briard 2.0

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Files changed (730) hide show
  1. checksums.yaml +7 -0
  2. data/.github/workflows/build.yml +37 -0
  3. data/.github/workflows/changelog.yml +37 -0
  4. data/.github/workflows/release.yml +47 -0
  5. data/.gitignore +59 -0
  6. data/.rubocop.yml +658 -0
  7. data/CHANGELOG.md +1 -0
  8. data/CITATION +16 -0
  9. data/Gemfile +3 -0
  10. data/Gemfile.lock +226 -0
  11. data/LICENSE.md +21 -0
  12. data/README.md +1030 -0
  13. data/Rakefile +13 -0
  14. data/bin/briard +9 -0
  15. data/bolognese.gemspec +59 -0
  16. data/lib/briard/.env.example +3 -0
  17. data/lib/briard/array.rb +13 -0
  18. data/lib/briard/author_utils.rb +166 -0
  19. data/lib/briard/cli.rb +58 -0
  20. data/lib/briard/crossref_utils.rb +336 -0
  21. data/lib/briard/datacite_utils.rb +395 -0
  22. data/lib/briard/doi_utils.rb +65 -0
  23. data/lib/briard/metadata.rb +285 -0
  24. data/lib/briard/metadata_utils.rb +215 -0
  25. data/lib/briard/pubmed.rb +36 -0
  26. data/lib/briard/readers/bibtex_reader.rb +100 -0
  27. data/lib/briard/readers/citeproc_reader.rb +119 -0
  28. data/lib/briard/readers/codemeta_reader.rb +108 -0
  29. data/lib/briard/readers/crosscite_reader.rb +14 -0
  30. data/lib/briard/readers/crossref_reader.rb +368 -0
  31. data/lib/briard/readers/datacite_json_reader.rb +14 -0
  32. data/lib/briard/readers/datacite_reader.rb +341 -0
  33. data/lib/briard/readers/npm_reader.rb +115 -0
  34. data/lib/briard/readers/ris_reader.rb +114 -0
  35. data/lib/briard/readers/schema_org_reader.rb +263 -0
  36. data/lib/briard/string.rb +7 -0
  37. data/lib/briard/utils.rb +1369 -0
  38. data/lib/briard/version.rb +3 -0
  39. data/lib/briard/whitelist_scrubber.rb +47 -0
  40. data/lib/briard/writers/bibtex_writer.rb +32 -0
  41. data/lib/briard/writers/citation_writer.rb +14 -0
  42. data/lib/briard/writers/citeproc_writer.rb +11 -0
  43. data/lib/briard/writers/codemeta_writer.rb +29 -0
  44. data/lib/briard/writers/crosscite_writer.rb +11 -0
  45. data/lib/briard/writers/crossref_writer.rb +11 -0
  46. data/lib/briard/writers/csv_writer.rb +26 -0
  47. data/lib/briard/writers/datacite_json_writer.rb +11 -0
  48. data/lib/briard/writers/datacite_writer.rb +12 -0
  49. data/lib/briard/writers/jats_writer.rb +134 -0
  50. data/lib/briard/writers/rdf_xml_writer.rb +11 -0
  51. data/lib/briard/writers/ris_writer.rb +29 -0
  52. data/lib/briard/writers/schema_org_writer.rb +51 -0
  53. data/lib/briard/writers/turtle_writer.rb +11 -0
  54. data/lib/briard.rb +31 -0
  55. data/resources/2008/09/xsd.xsl +997 -0
  56. data/resources/crossref/AccessIndicators.xsd +47 -0
  57. data/resources/crossref/JATS-journalpublishing1-3d2-mathml3-elements.xsd +10130 -0
  58. data/resources/crossref/JATS-journalpublishing1-3d2-mathml3.xsd +48 -0
  59. data/resources/crossref/JATS-journalpublishing1-elements.xsd +8705 -0
  60. data/resources/crossref/JATS-journalpublishing1-mathml3-elements.xsd +8608 -0
  61. data/resources/crossref/JATS-journalpublishing1-mathml3.xsd +49 -0
  62. data/resources/crossref/JATS-journalpublishing1.xsd +6176 -0
  63. data/resources/crossref/clinicaltrials.xsd +61 -0
  64. data/resources/crossref/common5.3.1.xsd +1530 -0
  65. data/resources/crossref/crossref5.3.1.xsd +1949 -0
  66. data/resources/crossref/crossref_query_output3.0.xsd +1097 -0
  67. data/resources/crossref/fundref.xsd +49 -0
  68. data/resources/crossref/module-ali.xsd +39 -0
  69. data/resources/crossref/relations.xsd +444 -0
  70. data/resources/datacite-contributorType-v4.xsd +35 -0
  71. data/resources/datacite-dateType-v4.xsd +25 -0
  72. data/resources/datacite-descriptionType-v4.xsd +19 -0
  73. data/resources/datacite-funderIdentifierType-v4.xsd +15 -0
  74. data/resources/datacite-nameType-v4.xsd +10 -0
  75. data/resources/datacite-relatedIdentifierType-v4.xsd +34 -0
  76. data/resources/datacite-relationType-v4.xsd +49 -0
  77. data/resources/datacite-resourceType-v4.xsd +28 -0
  78. data/resources/datacite-titleType-v4.xsd +14 -0
  79. data/resources/kernel-2.1/include/datacite-contributorType-v1.1.xsd +22 -0
  80. data/resources/kernel-2.1/include/datacite-contributorType-v2.xsd +3 -0
  81. data/resources/kernel-2.1/include/datacite-dateType-v1.1.xsd +31 -0
  82. data/resources/kernel-2.1/include/datacite-dateType-v2.xsd +3 -0
  83. data/resources/kernel-2.1/include/datacite-descriptionType-v1.1.xsd +14 -0
  84. data/resources/kernel-2.1/include/datacite-descriptionType-v2.xsd +3 -0
  85. data/resources/kernel-2.1/include/datacite-relatedIdentifierType-v1.1.xsd +24 -0
  86. data/resources/kernel-2.1/include/datacite-relatedIdentifierType-v2.xsd +3 -0
  87. data/resources/kernel-2.1/include/datacite-relationType-v1.1.xsd +29 -0
  88. data/resources/kernel-2.1/include/datacite-relationType-v2.xsd +3 -0
  89. data/resources/kernel-2.1/include/datacite-resourceType-v1.1.xsd +22 -0
  90. data/resources/kernel-2.1/include/datacite-resourceType-v2.xsd +3 -0
  91. data/resources/kernel-2.1/include/datacite-titleType-v1.1.xsd +11 -0
  92. data/resources/kernel-2.1/include/datacite-titleType-v2.xsd +3 -0
  93. data/resources/kernel-2.1/metadata.xsd +315 -0
  94. data/resources/kernel-2.2/include/datacite-contributorType-v2.xsd +29 -0
  95. data/resources/kernel-2.2/include/datacite-dateType-v2.xsd +21 -0
  96. data/resources/kernel-2.2/include/datacite-descriptionType-v2.xsd +15 -0
  97. data/resources/kernel-2.2/include/datacite-relatedIdentifierType-v2.xsd +25 -0
  98. data/resources/kernel-2.2/include/datacite-relationType-v2.xsd +29 -0
  99. data/resources/kernel-2.2/include/datacite-resourceType-v2.xsd +23 -0
