descriptions.present? || container && container["title"].present?

  xml.descriptions do
    if container && container["title"].present?
      issue = container["issue"].present? ? "(#{container["issue"]})" : nil
      volume_issue = container["volume"].present? ? [container["volume"], issue].join("") : nil
      pages = [container["firstPage"], container["lastPage"]].compact.join("-") if container["firstPage"].present?
      series_information = [container["title"], volume_issue, pages].compact.join(", ")
      xml.description(series_information, 'descriptionType' => "SeriesInformation")
    end

    Array.wrap(descriptions).each do |description|
      if description.is_a?(Hash)
        d = description
      else
        d = {}
        d["description"] = description
        d["descriptionType"] = "Abstract"
      end

      attributes = { 'xml:lang' => d["lang"], 'descriptionType' => d["descriptionType"] || "Abstract" }.compact

      xml.description(d["description"], attributes)
    end
  end
end

#insert_formats(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 302

def insert_formats(xml)
  xml.formats do
    Array.wrap(formats).each do |f|
      xml.format(f)
    end
  end
end

#insert_funding_references(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 157

def insert_funding_references(xml)
  return xml unless Array.wrap(funding_references).present?

  xml.fundingReferences do
    Array.wrap(funding_references).each do |funding_reference|
      xml.fundingReference do
        xml.funderName(funding_reference["funderName"])
        xml.funderIdentifier(funding_reference["funderIdentifier"], { "funderIdentifierType" => funding_reference["funderIdentifierType"] }.compact) if funding_reference["funderIdentifier"].present?
        xml.awardNumber(funding_reference["awardNumber"], { "awardURI" => funding_reference["awardUri"] }.compact) if funding_reference["awardNumber"].present? || funding_reference["awardUri"].present?
        xml.awardTitle(funding_reference["awardTitle"]) if funding_reference["awardTitle"].present?
      end
    end
  end
end

#insert_geo_locations(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 364

def insert_geo_locations(xml)
  return xml unless geo_locations.present?

  xml.geoLocations do
    geo_locations.each do |geo_location|
      xml.geoLocation do
        xml.geoLocationPlace(geo_location["geoLocationPlace"]) if geo_location["geoLocationPlace"]

        if geo_location["geoLocationPoint"]
          xml.geoLocationPoint do
            xml.pointLatitude(geo_location.dig("geoLocationPoint", "pointLatitude"))
            xml.pointLongitude(geo_location.dig("geoLocationPoint", "pointLongitude"))
          end
        end

        if geo_location["geoLocationBox"]
          xml.geoLocationBox do
            xml.westBoundLongitude(geo_location.dig("geoLocationBox", "westBoundLongitude"))
            xml.eastBoundLongitude(geo_location.dig("geoLocationBox", "eastBoundLongitude"))
            xml.southBoundLatitude(geo_location.dig("geoLocationBox", "southBoundLatitude"))
            xml.northBoundLatitude(geo_location.dig("geoLocationBox", "northBoundLatitude"))
          end
        end
        if geo_location["geoLocationPolygon"]
          xml.geoLocationPolygon do
            Array.wrap(geo_location["geoLocationPolygon"]).each do |polygon_point|
              xml.polygonPoint do
                xml.pointLatitude(polygon_point.dig("polygonPoint", "pointLatitude"))
                xml.pointLongitude(polygon_point.dig("polygonPoint", "pointLongitude"))
              end
            end
          end
        end
      end
    end
  end
end

#insert_identifier(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 53

def insert_identifier(xml)
  xml.identifier(doi, 'identifierType' => "DOI")
end

#insert_language(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 198

def insert_language(xml)
  return xml unless language.present?

