# frozen_string_literal: true module Bolognese module Readers module CrossrefReader # CrossRef types from https://api.crossref.org/types def get_crossref(id: nil, **options) return { "string" => nil, "state" => "not_found" } unless id.present? doi = doi_from_url(id) url = "https://api.crossref.org/works/#{doi}/transform/application/vnd.crossref.unixsd+xml" response = Maremma.get(url, accept: "text/xml", raw: true) string = response.body.fetch("data", nil) string = Nokogiri::XML(string, nil, 'UTF-8', &:noblanks).to_s if string.present? { "string" => string } end def read_crossref(string: nil, **options) read_options = ActiveSupport::HashWithIndifferentAccess.new(options.except(:doi, :id, :url, :sandbox, :validate, :ra)) if string.present? m = Maremma.from_xml(string).dig("crossref_result", "query_result", "body", "query", "doi_record") || {} meta = m.dig("doi_record", "crossref", "error").nil? ? m : {} # query contains information from outside metadata schema, e.g. publisher name query = Maremma.from_xml(string).dig("crossref_result", "query_result", "body", "query") || {} else meta = {} query = {} end # model should be one of book, conference, database, dissertation, journal, peer_review, posted_content, # report_paper, sa_component, standard model = meta.dig("crossref").to_h.keys.last resource_type = nil bibliographic_metadata = {} program_metadata = {} journal_metadata = nil journal_issue = {} journal_metadata = nil publisher = query.dig("crm_item", 0) publisher = nil unless publisher.is_a?(String) case model when "book" book_metadata = meta.dig("crossref", "book", "book_metadata") book_series_metadata = meta.dig("crossref", "book", "book_series_metadata") book_set_metadata = meta.dig("crossref", "book", "book_set_metadata") bibliographic_metadata = meta.dig("crossref", "book", "content_item") || book_metadata || book_series_metadata || book_set_metadata resource_type = bibliographic_metadata.fetch("component_type", nil) ? "book-" + bibliographic_metadata.fetch("component_type") : "book" # publisher = if book_metadata.present? # book_metadata.dig("publisher", "publisher_name") # elsif book_series_metadata.present? # book_series_metadata.dig("publisher", "publisher_name") # end when "conference" event_metadata = meta.dig("crossref", "conference", "event_metadata") || {} bibliographic_metadata = meta.dig("crossref", "conference", "conference_paper").to_h when "journal" journal_metadata = meta.dig("crossref", "journal", "journal_metadata") || {} journal_issue = meta.dig("crossref", "journal", "journal_issue") || {} journal_article = meta.dig("crossref", "journal", "journal_article") || {} bibliographic_metadata = journal_article.presence || journal_issue.presence || journal_metadata program_metadata = bibliographic_metadata.dig("crossmark", "custom_metadata", "program") || bibliographic_metadata.dig("program") resource_type = if journal_article.present? "journal_article" elsif journal_issue.present? "journal_issue" else "journal" end when "posted_content" bibliographic_metadata = meta.dig("crossref", "posted_content").to_h publisher ||= bibliographic_metadata.dig("institution", "institution_name") when "sa_component" bibliographic_metadata = meta.dig("crossref", "sa_component", "component_list", "component").to_h related_identifier = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "relation" } journal_metadata = { "relatedIdentifier" => related_identifier.to_h.fetch("__content", nil) } when "database" bibliographic_metadata = meta.dig("crossref", "database", "dataset").to_h resource_type = "dataset" when "report_paper" bibliographic_metadata = meta.dig("crossref", "report_paper", "report_paper_metadata").to_h resource_type = "report" when "peer_review" bibliographic_metadata = meta.dig("crossref", "peer_review") when "dissertation" bibliographic_metadata = meta.dig("crossref", "dissertation") end resource_type = (resource_type || model).to_s.underscore.camelcase.presence schema_org = Bolognese::Utils::CR_TO_SO_TRANSLATIONS[resource_type] || "ScholarlyArticle" types = { "resourceTypeGeneral" => Bolognese::Utils::CR_TO_DC_TRANSLATIONS[resource_type], "resourceType" => resource_type, "schemaOrg" => schema_org, "citeproc" => Bolognese::Utils::CR_TO_CP_TRANSLATIONS[resource_type] || "article-journal", "bibtex" => Bolognese::Utils::CR_TO_BIB_TRANSLATIONS[resource_type] || "misc", "ris" => Bolognese::Utils::CR_TO_RIS_TRANSLATIONS[resource_type] || "JOUR" }.compact titles = if bibliographic_metadata.dig("titles").present? Array.wrap(bibliographic_metadata.dig("titles")).map do |r| if r.blank? || (r["title"].blank? && r["original_language_title"].blank?) nil elsif r["title"].is_a?