  100. data/resources/kernel-2.2/include/datacite-titleType-v2.xsd +10 -0
  101. data/resources/kernel-2.2/metadata.xsd +316 -0
  102. data/resources/kernel-3/include/datacite-contributorType-v3.1.xsd +35 -0
  103. data/resources/kernel-3/include/datacite-dateType-v3.xsd +21 -0
  104. data/resources/kernel-3/include/datacite-descriptionType-v3.xsd +17 -0
  105. data/resources/kernel-3/include/datacite-relatedIdentifierType-v3.1.xsd +30 -0
  106. data/resources/kernel-3/include/datacite-relationType-v3.1.xsd +38 -0
  107. data/resources/kernel-3/include/datacite-resourceType-v3.xsd +26 -0
  108. data/resources/kernel-3/include/datacite-titleType-v3.xsd +12 -0
  109. data/resources/kernel-3/include/xml.xsd +286 -0
  110. data/resources/kernel-3/metadata.xsd +380 -0
  111. data/resources/kernel-3.0/include/datacite-contributorType-v3.xsd +33 -0
  112. data/resources/kernel-3.0/include/datacite-dateType-v3.xsd +21 -0
  113. data/resources/kernel-3.0/include/datacite-descriptionType-v3.xsd +17 -0
  114. data/resources/kernel-3.0/include/datacite-relatedIdentifierType-v3.xsd +27 -0
  115. data/resources/kernel-3.0/include/datacite-relationType-v3.xsd +33 -0
  116. data/resources/kernel-3.0/include/datacite-resourceType-v3.xsd +26 -0
  117. data/resources/kernel-3.0/include/datacite-titleType-v3.xsd +12 -0
  118. data/resources/kernel-3.0/include/xml.xsd +286 -0
  119. data/resources/kernel-3.0/metadata.xsd +377 -0
  120. data/resources/kernel-3.1/include/datacite-contributorType-v3.1.xsd +35 -0
  121. data/resources/kernel-3.1/include/datacite-dateType-v3.xsd +21 -0
  122. data/resources/kernel-3.1/include/datacite-descriptionType-v3.xsd +17 -0
  123. data/resources/kernel-3.1/include/datacite-relatedIdentifierType-v3.1.xsd +30 -0
  124. data/resources/kernel-3.1/include/datacite-relationType-v3.1.xsd +38 -0
  125. data/resources/kernel-3.1/include/datacite-resourceType-v3.xsd +26 -0
  126. data/resources/kernel-3.1/include/datacite-titleType-v3.xsd +12 -0
  127. data/resources/kernel-3.1/include/xml.xsd +286 -0
  128. data/resources/kernel-3.1/metadata.xsd +380 -0
  129. data/resources/kernel-4/include/datacite-contributorType-v4.xsd +35 -0
  130. data/resources/kernel-4/include/datacite-dateType-v4.xsd +25 -0
  131. data/resources/kernel-4/include/datacite-descriptionType-v4.xsd +19 -0
  132. data/resources/kernel-4/include/datacite-funderIdentifierType-v4.xsd +16 -0
  133. data/resources/kernel-4/include/datacite-nameType-v4.xsd +10 -0
  134. data/resources/kernel-4/include/datacite-numberType-v4.xsd +12 -0
  135. data/resources/kernel-4/include/datacite-relatedIdentifierType-v4.xsd +34 -0
  136. data/resources/kernel-4/include/datacite-relationType-v4.xsd +51 -0
  137. data/resources/kernel-4/include/datacite-resourceType-v4.xsd +43 -0
  138. data/resources/kernel-4/include/datacite-titleType-v4.xsd +14 -0
  139. data/resources/kernel-4/include/xml.xsd +286 -0
  140. data/resources/kernel-4/metadata.xsd +707 -0
  141. data/resources/kernel-4.0/include/datacite-contributorType-v4.xsd +35 -0
  142. data/resources/kernel-4.0/include/datacite-dateType-v4.xsd +21 -0
  143. data/resources/kernel-4.0/include/datacite-descriptionType-v4.xsd +19 -0
  144. data/resources/kernel-4.0/include/datacite-funderIdentifierType-v4.xsd +15 -0
  145. data/resources/kernel-4.0/include/datacite-relatedIdentifierType-v4.xsd +32 -0
  146. data/resources/kernel-4.0/include/datacite-relationType-v4.xsd +39 -0
  147. data/resources/kernel-4.0/include/datacite-resourceType-v4.xsd +26 -0
  148. data/resources/kernel-4.0/include/datacite-titleType-v4.xsd +14 -0
  149. data/resources/kernel-4.0/include/xml.xsd +286 -0
  150. data/resources/kernel-4.0/metadata.xsd +470 -0
  151. data/resources/kernel-4.1/include/datacite-contributorType-v4.xsd +35 -0
  152. data/resources/kernel-4.1/include/datacite-dateType-v4.1.xsd +23 -0
  153. data/resources/kernel-4.1/include/datacite-descriptionType-v4.xsd +19 -0
  154. data/resources/kernel-4.1/include/datacite-funderIdentifierType-v4.xsd +15 -0
  155. data/resources/kernel-4.1/include/datacite-nameType-v4.1.xsd +10 -0
  156. data/resources/kernel-4.1/include/datacite-relatedIdentifierType-v4.xsd +32 -0
  157. data/resources/kernel-4.1/include/datacite-relationType-v4.1.xsd +46 -0
  158. data/resources/kernel-4.1/include/datacite-resourceType-v4.1.xsd +28 -0
  159. data/resources/kernel-4.1/include/datacite-titleType-v4.xsd +14 -0
  160. data/resources/kernel-4.1/include/xml.xsd +286 -0
  161. data/resources/kernel-4.1/metadata.xsd +483 -0
  162. data/resources/kernel-4.2/include/datacite-contributorType-v4.xsd +35 -0
  163. data/resources/kernel-4.2/include/datacite-dateType-v4.xsd +25 -0
  164. data/resources/kernel-4.2/include/datacite-descriptionType-v4.xsd +19 -0
  165. data/resources/kernel-4.2/include/datacite-funderIdentifierType-v4.xsd +15 -0
  166. data/resources/kernel-4.2/include/datacite-nameType-v4.xsd +10 -0
  167. data/resources/kernel-4.2/include/datacite-relatedIdentifierType-v4.xsd +34 -0
  168. data/resources/kernel-4.2/include/datacite-relationType-v4.xsd +49 -0
  169. data/resources/kernel-4.2/include/datacite-resourceType-v4.xsd +28 -0
  170. data/resources/kernel-4.2/include/datacite-titleType-v4.xsd +14 -0
  171. data/resources/kernel-4.2/include/xml.xsd +286 -0
  172. data/resources/kernel-4.2/metadata.xsd +479 -0
  173. data/resources/kernel-4.3/include/datacite-contributorType-v4.xsd +35 -0
  174. data/resources/kernel-4.3/include/datacite-dateType-v4.xsd +25 -0
  175. data/resources/kernel-4.3/include/datacite-descriptionType-v4.xsd +19 -0
  176. data/resources/kernel-4.3/include/datacite-funderIdentifierType-v4.xsd +16 -0