  xml.language(language)
end

#insert_person(xml, person, type) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 79

def insert_person(xml, person, type)
  person_name = person["familyName"].present? ? [person["familyName"], person["givenName"]].compact.join(", ") : person["name"]
  attributes = { "nameType" => person["nameType"] }.compact
  xml.send(type + "Name", person_name, attributes)
  xml.givenName(person["givenName"]) if person["givenName"].present?
  xml.familyName(person["familyName"]) if person["familyName"].present?
  Array.wrap(person["nameIdentifiers"]).each do |ni|
    xml.nameIdentifier(ni["nameIdentifier"], 'nameIdentifierScheme' => ni["nameIdentifierScheme"], 'schemeURI' => ni["schemeUri"])
  end
  Array.wrap(person["affiliation"]).each do |affiliation|
    attributes = { "affiliationIdentifier" => affiliation["affiliationIdentifier"], "affiliationIdentifierScheme" => affiliation["affiliationIdentifierScheme"], "schemeURI" => affiliation["schemeUri"] }.compact
    xml.affiliation(affiliation["name"], attributes)
  end
end

#insert_publication_year(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 124

def insert_publication_year(xml)
  xml.publicationYear(publication_year)
end

#insert_publisher(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 110

def insert_publisher(xml)
  if publisher.is_a?(Hash)
    attributes = {
      'publisherIdentifier' => publisher["publisherIdentifier"],
      'publisherIdentifierScheme' => publisher["publisherIdentifierScheme"],
      'schemeURI' => publisher["schemeUri"],
      "xml:lang" => publisher["lang"]
    }.compact
    xml.publisher(publisher["name"] || container && container["title"], attributes)
  else
    xml.publisher(publisher || container && container["title"])
  end
end

#insert_related_identifiers(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 204

def insert_related_identifiers(xml)
  return xml unless related_identifiers.present?

  xml.relatedIdentifiers do
    related_identifiers.each do |related_identifier|
      attributes = {
        'relatedIdentifierType' => related_identifier["relatedIdentifierType"],
        'relationType' => related_identifier["relationType"],
        'resourceTypeGeneral' => related_identifier["resourceTypeGeneral"] }.compact

      attributes.merge({ 'relatedMetadataScheme' => related_identifier["relatedMetadataSchema"],
        'schemeURI' => related_identifier["schemeUri"],
        'schemeType' => related_identifier["schemeType"]}.compact) if %w(HasMetadata IsMetadataFor).include?(related_identifier["relationType"])

      xml.relatedIdentifier(related_identifier["relatedIdentifier"], attributes)
    end
  end
end

#insert_related_items(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 223

def insert_related_items(xml)
  return xml unless related_items.present?

  xml.relatedItems do
    related_items.each do |related_item|
      attributes = {
        'relatedItemType' => related_item["relatedItemType"],
        'relationType' => related_item["relationType"],
      }.compact

      xml.relatedItem(related_item["relatedItem"], attributes) do

        if related_item["relatedItemIdentifier"].present?
          xml.relatedItemIdentifier(related_item["relatedItemIdentifier"]['relatedItemIdentifier'],
            {
              'relatedItemIdentifierType' => related_item["relatedItemIdentifier"]["relatedItemIdentifierType"],
              'relatedMetadataScheme' => related_item["relatedItemIdentifier"]["relatedMetadataScheme"],
              'schemeURI' => related_item["relatedItemIdentifier"]["schemeURI"],
              'schemeType' => related_item["relatedItemIdentifier"]["schemeType"],
            }.compact
          )
        end

        if related_item["creators"].present?
          xml.creators do
            Array.wrap(related_item['creators']).each do |au|
              xml.creator do
                insert_person(xml, au, "creator")
              end
            end
          end
        end

        xml.titles do
          Array.wrap(related_item['titles']).each do |title|
            if title.is_a?(Hash)
              t = title
            else
              t = {}
              t["title"] = title
            end

            attributes = { 'titleType' => t["titleType"], 'xml:lang' => t["lang"] }.compact
            xml.title(t["title"], attributes)
          end
        end

        xml.publicationYear(related_item['publicationYear']) if related_item["publicationYear"].present?
        xml.volume(related_item['volume']) if related_item["volume"].present?
        xml.issue(related_item['issue']) if related_item["issue"].present?
        xml.number(related_item['number'], {'numberType' => related_item['numberType']}.compact) if related_item["number"].present?
        xml.firstPage(related_item['firstPage']) if related_item["firstPage"].present?
        xml.lastPage(related_item['lastPage']) if related_item["lastPage"].present?
        xml.publisher(related_item['publisher']) if related_item["publisher"].present?
        xml.edition(related_item['edition']) if related_item["edition"].present?

