Module: Bolognese::Readers::DataciteReader
- Included in:
- Metadata
- Defined in:
- lib/bolognese/readers/datacite_reader.rb
Instance Method Summary collapse
- #datacite_date(dates, date_type) ⇒ Object
- #datacite_funder_contributor(meta) ⇒ Object
- #datacite_funding_reference(meta) ⇒ Object
- #datacite_has_part(meta) ⇒ Object
- #datacite_is_identical_to(meta) ⇒ Object
- #datacite_is_new_version_of(meta) ⇒ Object
- #datacite_is_original_form_of(meta) ⇒ Object
- #datacite_is_part_of(meta) ⇒ Object
- #datacite_is_previous_version_of(meta) ⇒ Object
- #datacite_is_referenced_by(meta) ⇒ Object
- #datacite_is_reviewed_by(meta) ⇒ Object
- #datacite_is_supplement_to(meta) ⇒ Object
- #datacite_is_supplemented_by(meta) ⇒ Object
- #datacite_is_variant_form_of(meta) ⇒ Object
- #datacite_references(meta) ⇒ Object
- #datacite_related_identifier(meta, relation_type: nil) ⇒ Object
- #datacite_reviews(meta) ⇒ Object
- #get_datacite(id: nil, **options) ⇒ Object
- #read_datacite(string: nil, **options) ⇒ Object
Instance Method Details
#datacite_date(dates, date_type) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 140 def datacite_date(dates, date_type) dd = dates.find { |d| d["dateType"] == date_type } || {} dd.fetch("__content__", nil) end |
#datacite_funder_contributor(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 163 def datacite_funder_contributor() Array.wrap(.dig("contributors", "contributor")).reduce([]) do |sum, f| if f["contributorType"] == "Funder" # handle special case of OpenAIRE metadata id = f.dig("nameIdentifier", "__content__").to_s.start_with?("info:eu-repo/grantAgreement/EC") ? "https://doi.org/10.13039/501100000780" : nil funder = { "type" => "Organization", "id" => id, "name" => f["contributorName"] }.compact if f.dig("nameIdentifier", "nameIdentifierScheme") == "info" sum << { "type" => "Award", "identifier" => f.dig("nameIdentifier", "__content__").split("/").last, "funder" => funder } else sum << funder end else sum end end end |
#datacite_funding_reference(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 145 def datacite_funding_reference() Array.wrap(.dig("fundingReferences", "fundingReference")).map do |f| funder_id = parse_attributes(f["funderIdentifier"]) funder = { "type" => "Organization", "id" => normalize_id(funder_id), "name" => f["funderName"] }.compact if f["awardNumber"].present? || f["awardTitle"].present? { "type" => "Award", "name" => f.fetch("awardTitle", nil), "identifier" => f["awardNumber"].is_a?(Hash) ? f.dig("awardNumber", "__content__") : f["awardNumber"], "url" => f["awardNumber"].is_a?(Hash) ? f.dig("awardNumber", "awardURI") : nil, "funder" => funder }.compact else funder end end.uniq end |
#datacite_has_part(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 200 def datacite_has_part() (, relation_type: "HasPart") end |
#datacite_is_identical_to(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 192 def datacite_is_identical_to() (, relation_type: "IsIdenticalTo") end |
#datacite_is_new_version_of(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 208 def datacite_is_new_version_of() (, relation_type: "IsNewVersionOf") end |
#datacite_is_original_form_of(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 216 def datacite_is_original_form_of() (, relation_type: "IsOriginalFormOf") end |
#datacite_is_part_of(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 196 def datacite_is_part_of() (, relation_type: "IsPartOf") end |
#datacite_is_previous_version_of(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 204 def datacite_is_previous_version_of() (, relation_type: "IsPreviousVersionOf") end |
#datacite_is_referenced_by(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 224 def datacite_is_referenced_by() (, relation_type: "IsCitedBy IsReferencedBy").presence end |
#datacite_is_reviewed_by(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 240 def datacite_is_reviewed_by() (, relation_type: "IsReviewedBy").presence end |
#datacite_is_supplement_to(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 228 def datacite_is_supplement_to() (, relation_type: "IsSupplementTo") end |
#datacite_is_supplemented_by(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 232 def datacite_is_supplemented_by() (, relation_type: "isSupplementedBy") end |
#datacite_is_variant_form_of(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 212 def datacite_is_variant_form_of() (, relation_type: "IsVariantFormOf") end |
#datacite_references(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 220 def datacite_references() (, relation_type: "References Cites").presence end |
#datacite_related_identifier(meta, relation_type: nil) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 185 def (, relation_type: nil) arr = Array.wrap(.dig("relatedIdentifiers", "relatedIdentifier")).select { |r| %w(DOI URL).include?(r["relatedIdentifierType"]) } arr = arr.select { |r| relation_type.split(" ").include?(r["relationType"]) } if relation_type.present? arr.map { |work| { "type" => "CreativeWork", "id" => normalize_id(work["__content__"]) } }.unwrap end |
#datacite_reviews(meta) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 236 def datacite_reviews() (, relation_type: "Reviews").presence end |