  177. data/resources/kernel-4.3/include/datacite-nameType-v4.xsd +10 -0
  178. data/resources/kernel-4.3/include/datacite-relatedIdentifierType-v4.xsd +34 -0
  179. data/resources/kernel-4.3/include/datacite-relationType-v4.xsd +49 -0
  180. data/resources/kernel-4.3/include/datacite-resourceType-v4.xsd +28 -0
  181. data/resources/kernel-4.3/include/datacite-titleType-v4.xsd +14 -0
  182. data/resources/kernel-4.3/include/xml.xsd +286 -0
  183. data/resources/kernel-4.3/metadata.xsd +515 -0
  184. data/resources/kernel-4.4/include/datacite-contributorType-v4.xsd +35 -0
  185. data/resources/kernel-4.4/include/datacite-dateType-v4.xsd +25 -0
  186. data/resources/kernel-4.4/include/datacite-descriptionType-v4.xsd +19 -0
  187. data/resources/kernel-4.4/include/datacite-funderIdentifierType-v4.xsd +16 -0
  188. data/resources/kernel-4.4/include/datacite-nameType-v4.xsd +10 -0
  189. data/resources/kernel-4.4/include/datacite-numberType-v4.xsd +12 -0
  190. data/resources/kernel-4.4/include/datacite-relatedIdentifierType-v4.xsd +34 -0
  191. data/resources/kernel-4.4/include/datacite-relationType-v4.xsd +51 -0
  192. data/resources/kernel-4.4/include/datacite-resourceType-v4.xsd +43 -0
  193. data/resources/kernel-4.4/include/datacite-titleType-v4.xsd +14 -0
  194. data/resources/kernel-4.4/include/xml.xsd +286 -0
  195. data/resources/kernel-4.4/metadata.xsd +707 -0
  196. data/resources/oecd/dfg-mappings.json +1866 -0
  197. data/resources/oecd/for-mappings.json +1099 -0
  198. data/resources/oecd/fos-mappings.json +198 -0
  199. data/resources/schema_org/jsonldcontext.json +7477 -0
  200. data/resources/spdx/licenses.json +5297 -0
  201. data/resources/xml.xsd +286 -0
  202. data/spec/array_spec.rb +22 -0
  203. data/spec/author_utils_spec.rb +193 -0
  204. data/spec/cli_spec.rb +226 -0
  205. data/spec/datacite_utils_spec.rb +178 -0
  206. data/spec/doi_utils_spec.rb +314 -0
  207. data/spec/find_from_format_spec.rb +114 -0
  208. data/spec/fixtures/aida.json +82 -0
  209. data/spec/fixtures/cgimp_package.json +18 -0
  210. data/spec/fixtures/cit_package.json +19 -0
  211. data/spec/fixtures/citeproc-no-author.json +26 -0
  212. data/spec/fixtures/citeproc-no-categories.json +21 -0
  213. data/spec/fixtures/citeproc.json +30 -0
  214. data/spec/fixtures/codemeta.json +86 -0
  215. data/spec/fixtures/codemeta_v2.json +86 -0
  216. data/spec/fixtures/crosscite.json +63 -0
  217. data/spec/fixtures/crossref.bib +14 -0
  218. data/spec/fixtures/crossref.ris +15 -0
  219. data/spec/fixtures/crossref.xml +606 -0
  220. data/spec/fixtures/datacite-empty-sizes.xml +57 -0
  221. data/spec/fixtures/datacite-example-affiliation.xml +114 -0
  222. data/spec/fixtures/datacite-example-ancientdates-v4.3.xml +29 -0
  223. data/spec/fixtures/datacite-example-complicated-tba.xml +56 -0
  224. data/spec/fixtures/datacite-example-complicated-v3.0.xml +48 -0
  225. data/spec/fixtures/datacite-example-complicated-v4.0.xml +54 -0
  226. data/spec/fixtures/datacite-example-complicated-v4.1.xml +57 -0
  227. data/spec/fixtures/datacite-example-dissertation-v4.4.xml +56 -0
  228. data/spec/fixtures/datacite-example-escaped-text.xml +56 -0
  229. data/spec/fixtures/datacite-example-full-v4.4.xml +114 -0
  230. data/spec/fixtures/datacite-example-geolocation-2.xml +141 -0
  231. data/spec/fixtures/datacite-example-geolocation.xml +66 -0
  232. data/spec/fixtures/datacite-example-polygon-v4.1.xml +163 -0
  233. data/spec/fixtures/datacite-example-relateditems.xml +61 -0
  234. data/spec/fixtures/datacite-example-xs-string.xml +28 -0
  235. data/spec/fixtures/datacite-formats-with-xs.xml +22 -0
  236. data/spec/fixtures/datacite-funderIdentifier.xml +78 -0
  237. data/spec/fixtures/datacite-geolocation-empty.xml +159 -0
  238. data/spec/fixtures/datacite-geolocationpolygons-multiple.xml +76 -0
  239. data/spec/fixtures/datacite-metadata-sample-complicated-v2.2.xml +52 -0
  240. data/spec/fixtures/datacite-multiple-language.xml +38 -0
  241. data/spec/fixtures/datacite-multiple-rights.xml +59 -0
  242. data/spec/fixtures/datacite-schema-2.2.xml +80 -0
  243. data/spec/fixtures/datacite-seriesinformation.xml +41 -0
  244. data/spec/fixtures/datacite-space-in-sizes.xml +52 -0
  245. data/spec/fixtures/datacite-xml-lang.xml +51 -0
  246. data/spec/fixtures/datacite.json +83 -0
  247. data/spec/fixtures/datacite.xml +40 -0
  248. data/spec/fixtures/datacite_dataset.xml +58 -0
  249. data/spec/fixtures/datacite_malformed_creator.xml +52 -0
  250. data/spec/fixtures/datacite_missing_creator.xml +33 -0
  251. data/spec/fixtures/datacite_schema_3.xml +58 -0
  252. data/spec/fixtures/datacite_software.json +21 -0
  253. data/spec/fixtures/datacite_software_missing_comma.json +18 -0
  254. data/spec/fixtures/datacite_software_overlapping_keys.json +18 -0
  255. data/spec/fixtures/datacite_software_version.json +74 -0
  256. data/spec/fixtures/edam_package.json +12 -0
  257. data/spec/fixtures/funding_reference.xml +53 -0
  258. data/spec/fixtures/gtex.xml +71 -0
  259. data/spec/fixtures/maremma/codemeta.json +36 -0
  260. data/spec/fixtures/nist.xml +35 -0
  261. data/spec/fixtures/ns0.xml +2 -0
  262. data/spec/fixtures/pure.bib +14 -0
  263. data/spec/fixtures/pure.ris +15 -0
  264. data/spec/fixtures/pure.xml +188 -0
  265. data/spec/fixtures/ris_bug.ris +9 -0
  266. data/spec/fixtures/schema_4.0.xml +140 -0
  267. data/spec/fixtures/schema_org.json +49 -0
  268. data/spec/fixtures/schema_org_front-matter.json +32 -0
  269. data/spec/fixtures/schema_org_geolocation.json +82 -0
  270. data/spec/fixtures/schema_org_geoshape.json +550 -0
  271. data/spec/fixtures/schema_org_gtex.json +75 -0
  272. data/spec/fixtures/schema_org_list.json +12623 -0
