bolognese 0.9.84 → 0.9.85

checksums.yaml

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

@@ -1,7 +1,7 @@
 PATH
   remote: .
   specs:
-    bolognese (0.9.84)
+    bolognese (0.9.85)
       activesupport (>= 4.2.5, < 6)
       benchmark_methods (~> 0.7)
       bibtex-ruby (~> 4.1)

data/lib/bolognese/readers/crossref_reader.rb

@@ -120,8 +120,10 @@ module Bolognese
                             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
+          publisher = "(:unav)"
         end
 
         additional_type = (additional_type || model).to_s.underscore.camelize.presence

data/lib/bolognese/version.rb

@@ -1,3 +1,3 @@
 module Bolognese
-  VERSION = "0.9.84"
+  VERSION = "0.9.85"
 end

data/spec/readers/crossref_reader_spec.rb

@@ -15,6 +15,7 @@ describe Bolognese::Metadata, vcr: true do
 
   context "get crossref metadata" do
     it "DOI with data citation" do
+      expect(subject.valid?).to be true
       expect(subject.id).to eq("https://doi.org/10.7554/elife.01567")
       expect(subject.type).to eq("ScholarlyArticle")
       expect(subject.url).to eq("https://elifesciences.org/articles/01567")
@@ -25,8 +26,10 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.license).to eq("id"=>"http://creativecommons.org/licenses/by/3.0")
       expect(subject.title).to eq("Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth")
       expect(subject.date_published).to eq("2014-02-11")
+      expect(subject.publication_year).to eq(2014)
       expect(subject.date_modified).to eq("2017-10-18T19:09:43Z")
       expect(subject.is_part_of).to eq("type"=>"Periodical", "title"=>"eLife", "issn"=>"2050-084X")
+      expect(subject.container_title).to eq("eLife")
       expect(subject.references.count).to eq(26)
       expect(subject.references[20]).to eq("id"=>"https://doi.org/10.5061/dryad.b835k", "type"=>"CreativeWork", "title" => "Data from: Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth")
       expect(subject.funding).to eq([{"type"=>"Organization", "name"=>"SystemsX"},
@@ -45,6 +48,7 @@ describe Bolognese::Metadata, vcr: true do
     it "journal article" do
       input = "https://doi.org/10.1371/journal.pone.0000030"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq(input)
       expect(subject.url).to eq("http://dx.plos.org/10.1371/journal.pone.0000030")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -56,15 +60,18 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.title).to eq("Triose Phosphate Isomerase Deficiency Is Caused by Altered Dimerization–Not Catalytic Inactivity–of the Mutant Enzymes")
       expect(subject.license).to eq("id"=>"http://creativecommons.org/licenses/by/4.0")
       expect(subject.date_published).to eq("2006-12-20")
+      expect(subject.publication_year).to eq(2006)
       expect(subject.date_modified).to eq("2017-06-17T12:26:15Z")
       expect(subject.first_page).to eq("e30")
       expect(subject.is_part_of).to eq("type"=>"Periodical", "title"=>"PLoS ONE", "issn"=>"1932-6203")
+      expect(subject.container_title).to eq("PLoS ONE")
       expect(subject.provider).to eq("Crossref")
     end
 
     it "posted_content" do
       input = "https://doi.org/10.1101/097196"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq(input)
       expect(subject.url).to eq("http://biorxiv.org/lookup/doi/10.1101/097196")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -78,12 +85,14 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.date_published).to eq("2017-10-09")
       expect(subject.date_modified).to eq("2017-10-10T05:10:49Z")
       expect(subject.is_part_of).to be_nil
+      expect(subject.publisher).to eq("bioRxiv")
       expect(subject.provider).to eq("Crossref")
     end
 
     it "DOI with SICI DOI" do
       input = "https://doi.org/10.1890/0012-9658(2006)87[2832:tiopma]2.0.co;2"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq("https://doi.org/10.1890/0012-9658(2006)87%5B2832:tiopma%5D2.0.co;2")
       expect(subject.url).to eq("http://doi.wiley.com/10.1890/0012-9658(2006)87[2832:TIOPMA]2.0.CO;2")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -97,12 +106,14 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.first_page).to eq("2832")
       expect(subject.last_page).to eq("2841")
       expect(subject.is_part_of).to eq("type"=>"Periodical", "title"=>"Ecology", "issn"=>"0012-9658")
+      expect(subject.container_title).to eq("Ecology")
       expect(subject.provider).to eq("Crossref")
     end
 
     it "DOI with ORCID ID" do
       input = "https://doi.org/10.1155/2012/291294"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq("https://doi.org/10.1155/2012/291294")
       expect(subject.url).to eq("http://www.hindawi.com/journals/pm/2012/291294/")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -117,12 +128,14 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.first_page).to eq("1")
       expect(subject.last_page).to eq("7")
       expect(subject.is_part_of).to eq("type"=>"Periodical", "title"=>"Pulmonary Medicine", "issn"=>"2090-1836")
+      expect(subject.container_title).to eq("Pulmonary Medicine")
       expect(subject.provider).to eq("Crossref")
     end
 
