bolognese 1.0.26 → 1.0.27

checksums.yaml

@@ -1,7 +1,7 @@
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data/Gemfile.lock

@@ -1,7 +1,7 @@
 PATH
   remote: .
   specs:
-    bolognese (1.0.26)
+    bolognese (1.0.27)
       activesupport (>= 4.2.5, < 6)
       benchmark_methods (~> 0.7)
       bibtex-ruby (~> 4.1)

data/lib/bolognese/datacite_utils.rb

@@ -45,7 +45,7 @@ module Bolognese
 
     def insert_creators(xml)
       xml.creators do
-        Array.wrap(creator).each do |au|
+        Array.wrap(creators).each do |au|
           xml.creator do
             insert_person(xml, au, "creator")
           end
@@ -54,10 +54,10 @@ module Bolognese
     end
 
     def insert_contributors(xml)
-      return xml unless contributor.present?
+      return xml unless contributors.present?
 
       xml.contributors do
-        Array.wrap(contributor).each do |con|
+        Array.wrap(contributors).each do |con|
           xml.contributor("contributorType" => con["contributorType"] || "Other") do
             insert_person(xml, con, "contributor")
           end

data/lib/bolognese/metadata.rb

@@ -8,7 +8,7 @@ module Bolognese
 
     attr_accessor :string, :from, :sandbox, :meta, :regenerate, :issue
     attr_reader :doc, :page_start, :page_end
-    attr_writer :id, :provider_id, :client_id, :doi, :identifier, :creator, :contributor, :titles, :publisher, 
+    attr_writer :id, :provider_id, :client_id, :doi, :identifier, :creators, :contributors, :titles, :publisher, 
                 :rights_list, :dates, :publication_year, :volume, :url, :version_info,
                 :subjects, :contributor, :descriptions, :alternate_identifiers, :language, :sizes,
                 :formats, :schema_version, :meta, :periodical, :agency,
@@ -48,8 +48,8 @@ module Bolognese
                 "provider_id" => options[:provider_id],
                 "client_id" => options[:client_id],
                 "content_url" => options[:content_url],
-                "creator" => options[:creator],
-                "contributor" => options[:creator],
+                "creators" => options[:creators],
+                "contributors" => options[:creators],
                 "titles" => options[:titles],
                 "publisher" => options[:publisher],
                 "publication_year" => options[:publication_year] }
@@ -79,8 +79,8 @@ module Bolognese
 
       # set attributes directly
       read_options = options.slice(
-        :creator,
-        :contributor,
+        :creators,
+        :contributors,
         :titles,
         :types,
         :alternate_identifiers,
@@ -226,12 +226,12 @@ module Bolognese
       @titles ||= meta.fetch("titles", nil)
     end
 
-    def creator
-      @creator ||= meta.fetch("creator", nil)
+    def creators
+      @creators ||= meta.fetch("creators", nil)
     end
 
-    def contributor
-      @contributor ||= meta.fetch("contributor", nil)
+    def contributors
+      @contributors ||= meta.fetch("contributors", nil)
     end
   end
 end

data/lib/bolognese/metadata_utils.rb

@@ -129,8 +129,8 @@ module Bolognese
         "id" => identifier,
         "categories" => Array.wrap(subjects).map { |k| parse_attributes(k, content: "subject", first: true) }.presence,
         "language" => language,
-        "author" => to_citeproc(creator),
-        "contributor" => to_citeproc(contributor),
+        "author" => to_citeproc(creators),
+        "contributor" => to_citeproc(contributors),
         "issued" => get_date(dates, "Issued") ? get_date_parts(get_date(dates, "Issued")) : nil,
         "submitted" => Array.wrap(dates).find { |d| d["dateType"] == "Submitted" }.to_h.fetch("__content__", nil),
         "abstract" => parse_attributes(descriptions, content: "description", first: true),