  273. data/spec/fixtures/schema_org_tdl_iodp_invalid_authors.json +25 -0
  274. data/spec/fixtures/schema_org_topmed.json +53 -0
  275. data/spec/fixtures/schema_org_type_as_array.json +41 -0
  276. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/default.yml +121 -0
  277. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_bibtex.yml +121 -0
  278. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_citation.yml +121 -0
  279. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_crossref.yml +121 -0
  280. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_datacite.yml +121 -0
  281. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_jats.yml +121 -0
  282. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_schema_org.yml +121 -0
  283. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/default.yml +110 -0
  284. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_bibtex.yml +110 -0
  285. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_citation.yml +110 -0
  286. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_datacite.yml +110 -0
  287. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_datacite_json.yml +110 -0
  288. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_jats.yml +110 -0
  289. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_schema_org.yml +110 -0
  290. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/default.yml +117 -0
  291. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/to_datacite.yml +117 -0
  292. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/to_schema_org.yml +117 -0
  293. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/crossref.yml +52 -0
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  667. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_jats_xml/with_data_citation_schema_org.yml +117 -0
  668. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_jats_xml/with_editor.yml +66 -0
  669. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_rdf_xml/BlogPosting.yml +61 -0
  670. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_rdf_xml/BlogPosting_schema_org.yml +117 -0
  671. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_rdf_xml/journal_article.yml +72 -0
  672. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_rdf_xml/maremma.yml +75 -0
  673. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_rdf_xml/with_pages.yml +69 -0
  674. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/BlogPosting.yml +61 -0
  675. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/BlogPosting_schema_org.yml +117 -0
  676. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/Dataset.yml +61 -0
  677. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/alternate_name.yml +61 -0
  678. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/journal_article.yml +72 -0
  679. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/keywords_with_subject_scheme.yml +61 -0
  680. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/maremma.yml +75 -0
  681. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_ris/with_pages.yml +69 -0
  682. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/Funding.yml +110 -0
  683. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/Funding_OpenAIRE.yml +110 -0
  684. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/Schema_org_JSON.yml +61 -0
  685. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/Schema_org_JSON_Cyark.yml +110 -0
  686. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/Schema_org_JSON_IsSupplementTo.yml +110 -0
  687. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/Schema_org_JSON_isReferencedBy.yml +61 -0
  688. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/alternate_identifiers.yml +61 -0
  689. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/data_catalog.yml +61 -0
  690. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/geo_location_box.yml +61 -0
  691. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/interactive_resource_without_dates.yml +61 -0
  692. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/journal_article.yml +72 -0
  693. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/maremma_schema_org_JSON.yml +75 -0
  694. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/series_information.yml +61 -0
  695. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/subject_scheme.yml +61 -0
  696. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_schema_org/subject_scheme_multiple_keywords.yml +61 -0
  697. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/BlogPosting.yml +61 -0
  698. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/BlogPosting_schema_org.yml +117 -0
  699. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/Dataset.yml +61 -0
  700. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/journal_article.yml +72 -0
  701. data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/with_pages.yml +69 -0
  702. data/spec/fixtures/vivli.xml +1 -0
  703. data/spec/metadata_spec.rb +165 -0
  704. data/spec/readers/bibtex_reader_spec.rb +63 -0
  705. data/spec/readers/citeproc_reader_spec.rb +61 -0
  706. data/spec/readers/codemeta_reader_spec.rb +138 -0
  707. data/spec/readers/crosscite_reader_spec.rb +41 -0
  708. data/spec/readers/crossref_reader_spec.rb +1117 -0
  709. data/spec/readers/datacite_json_reader_spec.rb +80 -0
  710. data/spec/readers/datacite_reader_spec.rb +1655 -0
  711. data/spec/readers/npm_reader_spec.rb +66 -0
  712. data/spec/readers/ris_reader_spec.rb +75 -0
  713. data/spec/readers/schema_org_reader_spec.rb +376 -0
  714. data/spec/spec_helper.rb +94 -0
  715. data/spec/utils_spec.rb +617 -0
  716. data/spec/writers/bibtex_writer_spec.rb +195 -0