(String) { "title" => sanitize(r["title"]) } elsif r["original_language_title"].present? { "title" => sanitize(r.dig("original_language_title", "__content__")), "lang" => r.dig("original_language_title", "language") } else { "title" => sanitize(r.dig("title", "__content__")) }.compact end end.compact else [{ "title" => ":(unav)" }] end date_published = crossref_date_published(bibliographic_metadata) if date_published.present? date_published = { "date" => date_published, "dateType" => "Issued" } else date_published = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "created" } date_published = { "date" => date_published.fetch("__content__", "")[0..9], "dateType" => "Issued" } if date_published.present? end date_updated = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "last-update" } date_updated = { "date" => date_updated.fetch("__content__", nil), "dateType" => "Updated" } if date_updated.present? date_registered = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "deposit-timestamp" } date_registered = get_datetime_from_time(date_registered.fetch("__content__", nil)) if date_registered.present? # check that date is valid iso8601 date date_published = nil unless Date.edtf(date_published.to_h["date"]).present? date_updated = nil unless Date.edtf(date_updated.to_h["date"]).present? dates = [date_published, date_updated].compact publication_year = date_published.to_h.fetch("date", "")[0..3].presence state = meta.present? || read_options.present? ? "findable" : "not_found" related_identifiers = Array.wrap(crossref_is_part_of(journal_metadata)) + Array.wrap(crossref_references(bibliographic_metadata)) container = if journal_metadata.present? || book_metadata.present? issn = normalize_issn(journal_metadata.to_h.fetch("issn", nil)) { "type" => "Journal", "identifier" => issn, "identifierType" => issn.present? ? "ISSN" : nil, "title" => parse_attributes(journal_metadata.to_h["full_title"]), "volume" => parse_attributes(journal_issue.dig("journal_volume", "volume")), "issue" => parse_attributes(journal_issue.dig("issue")), "firstPage" => bibliographic_metadata.dig("pages", "first_page") || parse_attributes(journal_article.to_h.dig("publisher_item", "item_number"), first: true), "lastPage" => bibliographic_metadata.dig("pages", "last_page") }.compact elsif book_series_metadata.to_h.fetch("series_metadata", nil).present? issn = normalize_issn(book_series_metadata.dig("series_metadata", "issn")) { "type" => "Book Series", "identifier" => issn, "identifierType" => issn.present? ? "ISSN" : nil, "title" => book_series_metadata.dig("series_metadata", "titles", "title"), "volume" => bibliographic_metadata.fetch("volume", nil) }.compact end id = normalize_doi(options[:doi] || options[:id] || bibliographic_metadata.dig("doi_data", "doi")) identifiers = crossref_alternate_identifiers(bibliographic_metadata) { "id" => id, "types" => types, "doi" => doi_from_url(id), "url" => parse_attributes(bibliographic_metadata.dig("doi_data", "resource"), first: true), "titles" => titles, "identifiers" => identifiers, "creators" => crossref_people(bibliographic_metadata, "author"), "contributors" => crossref_people(bibliographic_metadata, "editor"), "funding_references" => crossref_funding_reference(program_metadata), "publisher" => publisher, "container" => container, "agency" => agency = options[:ra] || "crossref", "related_identifiers" => related_identifiers, "dates" => dates, "publication_year" => publication_year, "descriptions" => crossref_description(bibliographic_metadata), "rights_list" => crossref_license(program_metadata), "version_info" => nil, "subjects" => nil, "language" => nil, "sizes" => nil, "schema_version" => nil, "state" => state, "date_registered" => date_registered }.merge(read_options) end def crossref_alternate_identifiers(bibliographic_metadata) if bibliographic_metadata.dig("publisher_item", "item_number").present? Array.wrap(bibliographic_metadata.dig("publisher_item", "item_number")).map do |item| if item.is_a?(String) { "identifier" => item, "identifierType" => "Publisher ID" } else { "identifier" => item.fetch("__content__", nil), "identifierType" => item.fetch("item_number_type", nil) || "Publisher ID" } end end elsif parse_attributes(bibliographic_metadata.fetch("item_number", nil)).present? [{ "identifier" => parse_attributes(bibliographic_metadata.fetch("item_number", nil)), "identifierType" => "Publisher ID" }] elsif parse_attributes(bibliographic_metadata.fetch("isbn", nil)).present? [{ "identifier" => parse_attributes(bibliographic_metadata.fetch("isbn", nil), first: true), "identifierType" => "ISBN" }] else [] end end def crossref_description(bibliographic_metadata) abstract = Array.wrap(bibliographic_metadata.dig("abstract")).map do |r| { "descriptionType" => "Abstract", "description" => sanitize(parse_attributes(r, content: 'p')) }.compact end description = Array.wrap(bibliographic_metadata.dig("description")).map do |r| { "descriptionType" => "Other", "description" => sanitize(parse_attributes(r)) }.compact end (abstract + description) end def crossref_license(program_metadata) access_indicator = Array.wrap(program_metadata).find { |m| m["name"] == "AccessIndicators" } if access_indicator.present? Array.wrap(access_indicator["license_ref"]).map do |license| hsh_to_spdx("rightsURI" => parse_attributes(license)) end.uniq else [] end end def crossref_people(bibliographic_metadata, contributor_role) person = bibliographic_metadata.dig("contributors", "person_name") || bibliographic_metadata.dig("person_name") organization = Array.wrap(bibliographic_metadata.dig("contributors", "organization")) person = [{ "name" => ":(unav)", "contributor_role"=>"author" }] if contributor_role == "author" && Array.wrap(person).select { |a| a["contributor_role"] == "author" }.blank? && Array.wrap(organization).select { |a| a["contributor_role"] == "author" }.blank? (Array.wrap(person) + Array.wrap(organization)).select { |a| a["contributor_role"] == contributor_role }.map do |a| name_identifiers = normalize_orcid(parse_attributes(a["ORCID"])).present? ? [{ "nameIdentifier" => normalize_orcid(parse_attributes(a["ORCID"])), "nameIdentifierScheme" => "ORCID", "schemeUri"=>"https://orcid.org" }] : nil if a["surname"].present? || a["given_name"].present? || name_identifiers.present? given_name = parse_attributes(a["given_name"]) family_name = parse_attributes(a["surname"]) affiliation = Array.wrap(a["affiliation"]).map do |a| if a.is_a?(Hash) && a.key?("__content__") && a["__content__"].strip.blank? nil elsif a.is_a?(Hash) && a.key?("__content__") { "name" => a["__content__"] } elsif a.is_a?(Hash) a elsif a.strip.blank? nil elsif a.is_a?(String) { "name" => a } end end.compact { "nameType" => "Personal", "nameIdentifiers" => name_identifiers, "name" => [family_name, given_name].compact.join(", "), "givenName" => given_name, "familyName" => family_name, "affiliation" => affiliation.presence, "contributorType" => contributor_role == "editor" ? "Editor" : nil }.compact else { "nameType" => "Organizational", "name" => a["name"] || a["__content__"] } end end end def crossref_funding_reference(program_metadata) fundref = Array.wrap(program_metadata).find { |a| a["name"] == "fundref" } || {} Array.wrap(fundref.fetch("assertion", [])).select { |a| a["name"] == "fundgroup" && a["assertion"].present? }.map do |f| funder_identifier = nil funder_identifier_type = nil funder_name = nil award_title = nil award_number = nil award_uri = nil Array.wrap(f.fetch("assertion")).each do |a| if a.fetch("name") == "award_number" award_number = a.fetch("__content__", nil) award_uri = a.fetch("awardURI", nil) elsif a.fetch("name") == "funder_name" funder_name = a.fetch("__content__", nil).to_s.squish.presence funder_identifier = validate_funder_doi(a.dig("assertion", "__content__")) funder_identifier_type = "Crossref Funder ID" if funder_identifier.present? end end # funder_name is required in DataCite if funder_name.present? { "funderIdentifier" => funder_identifier, "funderIdentifierType" => funder_identifier_type, "funderName" => funder_name, "awardTitle" => award_title, "awardNumber" => award_number, "awardUri" => award_uri }.compact else nil end end.compact end def crossref_date_published(bibliographic_metadata) pub_date = Array.wrap(bibliographic_metadata.fetch("publication_date", nil)).presence || Array.wrap(bibliographic_metadata.fetch("acceptance_date", nil)) if pub_date.present? get_date_from_parts(pub_date.first["year"], pub_date.first["month"], pub_date.first["day"]) else nil end end def crossref_is_part_of(model_metadata) if model_metadata.present? && model_metadata.fetch("issn", nil).present? { "relatedIdentifier" => normalize_issn(model_metadata.fetch("issn", nil)), "relationType" => "IsPartOf", "relatedIdentifierType" => "ISSN", "resourceTypeGeneral" => "Collection" }.compact elsif model_metadata.present? && model_metadata.fetch("relatedIdentifier", nil).present? { "relatedIdentifier" => model_metadata.fetch("relatedIdentifier", nil), "relationType" => "IsPartOf", "relatedIdentifierType" => "DOI" }.compact else nil end end def crossref_references(bibliographic_metadata) refs = bibliographic_metadata.dig("citation_list", "citation") Array.wrap(refs).select { |a| a["doi"].present? }.map do |c| if c["doi"].present? { "relatedIdentifier" => parse_attributes(c["doi"]).downcase, "relationType" => "References", "relatedIdentifierType" => "DOI" }.compact else nil end end.compact.unwrap end end end end