data/lib/bolognese/readers/bibtex_reader.rb

@@ -82,7 +82,7 @@ module Bolognese
           "doi" => doi,
           "url" => meta.try(:url).to_s.presence,
           "titles" => meta.try(:title).present? ? [{ "title" => meta.try(:title).to_s }] : [],
-          "creator" => author,
+          "creators" => author,
           "periodical" => periodical,
           "publisher" => meta.try(:publisher).to_s.presence,
           "related_identifiers" => related_identifiers,

data/lib/bolognese/readers/citeproc_reader.rb

@@ -46,8 +46,8 @@ module Bolognese
           "ris" => CP_TO_RIS_TRANSLATIONS[schema_org] || "GEN"
         }.compact
         doi = normalize_doi(meta.fetch("DOI", nil))
-        creator = get_authors(from_citeproc(Array.wrap(meta.fetch("author", nil))))
-        contributor = get_authors(from_citeproc(Array.wrap(meta.fetch("editor", nil))))
+        creators = get_authors(from_citeproc(Array.wrap(meta.fetch("author", nil))))
+        contributors = get_authors(from_citeproc(Array.wrap(meta.fetch("editor", nil))))
         dates = if meta.fetch("issued", nil).present?
           [{ "date" => get_date_from_date_parts(meta.fetch("issued", nil)),
              "dateType" => "Issued" }]
@@ -87,8 +87,8 @@ module Bolognese
           "doi" => doi_from_url(doi),
           "url" => normalize_id(meta.fetch("URL", nil)),
           "titles" => [{ "title" => meta.fetch("title", nil) }],
-          "creator" => creator,
-          "contributor" => contributor,
+          "creators" => creators,
+          "contributors" => contributors,
           "periodical" => periodical,
           "publisher" => meta.fetch("publisher", nil),
           "related_identifiers" => related_identifiers,

data/lib/bolognese/readers/codemeta_reader.rb

@@ -51,8 +51,8 @@ module Bolognese
           "doi" => validate_doi(id),
           "url" => normalize_id(meta.fetch("codeRepository", nil)),
           "titles" => [{ "title" => meta.fetch("title", nil) }],
-          "creator" => author,
-          "contributor" => contributor,
+          "creators" => author,
+          "contributors" => contributor,
           "publisher" => publisher,
           #{}"is_part_of" => is_part_of,
           "dates" => dates,

data/lib/bolognese/readers/crossref_reader.rb

@@ -110,8 +110,8 @@ module Bolognese
           "url" => bibliographic_metadata.dig("doi_data", "resource"),
           "titles" => [{ "title" => parse_attributes(bibliographic_metadata.dig("titles", "title")) }],
           "alternate_identifiers" => crossref_alternate_identifiers(bibliographic_metadata),
-          "creator" => crossref_people(bibliographic_metadata, "author"),
-          "contributor" => crossref_people(bibliographic_metadata, "editor"),
+          "creators" => crossref_people(bibliographic_metadata, "author"),
+          "contributors" => crossref_people(bibliographic_metadata, "editor"),
           "funding_references" => crossref_funding_reference(program_metadata),
           "publisher" => publisher,
           "periodical" => periodical,

data/lib/bolognese/readers/datacite_json_reader.rb

@@ -34,8 +34,8 @@ module Bolognese
           "url" => normalize_id(meta.fetch("url", nil)),
           "titles" => meta.fetch("titles", nil),
           "alternate_identifiers" => Array.wrap(meta.fetch("alternateIdentifiers", nil)),
-          "creator" => meta.fetch("creator", nil),
-          "contributor" => meta.fetch("contributor", nil),
+          "creators" => meta.fetch("creators", nil),
+          "contributors" => meta.fetch("contributors", nil),
           "publisher" => meta.fetch("publisher", nil),
           "periodical" => meta.fetch("periodical", nil),
           "agency" => "DataCite",