  717. data/spec/writers/citation_writer_spec.rb +52 -0
  718. data/spec/writers/citeproc_writer_spec.rb +296 -0
  719. data/spec/writers/codemeta_writer_spec.rb +45 -0
  720. data/spec/writers/crosscite_writer_spec.rb +122 -0
  721. data/spec/writers/crossref_writer_spec.rb +88 -0
  722. data/spec/writers/csv_writer_spec.rb +94 -0
  723. data/spec/writers/datacite_json_writer_spec.rb +90 -0
  724. data/spec/writers/datacite_writer_spec.rb +428 -0
  725. data/spec/writers/jats_writer_spec.rb +193 -0
  726. data/spec/writers/rdf_xml_writer_spec.rb +86 -0
  727. data/spec/writers/ris_writer_spec.rb +208 -0
  728. data/spec/writers/schema_org_writer_spec.rb +369 -0
  729. data/spec/writers/turtle_writer_spec.rb +84 -0
  730. metadata +1347 -0
@@ -0,0 +1,122 @@
1
+ # frozen_string_literal: true
2
+
3
+ require 'spec_helper'
4
+
5
+ describe Briard::Metadata, vcr: true do
6
+ context "write metadata as crosscite" do
7
+ it "with data citation" do
8
+ input = "10.7554/eLife.01567"
9
+ subject = Briard::Metadata.new(input: input, from: "crossref")
10
+ crosscite = JSON.parse(subject.crosscite)
11
+ expect(crosscite.fetch("url")).to eq("https://elifesciences.org/articles/01567")
12
+ expect(crosscite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"article-journal", "resourceType"=>"JournalArticle", "resourceTypeGeneral"=>"JournalArticle", "ris"=>"JOUR", "schemaOrg"=>"ScholarlyArticle")
13
+ expect(crosscite.fetch("titles")).to eq([{"title"=>"Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth"}])
14
+ expect(crosscite.fetch("related_identifiers").length).to eq(27)
15
+ expect(crosscite.fetch("related_identifiers").first).to eq("relatedIdentifier"=>"2050-084X", "relatedIdentifierType"=>"ISSN", "relationType"=>"IsPartOf", "resourceTypeGeneral"=>"Collection")
16
+ expect(crosscite.fetch("related_identifiers").last).to eq("relatedIdentifier"=>"10.1038/ncb2764", "relatedIdentifierType"=>"DOI", "relationType"=>"References")
17
+ expect(crosscite.fetch("rights_list")).to eq([{"rights"=>"Creative Commons Attribution 3.0 Unported",
18
+ "rightsIdentifier"=>"cc-by-3.0",
19
+ "rightsIdentifierScheme"=>"SPDX",
20
+ "rightsUri"=>"https://creativecommons.org/licenses/by/3.0/legalcode",
21
+ "schemeUri"=>"https://spdx.org/licenses/"}])
22
+ end
23
+
24
+ it "with ORCID ID" do
25
+ input = "https://doi.org/10.1155/2012/291294"
26
+ subject = Briard::Metadata.new(input: input, from: "crossref")
27
+ crosscite = JSON.parse(subject.crosscite)
28
+ expect(crosscite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"article-journal", "resourceType"=>"JournalArticle", "resourceTypeGeneral"=>"JournalArticle", "ris"=>"JOUR", "schemaOrg"=>"ScholarlyArticle")
29
+ expect(crosscite.fetch("creators").count).to eq(7)
30
+ expect(crosscite.fetch("creators")[2]).to eq("nameType"=>"Personal", "nameIdentifiers" => [{"nameIdentifier"=>"https://orcid.org/0000-0003-2043-4925", "nameIdentifierScheme"=>"ORCID", "schemeUri"=>"https://orcid.org"}], "name"=>"Hernandez, Beatriz", "givenName"=>"Beatriz", "familyName"=>"Hernandez", "affiliation" => [{"name"=>"War Related Illness and Injury Study Center (WRIISC) and Mental Illness Research Education and Clinical Center (MIRECC), Department of Veterans Affairs, Palo Alto, CA 94304, USA"}, {"name"=>"Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, CA 94304, USA"}])
31
+ end
32
+
33
+ # it "with editor" do
34
+ # input = "https://doi.org/10.1371/journal.pone.0000030"
35
+ # subject = Briard::Metadata.new(input: input, from: "crossref")
36
+ # crosscite = JSON.parse(subject.crosscite)
37
+ # expect(crosscite["editor"]).to eq("contributorType"=>"Editor", "contributorName"=>"Janbon, Guilhem", "givenName"=>"Guilhem", "familyName"=>"Janbon")
38
+ # end
39
+
40
+ it "Crossref DOI" do
41
+ input = fixture_path + "crossref.bib"
42
+ subject = Briard::Metadata.new(input: input, from: "bibtex")
43
+ crosscite = JSON.parse(subject.crosscite)
44
+ expect(crosscite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"article-journal", "resourceTypeGeneral"=>"JournalArticle", "resourceType"=>"JournalArticle", "ris"=>"JOUR", "schemaOrg"=>"ScholarlyArticle")
45
+ expect(crosscite.fetch("titles")).to eq([{"title"=>"Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth"}])
46
+ expect(crosscite.dig("descriptions", 0, "description")).to start_with("Among various advantages, their small size makes model organisms preferred subjects of investigation.")
47
+ expect(crosscite.fetch("creators").count).to eq(5)
48
+ expect(crosscite.fetch("creators").first).to eq("nameType"=>"Personal", "name"=>"Sankar, Martial", "givenName"=>"Martial", "familyName"=>"Sankar")
49
+ end
50
+
51
+ it "BlogPosting Citeproc JSON" do
52
+ input = fixture_path + "citeproc.json"
53
+ subject = Briard::Metadata.new(input: input, from: "citeproc")
54
+ expect(subject.valid?).to be true
55
+ crosscite = JSON.parse(subject.crosscite)
56
+ expect(crosscite["types"]).to eq("bibtex"=>"article", "citeproc"=>"post-weblog", "resourceTypeGeneral"=>"Text", "ris"=>"GEN", "schemaOrg"=>"BlogPosting")
57
+ expect(crosscite.fetch("titles")).to eq([{"title"=>"Eating your own Dog Food"}])
58
+ expect(crosscite.dig("descriptions", 0, "description")).to start_with("Eating your own dog food")
59
+ expect(crosscite.fetch("creators")).to eq([{"familyName"=>"Fenner", "givenName"=>"Martin", "name"=>"Fenner, Martin"}])
60
+ end
61
+
62
+ it "rdataone" do
63
+ input = fixture_path + 'codemeta.json'
64
+ subject = Briard::Metadata.new(input: input, from: "codemeta")
65
+ crosscite = JSON.parse(subject.crosscite)
66
+ expect(crosscite["titles"]).to eq([{"title"=>"R Interface to the DataONE REST API"}])