#get_datacite(id: nil, **options) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 4 def get_datacite(id: nil, **) return nil unless id.present? doi = doi_from_url(id) search_url = doi_search(id, ) search_url += "/dois/#{doi}?include=client,provider" response = Maremma.get search_url attributes = response.body.dig("data", "attributes") return nil unless attributes.present? client_id = response.body.dig("data", "relationships", "client", "data", "id").upcase provider_id = response.body.dig("data", "relationships", "provider", "data", "id").upcase string = attributes.fetch('xml', "PGhzaD48L2hzaD4=\n") string = Base64.decode64(string) if string.present? doc = Nokogiri::XML(string, nil, 'UTF-8', &:noblanks) # remove leading and trailing whitespace in text nodes doc.xpath("//text()").each do |node| if node.content =~ /\S/ node.content = node.content.strip else node.remove end end string = doc.to_s end { "string" => string, "url" => attributes.fetch("url", nil), "state" => attributes.fetch("state", nil), "date_registered" => attributes.fetch("registered", nil), "date_updated" => attributes.fetch("updated", nil), "provider_id" => provider_id, "client_id" => client_id } end |
#read_datacite(string: nil, **options) ⇒ Object
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# File 'lib/bolognese/readers/datacite_reader.rb', line 44 def read_datacite(string: nil, **) return { "errors" => "no content" } unless string.present? = Maremma.from_xml(string).fetch("resource", {}) schema_version = .fetch("xmlns", nil) # validate only when option is set, as this step is expensive and # not needed if XML comes from DataCite MDS if [:validate] errors = datacite_errors(xml: string, schema_version: schema_version) return { "errors" => errors } if errors.present? end if [:doi] id = normalize_doi([:doi], sandbox: [:sandbox]) else id = normalize_doi(.dig("identifier", "__content__"), sandbox: [:sandbox]) end doi = doi_from_url(id) resource_type_general = .dig("resourceType", "resourceTypeGeneral") type = Bolognese::Utils::DC_TO_SO_TRANSLATIONS[resource_type_general.to_s.dasherize] || "CreativeWork" title = Array.wrap(.dig("titles", "title")).map do |r| if r.is_a?(String) sanitize(r) else { "title_type" => r["titleType"], "lang" => r["xml:lang"], "text" => sanitize(r["__content__"]) }.compact end end.unwrap alternate_name = Array.wrap(.dig("alternateIdentifiers", "alternateIdentifier")).map do |r| { "type" => r["alternateIdentifierType"], "name" => r["__content__"] }.compact end.unwrap description = Array.wrap(.dig("descriptions", "description")).map do |r| { "type" => r["descriptionType"], "text" => sanitize(r["__content__"]) }.compact end.unwrap license = Array.wrap(.dig("rightsList", "rights")).map do |r| { "id" => normalize_url(r["rightsURI"]), "name" => r["__content__"] }.compact end.unwrap keywords = Array.wrap(.dig("subjects", "subject")).map do |k| if k.nil? nil elsif k.is_a?(String) sanitize(k) else { "subject_scheme" => k["subjectScheme"], "scheme_uri" => k["schemeURI"], "text" => sanitize(k["__content__"]) }.compact end end.compact dates = Array.wrap(.dig("dates", "date")) funding = begin f = datacite_funder_contributor() + datacite_funding_reference() f.length > 1 ? f : f.first end { "id" => id, "type" => type, "additional_type" => .fetch("resourceType", {}).fetch("__content__", nil) || .fetch("resourceType", {}).fetch("resourceTypeGeneral", nil), "citeproc_type" => Bolognese::Utils::DC_TO_CP_TRANSLATIONS[resource_type_general.to_s.dasherize] || "article", "bibtex_type" => Bolognese::Utils::SO_TO_BIB_TRANSLATIONS[type] || "misc", "ris_type" => Bolognese::Utils::DC_TO_RIS_TRANSLATIONS[resource_type_general.to_s.dasherize] || "GEN", "resource_type_general" => resource_type_general, "doi" => doi, "url" => .fetch(:url, nil), "title" => title, "alternate_name" => alternate_name, "author" => (.dig("creators", "creator")), "editor" => (Array.wrap(.dig("contributors", "contributor")).select { |r| r["contributorType"] == "Editor" }), "publisher" => .fetch("publisher", nil), "provider" => "DataCite", "funding" => funding, "is_identical_to" => datacite_is_identical_to(), "is_part_of" => datacite_is_part_of(), "has_part" => datacite_has_part(), "references" => datacite_references(), "is_referenced_by" => datacite_is_referenced_by(), "is_supplement_to" => datacite_is_supplement_to(), "is_supplemented_by" => datacite_is_supplemented_by(), "date_created" => datacite_date(dates, "Created"), "date_accepted" => datacite_date(dates, "Accepted"), "date_available" => datacite_date(dates, "Available"), "date_copyrighted" => datacite_date(dates, "Copyrightes"), "date_collected" => datacite_date(dates, "Collected"), "date_submitted" => datacite_date(dates, "Submitted"), "date_valid" => datacite_date(dates, "Valid"), "date_published" => datacite_date(dates, "Issued") || .fetch("publicationYear", nil), "date_modified" => datacite_date(dates, "Updated"), "description" => description, "license" => license, "version" => .fetch("version", nil), "keywords" => keywords, "language" => .fetch("language", nil), "content_size" => .fetch("size", nil), "schema_version" => schema_version } end |