data/lib/bolognese/readers/datacite_reader.rb

@@ -194,8 +194,8 @@ module Bolognese
           "alternate_identifiers" => alternate_identifiers,
           "url" => options.fetch(:url, nil).to_s.strip.presence,
           "titles" => titles,
-          "creator" => get_authors(Array.wrap(meta.dig("creators", "creator"))),
-          "contributor" => get_authors(Array.wrap(meta.dig("contributors", "contributor"))),
+          "creators" => get_authors(Array.wrap(meta.dig("creators", "creator"))),
+          "contributors" => get_authors(Array.wrap(meta.dig("contributors", "contributor"))),
           "periodical" => periodical,
           "publisher" => parse_attributes(meta.fetch("publisher", nil), first: true).to_s.strip.presence,
           "agency" => "DataCite",

data/lib/bolognese/readers/ris_reader.rb

@@ -81,7 +81,7 @@ module Bolognese
           "doi" => doi,
           "url" => meta.fetch("UR", nil),
           "titles" => meta.fetch("T1", nil).present? ? [{ "title" => meta.fetch("T1", nil) }] : nil,
-          "creator" => get_authors(author),
+          "creators" => get_authors(author),
           "publisher" => meta.fetch("PB", "(:unav)"),
           "periodical" => periodical,
           "related_identifiers" => related_identifiers,

data/lib/bolognese/readers/schema_org_reader.rb

@@ -63,8 +63,8 @@ module Bolognese
           "ris" => Bolognese::Utils::SO_TO_RIS_TRANSLATIONS[resource_type_general.to_s.dasherize] || "GEN"
         }.compact
         authors = meta.fetch("author", nil) || meta.fetch("creator", nil)
-        author = get_authors(from_schema_org(Array.wrap(authors)))
-        contributor = get_authors(from_schema_org(Array.wrap(meta.fetch("editor", nil))))
+        creators = get_authors(from_schema_org(Array.wrap(authors)))
+        contributors = get_authors(from_schema_org(Array.wrap(meta.fetch("editor", nil))))
         publisher = parse_attributes(meta.fetch("publisher", nil), content: "name", first: true)
 
         ct = (schema_org == "Dataset") ? "includedInDataCatalog" : "Periodical"
@@ -145,8 +145,8 @@ module Bolognese
           "sizes" => Array.wrap(meta.fetch("contenSize", nil)).presence,
           "formats" => Array.wrap(meta.fetch("encodingFormat", nil) || meta.fetch("fileFormat", nil)),
           "titles" => meta.fetch("name", nil).present? ? [{ "title" => meta.fetch("name", nil) }] : nil,
-          "creator" => author,
-          "contributor" => contributor,
+          "creators" => creators,
+          "contributors" => contributors,
           "publisher" => publisher,
           "agency" => parse_attributes(meta.fetch("provider", nil), content: "name", first: true),
           "periodical" => periodical,

data/lib/bolognese/version.rb

@@ -1,3 +1,3 @@
 module Bolognese
-  VERSION = "1.0.26"
+  VERSION = "1.0.27"
 end

data/lib/bolognese/writers/bibtex_writer.rb

@@ -11,7 +11,7 @@ module Bolognese
           bibtex_key: identifier,
           doi: doi,
           url: url,
-          author: authors_as_string(creator),
+          author: authors_as_string(creators),
           keywords: subjects.present? ? Array.wrap(subjects).map { |k| parse_attributes(k, content: "subject", first: true) }.join(", ") : nil,
           language: language,
           title: parse_attributes(titles, content: "title", first: true),

data/lib/bolognese/writers/codemeta_writer.rb

@@ -13,7 +13,7 @@ module Bolognese
           "identifier" => identifier,
           "codeRepository" => url,
           "title" => parse_attributes(titles, content: "title", first: true),
-          "agents" => creator,
+          "agents" => creators,
           "description" => parse_attributes(descriptions, content: "description", first: true),
           "version" => version_info,
           "tags" => subjects.present? ? Array.wrap(subjects).map { |k| parse_attributes(k, content: "subject", first: true) } : nil,