67
+ expect(crosscite["creators"].length).to eq(3)
68
+ expect(crosscite["creators"].last).to eq("nameType" => "Organizational", "name"=>"University Of California, Santa Barbara", "nameIdentifiers" => [], "affiliation" => [])
69
+ expect(crosscite["version"]).to eq("2.0.0")
70
+ end
71
+
72
+ it "rdataone codemeta v2" do
73
+ input = fixture_path + 'codemeta_v2.json'
74
+ subject = Briard::Metadata.new(input: input, from: "codemeta")
75
+ crosscite = JSON.parse(subject.crosscite)
76
+ expect(crosscite["titles"]).to eq([{"title"=>"R Interface to the DataONE REST API"}])
77
+ expect(crosscite["creators"].length).to eq(3)
78
+ expect(crosscite["creators"].last).to eq("nameType" => "Organizational", "name"=>"University Of California, Santa Barbara", "nameIdentifiers" => [], "affiliation" => [])
79
+ expect(crosscite["version"]).to eq("2.0.0")
80
+ end
81
+
82
+ it "datacite database attributes" do
83
+ input = "https://doi.org/10.5061/DRYAD.8515"
84
+ subject = Briard::Metadata.new(input: input, from: "datacite")
85
+ crosscite = JSON.parse(subject.crosscite)
86
+ expect(crosscite.fetch("url")).to eq("http://datadryad.org/stash/dataset/doi:10.5061/dryad.8515")
87
+ expect(crosscite.fetch("titles")).to eq([{"title"=>"Data from: A new malaria agent in African hominids."}])
88
+ expect(crosscite.fetch("creators").length).to eq(8)
89
+ expect(crosscite.fetch("creators").first).to eq("familyName" => "Ollomo", "givenName" => "Benjamin", "name" => "Ollomo, Benjamin", "nameType" => "Personal", "nameIdentifiers" => [], "affiliation" => [{"affiliationIdentifier"=>"https://ror.org/01wyqb997", "affiliationIdentifierScheme"=>"ROR", "name"=>"Centre International de Recherches Médicales de Franceville"}])
90
+ expect(crosscite.fetch("dates")).to eq([{"date"=>"2011-02-01T17:22:41Z", "dateType"=>"Available"}, {"date"=>"2011", "dateType"=>"Issued"}])
91
+ expect(crosscite.fetch("publication_year")).to eq("2011")
92
+ expect(crosscite.fetch("provider_id")).to eq("dryad")
93
+ expect(crosscite.fetch("client_id")).to eq("dryad.dryad")
94
+ end
95
+
96
+ it "maremma" do
97
+ input = "https://github.com/datacite/maremma"
98
+ subject = Briard::Metadata.new(input: input, from: "codemeta")
99
+ crosscite = JSON.parse(subject.crosscite)
100
+ expect(crosscite.fetch("titles")).to eq( [{"title"=>"Maremma: a Ruby library for simplified network calls"}])
101
+ expect(crosscite.fetch("creators")).to eq([{"affiliation"=>[{"name"=>"DataCite"}],
102
+ "familyName"=>"Fenner",
103
+ "givenName"=>"Martin",
104
+ "name"=>"Fenner, Martin",
105
+ "nameIdentifiers"=>
106
+ [{"nameIdentifier"=>"https://orcid.org/0000-0003-0077-4738",
107
+ "nameIdentifierScheme"=>"ORCID", "schemeUri"=>"https://orcid.org"}],
108
+ "nameType"=>"Personal"}])
109
+ end
110
+
111
+ it "with data citation schema.org" do
112
+ input = "https://blog.datacite.org/eating-your-own-dog-food/"
113
+ subject = Briard::Metadata.new(input: input, from: "schema_org")
114
+ expect(subject.valid?).to be true
115
+ crosscite = JSON.parse(subject.crosscite)
116
+ expect(crosscite.fetch("titles")).to eq([{"title"=>"Eating your own Dog Food"}])
117
+ expect(crosscite.fetch("related_identifiers").count).to eq(3)
118
+ expect(crosscite.fetch("related_identifiers").first).to eq("relatedIdentifier"=>"10.5438/0000-00ss", "relatedIdentifierType"=>"DOI", "relationType"=>"IsPartOf", "resourceTypeGeneral"=>"Text")
119
+ expect(crosscite.fetch("related_identifiers").last).to eq("relatedIdentifier"=>"10.5438/55e5-t5c0", "relatedIdentifierType"=>"DOI", "relationType"=>"References")
120
+ end
121
+ end
122
+ end
@@ -0,0 +1,88 @@
1
+ # frozen_string_literal: true
2
+
3
+ require 'spec_helper'
4
+
5
+ describe Briard::Metadata, vcr: true do
6
+ context "write metadata as crossref" do
7
+ it "journal article" do
8
+ input = fixture_path + 'crossref.xml'
9
+ subject = Briard::Metadata.new(input: input)
10
+ expect(subject.valid?).to be true
11
+ expect(subject.doi).to eq("10.7554/elife.01567")
12
+ expect(subject.url).to eq("https://elifesciences.org/articles/01567")
13
+ crossref = Maremma.from_xml(subject.crossref).dig("doi_batch", "body", "journal")
14
+ expect(crossref.dig("journal_metadata", "full_title")).to eq("eLife")
15
+ expect(crossref.dig("journal_article", "doi_data", "doi")).to eq("10.7554/elife.01567")
16
+ end
17
+
18
+ it "posted_content" do
19
+ subject = Briard::Metadata.new(input: "10.1101/2020.12.01.406702")
20
+ expect(subject.valid?).to be true
21
+ expect(subject.doi).to eq("10.1101/2020.12.01.406702")
22
+ expect(subject.url).to eq("http://biorxiv.org/lookup/doi/10.1101/2020.12.01.406702")
23
+ crossref = Maremma.from_xml(subject.crossref).dig("doi_batch", "body", "posted_content")
24
+ expect(crossref.dig("doi_data", "doi")).to eq("10.1101/2020.12.01.406702")
25
+ end
26
+
27
+ it "schema.org from datacite" do
28
+ input = "https://blog.datacite.org/farewell-to-datacite/"
29
+ subject = Briard::Metadata.new(input: input, from: "schema_org")
30
+ expect(subject.valid?).to be true
31
+ expect(subject.doi).to eq("10.5438/zx3k-3923")
32
+ expect(subject.url).to eq("https://blog.datacite.org/farewell-to-datacite")
33
+ expect(subject.types["schemaOrg"]).to eq("BlogPosting")
34
+ expect(subject.types["resourceTypeGeneral"]).to eq("Preprint")
35
+ expect(subject.types["ris"]).to eq("GEN")
36
+ expect(subject.types["citeproc"]).to eq("post-weblog")
37
+ expect(subject.container).to eq("title"=>"DataCite Blog", "type"=>"Blog")
38
+ expect(subject.titles).to eq([{"title"=>"Farewell to DataCite"}])
39
+ expect(subject.rights_list).to eq([{"rights"=>"Creative Commons Attribution 4.0 International", "rightsUri"=>"https://creativecommons.org/licenses/by/4.0/legalcode", "rightsIdentifier"=>"cc-by-4.0", "rightsIdentifierScheme"=>"SPDX", "schemeUri"=>"https://spdx.org/licenses/"}])