        if related_item["contributors"].present?
          xml.contributors do
            Array.wrap(related_item["contributors"]).each do |con|
              xml.contributor("contributorType" => con["contributorType"] || "Other") do
                insert_person(xml, con, "contributor")
              end
            end
          end
        end

      end
    end
  end
end

#insert_resource_type(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 128

def insert_resource_type(xml)
  return xml unless types.is_a?(Hash) && (types["schemaOrg"].present? || types["resourceTypeGeneral"])

  xml.resourceType(types["resourceType"] || types["schemaOrg"],
    'resourceTypeGeneral' => types["resourceTypeGeneral"] || Metadata::SO_TO_DC_TRANSLATIONS[types["schemaOrg"]] || "Other")
end

#insert_rights_list(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 310

def insert_rights_list(xml)
  return xml unless rights_list.present?

  xml.rightsList do
    Array.wrap(rights_list).each do |rights|
      if rights.is_a?(Hash)
        r = rights
      else
        r = {}
        r["rights"] = rights
        r["rightsUri"] = normalize_id(rights)
      end

      attributes = {
        "rightsURI" => r["rightsUri"],
        "rightsIdentifier" => r["rightsIdentifier"],
        "rightsIdentifierScheme" => r["rightsIdentifierScheme"],
        "schemeURI" => r["schemeUri"],
        "xml:lang" => r["lang"]
      }.compact

      xml.rights(r["rights"], attributes)
    end
  end
end

#insert_sizes(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 294

def insert_sizes(xml)
  xml.sizes do
    Array.wrap(sizes).each do |s|
      xml.size(s)
    end
  end
end

#insert_subjects(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 172

def insert_subjects(xml)
  return xml unless subjects.present?

  xml.subjects do
    subjects.each do |subject|
      if subject.is_a?(Hash)
        s = subject
      else
        s = {}
        s["subject"] = subject
      end

      attributes = { "subjectScheme" => s["subjectScheme"], "schemeURI" => s["schemeUri"], "valueURI" => s["valueUri"], "classificationCode" => s["classificationCode"], "xml:lang" => s["lang"] }.compact

      xml.subject(s["subject"], attributes)
    end
  end
end

#insert_titles(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 94

def insert_titles(xml)
  xml.titles do
    Array.wrap(titles).each do |title|
      if title.is_a?(Hash)
        t = title
      else
        t = {}
        t["title"] = title
      end

      attributes = { 'titleType' => t["titleType"], 'xml:lang' => t["lang"] }.compact
      xml.title(t["title"], attributes)
    end
  end
end

#insert_version(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 191

def insert_version(xml)
  return xml unless version_info.present?

  xml.version(version_info)
end

#insert_work(xml) ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 30

def insert_work(xml)
  insert_identifier(xml)
  insert_creators(xml)
  insert_titles(xml)
  insert_publisher(xml)
  insert_publication_year(xml)
  insert_resource_type(xml)
  insert_subjects(xml)
  insert_contributors(xml)
  insert_dates(xml)
  insert_language(xml)
  insert_alternate_identifiers(xml)
  insert_related_identifiers(xml)
  insert_related_items(xml)
  insert_sizes(xml)
  insert_formats(xml)
  insert_version(xml)
  insert_rights_list(xml)
  insert_descriptions(xml)
  insert_geo_locations(xml)
  insert_funding_references(xml)
end

#root_attributes ⇒ Object 



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# File 'lib/bolognese/datacite_utils.rb', line 402

def root_attributes
  { :'xmlns:xsi' => 'http://www.w3.org/2001/XMLSchema-instance',
    :'xsi:schemaLocation' => 'http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4/metadata.xsd',
    :'xmlns' => 'http://datacite.org/schema/kernel-4' }
end