data/lib/bolognese/writers/crosscite_writer.rb

@@ -9,12 +9,12 @@ module Bolognese
           "doi" => doi,
           "url" => url,
           "types" => types,
-          "creator" => creator,
+          "creators" => creators,
           "titles" => titles,
           "publisher" => publisher,
           "periodical" => periodical,
           "subjects" => subjects,
-          "contributor" => contributor,
+          "contributors" => contributors,
           "dates" => dates,
           "publication_year" => publication_year,
           "language" => language,

data/lib/bolognese/writers/datacite_json_writer.rb

@@ -8,13 +8,13 @@ module Bolognese
           "id" => identifier,
           "doi" => doi,
           "url" => url,
-          "creator" => creator,
+          "creators" => creators,
           "titles" => titles,
           "publisher" => publisher,
           "periodical" => periodical,
           "types" => to_datacite_json(types, first: true),
           "subjects" => to_datacite_json(subjects),
-          "contributor" => contributor,
+          "contributors" => contributors,
           "dates" => to_datacite_json(dates),
           "publicationYear" => publication_year,
           "language" => language,

data/lib/bolognese/writers/jats_writer.rb

@@ -39,9 +39,9 @@ module Bolognese
       end
 
       def insert_authors(xml)
-        if creator.present?
+        if creators.present?
           xml.send("person-group", "person-group-type" => "author") do
-            Array.wrap(creator).each do |au|
+            Array.wrap(creators).each do |au|
               xml.name do
                 insert_contributor(xml, au)
               end
@@ -51,11 +51,11 @@ module Bolognese
       end
 
       def insert_editors(xml)
-        if contributor.present?
+        if contributors.present?
           xml.send("person-group", "person-group-type" => "editor") do
-            Array.wrap(contributor).each do |creator|
+            Array.wrap(contributors).each do |con|
               xml.name do
-                insert_contributor(xml, creator)
+                insert_contributor(xml, con)
               end
             end
           end

data/lib/bolognese/writers/ris_writer.rb

@@ -8,7 +8,7 @@ module Bolognese
           "TY" => types["ris"],
           "T1" => parse_attributes(titles, content: "title", first: true),
           "T2" => periodical && periodical["title"],
-          "AU" => to_ris(creator),
+          "AU" => to_ris(creators),
           "DO" => doi,
           "UR" => url,
           "AB" => parse_attributes(descriptions, content: "description", first: true),

data/lib/bolognese/writers/schema_org_writer.rb

@@ -11,8 +11,8 @@ module Bolognese
           "url" => url,
           "additionalType" => types["resourceType"],
           "name" => parse_attributes(titles, content: "title", first: true),
-          "author" => to_schema_org(creator),
-          "editor" => to_schema_org(contributor),
+          "author" => to_schema_org(creators),
+          "editor" => to_schema_org(contributors),
           "description" => parse_attributes(descriptions, content: "description", first: true),
           "license" => Array.wrap(rights_list).map { |l| l["rightsUri"] }.compact.unwrap,
           "version" => version_info,

data/spec/author_utils_spec.rb

@@ -146,7 +146,7 @@ describe Bolognese::Metadata, vcr: true do
     it "only familyName and givenName" do
       input = "https://doi.pangaea.de/10.1594/PANGAEA.836178"
       subject = Bolognese::Metadata.new(input: input, from: "schema_org")
-      expect(subject.creator.first).to eq("type"=>"Person", "name"=>"Johansson, Emma", "givenName"=>"Emma", "familyName"=>"Johansson")
+      expect(subject.creators.first).to eq("type"=>"Person", "name"=>"Johansson, Emma", "givenName"=>"Emma", "familyName"=>"Johansson")
     end
   end
 