40
+ crossref = Maremma.from_xml(subject.crossref).dig("doi_batch", "body", "posted_content")
41
+ expect(crossref.dig("titles", "title")).to eq("Farewell to DataCite")
42
+ end
43
+
44
+ it "schema.org from front matter" do
45
+ input = "https://blog.front-matter.io/posts/editorial-by-more-than-200-call-for-emergency-action-to-limit-global-temperature-increases-restore-biodiversity-and-protect-health"
46
+ subject = Briard::Metadata.new(input: input, from: "schema_org")
47
+ expect(subject.valid?).to be true
48
+ expect(subject.doi).to eq("10.53731/r9nqx6h-97aq74v-ag7bw")
49
+ expect(subject.url).to eq("https://blog.front-matter.io/posts/editorial-by-more-than-200-call-for-emergency-action-to-limit-global-temperature-increases-restore-biodiversity-and-protect-health")
50
+ expect(subject.types["schemaOrg"]).to eq("BlogPosting")
51
+ expect(subject.types["resourceTypeGeneral"]).to eq("Preprint")
52
+ expect(subject.types["ris"]).to eq("GEN")
53
+ expect(subject.types["citeproc"]).to eq("post-weblog")
54
+ expect(subject.titles).to eq([{"title"=>"Editorial by more than 200 health journals: Call for emergency action to limit global temperature increases, restore biodiversity, and protect health"}])
55
+ expect(subject.creators).to eq([{"affiliation"=>[],
56
+ "familyName"=>"Fenner",
57
+ "givenName"=>"Martin",
58
+ "name"=>"Fenner, Martin",
59
+ "nameIdentifiers"=>
60
+ [{"nameIdentifier"=>"https://orcid.org/0000-0003-1419-2405",
61
+ "nameIdentifierScheme"=>"ORCID",
62
+ "schemeUri"=>"https://orcid.org"}],
63
+ "nameType"=>"Personal"}])
64
+ expect(subject.subjects).to eq([{"subject"=>"news"}])
65
+ expect(subject.container).to eq("identifier"=>"2749-9952", "identifierType"=>"ISSN", "title"=>"Front Matter", "type"=>"Blog")
66
+ expect(subject.language).to eq("en")
67
+ expect(subject.rights_list).to eq([{"rights"=>"Creative Commons Attribution 4.0 International", "rightsUri"=>"https://creativecommons.org/licenses/by/4.0/legalcode", "rightsIdentifier"=>"cc-by-4.0", "rightsIdentifierScheme"=>"SPDX", "schemeUri"=>"https://spdx.org/licenses/"}])
68
+ crossref = Maremma.from_xml(subject.crossref).dig("doi_batch", "body", "posted_content")
69
+ expect(crossref.dig("titles", "title")).to eq("Editorial by more than 200 health journals: Call for emergency action to limit global temperature increases, restore biodiversity, and protect health")
70
+ end
71
+
72
+ it "embedded schema.org from front matter" do
73
+ input = fixture_path + 'schema_org_front-matter.json'
74
+ subject = Briard::Metadata.new(input: input, from: "schema_org")
75
+ expect(subject.valid?).to be true
76
+ expect(subject.doi).to eq("10.53731/r9nqx6h-97aq74v-ag7bw")
77
+ expect(subject.url).to eq("https://blog.front-matter.io/posts/editorial-by-more-than-200-call-for-emergency-action-to-limit-global-temperature-increases-restore-biodiversity-and-protect-health")
78
+ expect(subject.types["schemaOrg"]).to eq("BlogPosting")
79
+ expect(subject.types["resourceTypeGeneral"]).to eq("Preprint")
80
+ expect(subject.types["ris"]).to eq("GEN")
81
+ expect(subject.types["citeproc"]).to eq("post-weblog")
82
+ expect(subject.container).to eq("identifier"=>"2749-9952", "identifierType"=>"ISSN", "title"=>"Front Matter", "type"=>"Blog")
83
+ expect(subject.titles).to eq([{"title"=>"Editorial by more than 200 health journals: Call for emergency action to limit global temperature increases, restore biodiversity, and protect health"}])
84
+ crossref = Maremma.from_xml(subject.crossref).dig("doi_batch", "body", "posted_content")
85
+ expect(crossref.dig("titles", "title")).to eq("Editorial by more than 200 health journals: Call for emergency action to limit global temperature increases, restore biodiversity, and protect health")
86
+ end
87
+ end
88
+ end
@@ -0,0 +1,94 @@
1
+ # frozen_string_literal: true
2
+
3
+ require 'spec_helper'
4
+
5
+ describe Briard::Metadata, vcr: true do
6
+ context "write metadata as csv" do
7
+ it "with data citation" do
8
+ input = "10.7554/eLife.01567"
9
+ subject = Briard::Metadata.new(input: input, from: "crossref")
10
+ csv = (subject.csv).parse_csv
11
+
12
+ expect(csv[0]).to eq("10.7554/elife.01567")
13
+ expect(csv[1]).to eq("https://elifesciences.org/articles/01567")
14
+ expect(csv[2]).to eq("2018-08-23")
15
+ expect(csv[3]).to eq("findable")
16
+ expect(csv[4]).to eq("JournalArticle")
17
+ expect(csv[5]).to eq("JournalArticle")
18
+ expect(csv[6]).to eq("Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth")
19
+ expect(csv[7]).to eq("Sankar, Martial and Nieminen, Kaisa and Ragni, Laura and Xenarios, Ioannis and Hardtke, Christian S")
20
+ expect(csv[8]).to eq("eLife Sciences Publications, Ltd")
21
+ expect(csv[9]).to eq("2014")
22
+ end
23
+
24
+ it "with pages" do
25
+ input = "https://doi.org/10.1155/2012/291294"
26
+ subject = Briard::Metadata.new(input: input, from: "crossref")
27
+ csv = (subject.csv).parse_csv
28
+
29
+ expect(csv[0]).to eq("10.1155/2012/291294")
30
+ expect(csv[1]).to eq("http://www.hindawi.com/journals/pm/2012/291294/")
31
+ expect(csv[2]).to eq("2016-08-02")
32
+ expect(csv[3]).to eq("findable")
33
+ expect(csv[4]).to eq("JournalArticle")
34
+ expect(csv[5]).to eq("JournalArticle")
35
+ expect(csv[6]).to eq("Delineating a Retesting Zone Using Receiver Operating Characteristic Analysis on Serial QuantiFERON Tuberculosis Test Results in US Healthcare Workers")
36
+ expect(csv[7]).to eq("Thanassi, Wendy and Noda, Art and Hernandez, Beatriz and Newell, Jeffery and Terpeluk, Paul and Marder, David and Yesavage, Jerome A.")