     it "date in future" do
       input = "https://doi.org/10.1016/j.ejphar.2015.03.018"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq(input)
       expect(subject.url).to eq("http://linkinghub.elsevier.com/retrieve/pii/S0014299915002332")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -134,12 +147,14 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.date_published).to eq("2015-07")
       expect(subject.date_modified).to eq("2017-06-23T08:44:48Z")
       expect(subject.is_part_of).to eq("type"=>"Periodical", "title"=>"European Journal of Pharmacology", "issn"=>"00142999")
+      expect(subject.container_title).to eq("European Journal of Pharmacology")
       expect(subject.provider).to eq("Crossref")
     end
 
     it "dataset" do
       input = "10.2210/pdb4hhb/pdb"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq("https://doi.org/10.2210/pdb4hhb/pdb")
       expect(subject.url).to eq("ftp://ftp.wwpdb.org/pub/pdb/data/structures/divided/pdb/hh/pdb4hhb.ent.gz")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -150,13 +165,16 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.title).to eq("THE CRYSTAL STRUCTURE OF HUMAN DEOXYHAEMOGLOBIN AT 1.74 ANGSTROMS RESOLUTION")
       expect(subject.description).to eq("x-ray diffraction structure")
       expect(subject.date_published).to eq("1984-07-17")
+      expect(subject.publication_year).to eq(1984)
       expect(subject.date_modified).to eq("2014-05-27T16:45:59Z")
+      expect(subject.publisher).to eq("(:unav)")
       expect(subject.provider).to eq("Crossref")
     end
 
     it "book chapter" do
       input = "https://doi.org/10.1007/978-3-662-46370-3_13"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq("https://doi.org/10.1007/978-3-662-46370-3_13")
       expect(subject.url).to eq("http://link.springer.com/10.1007/978-3-662-46370-3_13")
       expect(subject.type).to eq("Chapter")
@@ -174,6 +192,7 @@ describe Bolognese::Metadata, vcr: true do
     it "journal article with" do
       input = "https://doi.org/10.1111/nph.14619"
       subject = Bolognese::Metadata.new(input: input)
+      expect(subject.valid?).to be true
       expect(subject.id).to eq(input)
       expect(subject.url).to eq("http://doi.wiley.com/10.1111/nph.14619")
       expect(subject.type).to eq("ScholarlyArticle")
@@ -186,6 +205,7 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.date_published).to eq("2017-06-05")
       expect(subject.date_modified).to eq("2017-06-05T10:56:59Z")
       expect(subject.is_part_of).to eq("type"=>"Periodical", "title"=>"New Phytologist", "issn"=>"0028646X")
+      expect(subject.container_title).to eq("New Phytologist")
       expect(subject.provider).to eq("Crossref")
     end
 

data/spec/readers/datacite_reader_spec.rb

@@ -230,6 +230,7 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.title).to eq("Eating your own Dog Food")
       expect(subject.alternate_name).to eq("type"=>"Local accession number", "name"=>"MS-49-3632-5083")
       expect(subject.date_published).to eq("2016-12-20")
+      expect(subject.publication_year).to eq(2016)
       expect(subject.is_part_of).to eq("type"=>"CreativeWork", "id"=>"https://doi.org/10.5438/0000-00ss")
       expect(subject.references).to eq([{"type"=>"CreativeWork", "id"=>"https://doi.org/10.5438/0012"}, {"type"=>"CreativeWork", "id"=>"https://doi.org/10.5438/55e5-t5c0"}])
       expect(subject.provider).to eq("DataCite")
@@ -247,6 +248,7 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.title).to eq(["Właściwości rzutowań podprzestrzeniowych", {"title_type"=>"TranslatedTitle", "text"=>"Translation of Polish titles"}])
       expect(subject.alternate_name).to eq("type"=>"ISBN", "name"=>"937-0-4523-12357-6")
       expect(subject.date_published).to eq("2010")
+      expect(subject.publication_year).to eq(2010)
       expect(subject.is_part_of).to eq("type"=>"CreativeWork", "id"=>"https://doi.org/10.5272/oldertestpub")
       expect(subject.license).to eq("id"=>"http://creativecommons.org/licenses/by-nd/2.0", "name"=>"Creative Commons Attribution-NoDerivs 2.0 Generic")
       expect(subject.publisher).to eq("Springer")
@@ -265,6 +267,7 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.title).to eq(["Właściwości rzutowań podprzestrzeniowych", {"title_type"=>"TranslatedTitle", "text"=>"Translation of Polish titles"}])
       expect(subject.alternate_name).to eq("type"=>"ISBN", "name"=>"937-0-4523-12357-6")
       expect(subject.date_published).to eq("2010")
+      expect(subject.publication_year).to eq(2010)
       expect(subject.is_part_of).to eq("type"=>"CreativeWork", "id"=>"https://doi.org/10.5272/oldertestpub")
       expect(subject.license).to eq("id"=>"http://creativecommons.org/licenses/by-nd/2.0", "name"=>"Creative Commons Attribution-NoDerivs 2.0 Generic")
       expect(subject.publisher).to eq("Springer")
@@ -337,6 +340,7 @@ describe Bolognese::Metadata, vcr: true do
       expect(subject.author).to eq("name"=>"Tester")
       expect(subject.title).to eq("Test license")
       expect(subject.date_published).to eq("2018-01-12")
+      expect(subject.publication_year).to eq(2018)
       expect(subject.publisher).to eq("CaltechDATA")
       expect(subject.provider).to eq("DataCite")
       expect(subject.schema_version).to eq("http://datacite.org/schema/kernel-4")