@@ -196,12 +196,12 @@ describe Bolognese::Metadata, vcr: true do
                                        "name"=>"University of California, Santa Barbara"}] }
 
     it "author" do
-      response = subject.authors_as_string(subject.creator)
+      response = subject.authors_as_string(subject.creators)
       expect(response).to eq("Fenner, Martin and Crosas, Mercè and Grethe, Jeffrey and Kennedy, David and Hermjakob, Henning and Rocca-Serra, Philippe and Durand, Gustavo and Berjon, Robin and Karcher, Sebastian and Martone, Maryann and Clark, Timothy")
     end
 
     it "single author" do
-      response = subject.authors_as_string(subject.creator.first)
+      response = subject.authors_as_string(subject.creators.first)
       expect(response).to eq("Fenner, Martin")
     end
 

data/spec/fixtures/crosscite.json

@@ -9,7 +9,7 @@
         "bibtex": "misc",
         "ris": "COMP"
     },
-    "creator": [{
+    "creators": [{
         "type": "Person",
         "name": "Kristian Garza",
         "givenName": "Kristian",
@@ -52,6 +52,6 @@
         "description": "This tools are used to analyse the data produced by the Crosssover Experiment I designed to test Choice Architecture techniques as UI interventions in a SEEk4Science data catalogue. It contains:\n\n- Data structures for the experimental data.<br>\n- Visualisation functions<br>\n- Analysis functions\n\n## Installation\n\n- R<br>\n- python<br>\n- ipython 4\n\nClone and use.\n\n## Usage\n\n<br>\n```python<br>\nsource('parallel_plot.r')<br>\nwith(z, parallelset(trt,response, freq=count, alpha=0.2))<br>\n```\n\n<br>\n## Contributing\n\n1. Fork it!<br>\n2. Create your feature branch: `git checkout -b my-new-feature`<br>\n3. Commit your changes: `git commit -am 'Add some feature'`<br>\n4. Push to the branch: `git push origin my-new-feature`<br>\n5. Submit a pull request :D\n\n<br>\n## License\n\nThis work supports my PhD Thesis at University of Manchester."
     }],
     "schema_version": "http://datacite.org/schema/kernel-4",
-    "provider": "DataCite",
+    "agency": "DataCite",
     "state": "findable"
 }

data/spec/fixtures/datacite.json

@@ -9,7 +9,7 @@
     "ris": "RPRT"
   },
   "doi": "10.5438/4K3M-NYVG",
-  "creator": [{
+  "creators": [{
     "type": "Person",
     "id": "http://orcid.org/0000-0003-1419-2405",
     "name": "Fenner, Martin",

data/spec/fixtures/datacite_software.json

@@ -5,7 +5,7 @@
     "resource-type": "Software"
   },
   "doi": "10.5063/F1M61H5X",
-  "creator": [{
+  "creators": [{
     "type": "Person",
     "name": "Matthew B. Jones",
     "givenName": "Matthew B.",
@@ -17,5 +17,5 @@
   "publisher": "KNB Data Repository",
   "publication-year": "2016",
   "schema-version": "http://datacite.org/schema/kernel-3",
-  "provider": "DataCite"
+  "agency": "DataCite"
 }

data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_datacite_metadata/multiple_author_names_in_one_creatorsName.yml

@@ -0,0 +1,96 @@
+---
+http_interactions:
+- request:
+    method: get
+    uri: https://api.datacite.org/prefixes/10.7910
+    body:
+      encoding: US-ASCII
+      string: ''
+    headers:
+      User-Agent:
+      - Mozilla/5.0 (compatible; Maremma/4.1.1; +https://github.com/datacite/maremma)
+      Accept:
+      - text/html,application/json,application/xml;q=0.9, text/plain;q=0.8,image/png,*/*;q=0.5
+  response:
+    status:
+      code: 200
+      message: OK
+    headers:
+      Date:
+      - Fri, 30 Nov 2018 18:46:09 GMT
+      Content-Type:
+      - application/json; charset=utf-8
+      Connection:
+      - keep-alive
+      Status:
+      - 200 OK
+      X-Anonymous-Consumer:
+      - 'true'
+      Cache-Control:
+      - max-age=0, private, must-revalidate
+      Vary:
+      - Accept-Encoding, Origin
+      X-Request-Id:
+      - 4e28dec4-62fc-4fed-b1c0-e19d2813d808
+      Etag:
+      - W/"c45a6528c0af405256babda038ef6d77"
+      X-Runtime:
+      - '0.022455'
+      X-Powered-By:
+      - Phusion Passenger 5.3.7
+      Server:
+      - nginx/1.14.0 + Phusion Passenger 5.3.7
+    body:
+      encoding: ASCII-8BIT
+      string: '{"data":{"id":"10.7910","type":"prefixes","attributes":{"registration-agency":"DataCite","created":"2012-10-02T06:27:04.000Z","updated":null},"relationships":{"clients":{"data":[{"id":"gdcc.harvard-dv","type":"clients"}]},"providers":{"data":[{"id":"gdcc","type":"providers"}]}}},"included":[{"id":"gdcc.harvard-dv","type":"clients","attributes":{"name":"Harvard
+        IQSS Dataverse","symbol":"GDCC.HARVARD-DV","year":2018,"contact-name":"Danny
+        Brooke","contact-email":"dannybrooke@g.harvard.edu","domains":"*","url":null,"created":"2018-05-31T22:08:15.000Z","updated":"2018-09-22T10:00:46.000Z","is-active":true,"has-password":true},"relationships":{"provider":{"data":{"id":"gdcc","type":"providers"}},"repository":{"data":{"id":"r3d100010051","type":"repositories"}},"prefixes":{"data":[{"id":"10.5072","type":"prefixes"},{"id":"10.7910","type":"prefixes"}]}}},{"id":"gdcc","type":"providers","attributes":{"name":"The
+        Global Dataverse Community Consortium (GDCC)","symbol":"GDCC","website":"https://dataverse.org/global-dataverse-community-consortium","contact-name":"Jonathan
+        Crabtree","contact-email":"jonathan_crabtree@unc.edu","phone":"919-428-6112","description":"The
+        vision is that the Global Dataverse Community Consortium (GDCC) will provide
+        international organization to existing community efforts and will provide
+        a collaborative venue for institutions to leverage economies of scale in support
+        of Dataverse repositories around the world. It is our intention that the consortium
+        be community driven and ultimately the goals to be defined by the participants.","region":"AMER","country":"US","logo-url":null,"organization-type":null,"focus-area":null,"is-active":true,"has-password":true,"joined":null,"created":"2018-05-09T15:31:15.000Z","updated":"2018-08-26T02:25:54.000Z"},"relationships":{"prefixes":{"data":[{"id":"10.5064","type":"prefixes"},{"id":"10.5072","type":"prefixes"},{"id":"10.7910","type":"prefixes"},{"id":"10.15785","type":"prefixes"},{"id":"10.21979","type":"prefixes"},{"id":"10.21984","type":"prefixes"},{"id":"10.25340","type":"prefixes"},{"id":"10.25341","type":"prefixes"},{"id":"10.26074","type":"prefixes"},{"id":"10.25825","type":"prefixes"},{"id":"10.25824","type":"prefixes"},{"id":"10.25821","type":"prefixes"},{"id":"10.25823","type":"prefixes"},{"id":"10.25822","type":"prefixes"}]}}}]}'
+    http_version: 
+  recorded_at: Fri, 30 Nov 2018 18:46:09 GMT
+- request:
+    method: get
+    uri: https://search.datacite.org/api?fl=doi,url,xml,state,allocator_symbol,datacentre_symbol,media,minted,updated&q=doi:10.7910/dvn/eqtqyo&wt=json
+    body:
+      encoding: US-ASCII
+      string: ''
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