data/spec/writers/datacite_writer_spec.rb

@@ -5,6 +5,7 @@ describe Bolognese::Metadata, vcr: true do
     it "with data citation" do
       input = "10.7554/eLife.01567"
       subject = Bolognese::Metadata.new(input: input, from: "crossref")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("resourceType", "resourceTypeGeneral")).to eq("Text")
       expect(datacite.dig("titles", "title")).to eq("Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth")
@@ -19,6 +20,7 @@ describe Bolognese::Metadata, vcr: true do
     it "with ORCID ID" do
       input = "https://doi.org/10.1155/2012/291294"
       subject = Bolognese::Metadata.new(input: input, from: "crossref")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("resourceType", "resourceTypeGeneral")).to eq("Text")
       expect(datacite.dig("creators", "creator").count).to eq(7)
@@ -31,6 +33,7 @@ describe Bolognese::Metadata, vcr: true do
     it "with editor" do
       input = "https://doi.org/10.1371/journal.pone.0000030"
       subject = Bolognese::Metadata.new(input: input, from: "crossref")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("contributors", "contributor")).to eq("contributorType"=>"Editor", "contributorName"=>"Janbon, Guilhem", "givenName"=>"Guilhem", "familyName"=>"Janbon")
     end
@@ -38,6 +41,7 @@ describe Bolognese::Metadata, vcr: true do
     it "Crossref DOI" do
       input = fixture_path + "crossref.bib"
       subject = Bolognese::Metadata.new(input: input, from: "bibtex")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("resourceType", "resourceTypeGeneral")).to eq("Text")
       expect(datacite.dig("titles", "title")).to eq("Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth")
@@ -49,6 +53,7 @@ describe Bolognese::Metadata, vcr: true do
     it "BlogPosting Citeproc JSON" do
       input = fixture_path + "citeproc.json"
       subject = Bolognese::Metadata.new(input: input, from: "citeproc")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("resourceType", "resourceTypeGeneral")).to eq("Text")
       expect(datacite.dig("titles", "title")).to eq("Eating your own Dog Food")
@@ -59,6 +64,7 @@ describe Bolognese::Metadata, vcr: true do
     it "rdataone" do
       input = fixture_path + 'codemeta.json'
       subject = Bolognese::Metadata.new(input: input, from: "codemeta")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("titles", "title")).to eq("R Interface to the DataONE REST API")
       expect(datacite.dig("creators", "creator")).to eq([{"creatorName"=>"Jones, Matt",
@@ -82,6 +88,7 @@ describe Bolognese::Metadata, vcr: true do
     it "maremma" do
       input = "https://github.com/datacite/maremma"
       subject = Bolognese::Metadata.new(input: input, from: "codemeta")
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("titles", "title")).to eq("Maremma: a Ruby library for simplified network calls")
       expect(datacite.dig("creators", "creator")).to eq("creatorName"=>"Fenner, Martin", "givenName"=>"Martin", "familyName"=>"Fenner", "nameIdentifier"=>{"schemeURI"=>"http://orcid.org/", "nameIdentifierScheme"=>"ORCID", "__content__"=>"http://orcid.org/0000-0003-0077-4738"})
@@ -179,6 +186,7 @@ describe Bolognese::Metadata, vcr: true do
       subject.doi = "10.5061/DRYAD.8515"
       subject.title = "Data from: Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth"
       subject.type = "Dataset"
+      expect(subject.valid?).to be true
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})
       expect(datacite.dig("identifier", "__content__")).to eq("10.5061/DRYAD.8515")
       expect(datacite.dig("resourceType", "resourceTypeGeneral")).to eq("Dataset")
@@ -194,6 +202,7 @@ describe Bolognese::Metadata, vcr: true do
     it "change state" do
       input = "10.7554/eLife.01567"
       subject = Bolognese::Metadata.new(input: input, from: "crossref")
+      expect(subject.valid?).to be true
       expect(subject.state).to eq("findable")
       subject.state = "registered"
       datacite = Maremma.from_xml(subject.datacite).fetch("resource", {})

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: bolognese
 version: !ruby/object:Gem::Version
-  version: 0.9.84
+  version: 0.9.85
 platform: ruby
 authors:
 - Martin Fenner
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2018-03-11 00:00:00.000000000 Z
+date: 2018-03-13 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: maremma