37
+ expect(csv[8]).to eq("Hindawi Limited")
38
+ expect(csv[9]).to eq("2012")
39
+ end
40
+
41
+ it "text" do
42
+ input = "https://doi.org/10.3204/desy-2014-01645"
43
+ subject = Briard::Metadata.new(input: input, from: "datacite")
44
+
45
+ expect(subject.valid?).to be true
46
+ csv = (subject.csv).parse_csv
47
+
48
+ expect(csv[0]).to eq("10.3204/desy-2014-01645")
49
+ expect(csv[1]).to eq("http://bib-pubdb1.desy.de/record/166827")
50
+ expect(csv[2]).to eq("2018-01-25")
51
+ expect(csv[3]).to eq("findable")
52
+ expect(csv[4]).to eq("Text")
53
+ expect(csv[5]).to eq("Dissertation")
54
+ expect(csv[6]).to eq("Dynamics of colloids in molecular glass forming liquids studied via X-ray photon correlation spectroscopy")
55
+ expect(csv[7]).to eq("Conrad, Heiko")
56
+ expect(csv[9]).to eq("2014")
57
+ end
58
+
59
+ it "climate data" do
60
+ input = "https://doi.org/10.5067/altcy-tj122"
61
+ subject = Briard::Metadata.new(input: input, from: "datacite")
62
+ expect(subject.valid?).to be true
63
+ csv = (subject.csv).parse_csv
64
+
65
+ expect(csv[0]).to eq("10.5067/altcy-tj122")
66
+ expect(csv[1]).to eq("http://podaac.jpl.nasa.gov/dataset/MERGED_TP_J1_OSTM_OST_CYCLES_V2")
67
+ expect(csv[2]).to eq("2014-01-15")
68
+ expect(csv[3]).to eq("findable")
69
+ expect(csv[4]).to eq("Dataset")
70
+ expect(csv[5]).to eq("Dataset")
71
+ expect(csv[6]).to eq("Integrated Multi-Mission Ocean Altimeter Data for Climate Research Version 2")
72
+ expect(csv[7]).to eq("{GSFC}")
73
+ expect(csv[8]).to eq("NASA Physical Oceanography DAAC")
74
+ expect(csv[9]).to eq("2012")
75
+ end
76
+
77
+ it "maremma" do
78
+ input = "https://github.com/datacite/maremma"
79
+ subject = Briard::Metadata.new(input: input, from: "codemeta")
80
+ csv = (subject.csv).parse_csv
81
+
82
+ expect(csv[0]).to eq("10.5438/qeg0-3gm3")
83
+ expect(csv[1]).to eq("https://github.com/datacite/maremma")
84
+ expect(csv[2]).to be_nil
85
+ expect(csv[3]).to eq("findable")
86
+ expect(csv[4]).to eq("Software")
87
+ expect(csv[5]).to be_nil
88
+ expect(csv[6]).to eq("Maremma: a Ruby library for simplified network calls")
89
+ expect(csv[7]).to eq("Fenner, Martin")
90
+ expect(csv[8]).to eq("DataCite")
91
+ expect(csv[9]).to eq("2017")
92
+ end
93
+ end
94
+ end
@@ -0,0 +1,90 @@
1
+ # frozen_string_literal: true
2
+
3
+ require 'spec_helper'
4
+
5
+ describe Briard::Metadata, vcr: true do
6
+ context "write metadata as datacite json" do
7
+ it "with data citation" do
8
+ input = "10.7554/eLife.01567"
9
+ subject = Briard::Metadata.new(input: input, from: "crossref")
10
+ datacite = JSON.parse(subject.datacite_json)
11
+ expect(datacite.fetch("url")).to eq("https://elifesciences.org/articles/01567")
12
+ expect(datacite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"article-journal", "resourceType"=>"JournalArticle", "resourceTypeGeneral"=>"JournalArticle", "ris"=>"JOUR", "schemaOrg"=>"ScholarlyArticle")
13
+ expect(datacite.fetch("titles")).to eq([{"title"=>"Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth"}])
14
+ expect(datacite.fetch("relatedIdentifiers").length).to eq(27)
15
+ expect(datacite.fetch("relatedIdentifiers").first).to eq("relatedIdentifier"=>"2050-084X", "relatedIdentifierType"=>"ISSN", "relationType"=>"IsPartOf", "resourceTypeGeneral"=>"Collection")
16
+ expect(datacite.fetch("rightsList")).to eq([{"rights"=>"Creative Commons Attribution 3.0 Unported",
17
+ "rightsIdentifier"=>"cc-by-3.0",
18
+ "rightsIdentifierScheme"=>"SPDX",
19
+ "rightsUri"=>"https://creativecommons.org/licenses/by/3.0/legalcode",
20
+ "schemeUri"=>"https://spdx.org/licenses/"}])
21
+ end
22
+
23
+ it "with ORCID ID" do
24
+ input = "https://doi.org/10.1155/2012/291294"
25
+ subject = Briard::Metadata.new(input: input, from: "crossref")
26
+ datacite = JSON.parse(subject.datacite_json)
27
+ expect(datacite.fetch("url")).to eq("http://www.hindawi.com/journals/pm/2012/291294/")
28
+ expect(datacite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"article-journal", "resourceType"=>"JournalArticle", "resourceTypeGeneral"=>"JournalArticle", "ris"=>"JOUR", "schemaOrg"=>"ScholarlyArticle")
29
+ expect(datacite.fetch("creators").length).to eq(7)
30
+ expect(datacite.fetch("creators").first).to eq("nameType"=>"Personal", "name"=>"Thanassi, Wendy", "givenName"=>"Wendy", "familyName"=>"Thanassi", "affiliation" => [{"name"=>"Department of Medicine, Veterans Affairs Palo Alto Health Care System, 3801 Miranda Avenue MC-, Palo Alto, CA 94304-1207, USA"}, {"name"=>"Occupational Health Strategic Health Care Group, Office of Public Health, Veterans Health Administration, Washington, DC 20006, USA"}, {"name"=>"Division of Emergency Medicine, Stanford University School of Medicine, Stanford, CA 94304, USA"}, {"name"=>"War Related Illness and Injury Study Center (WRIISC) and Mental Illness Research Education and Clinical Center (MIRECC), Department of Veterans Affairs, Palo Alto, CA 94304, USA"}])
31
+ end
32
+
33
+ it "Crossref DOI" do
34
+ input = fixture_path + "crossref.bib"
35
+ subject = Briard::Metadata.new(input: input, from: "bibtex")
36
+ datacite = JSON.parse(subject.datacite_json)
37
+ expect(datacite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"article-journal", "resourceType"=>"JournalArticle", "resourceTypeGeneral"=>"JournalArticle", "ris"=>"JOUR", "schemaOrg"=>"ScholarlyArticle")
38
+ expect(datacite.fetch("titles")).to eq([{"title"=>"Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth"}])
39
+ expect(datacite.dig("descriptions", 0, "description")).to start_with("Among various advantages, their small size makes model organisms preferred subjects of investigation.")
40
+ expect(datacite.fetch("creators").length).to eq(5)
41
+ expect(datacite.fetch("creators").first).to eq("nameType"=>"Personal", "name"=>"Sankar, Martial", "givenName"=>"Martial", "familyName"=>"Sankar")
42
+ end
43
+
44
+ it "BlogPosting Citeproc JSON" do
45
+ input = fixture_path + "citeproc.json"
46
+ subject = Briard::Metadata.new(input: input, from: "citeproc")
47
+ datacite = JSON.parse(subject.datacite_json)
48
+ expect(datacite.fetch("types")).to eq("bibtex"=>"article", "citeproc"=>"post-weblog", "resourceTypeGeneral"=>"Text", "ris"=>"GEN", "schemaOrg"=>"BlogPosting")
49
+ expect(datacite.fetch("titles")).to eq([{"title"=>"Eating your own Dog Food"}])
50
+ expect(datacite.dig("descriptions", 0, "description")).to start_with("Eating your own dog food")
51
+ expect(datacite.fetch("creators")).to eq([{"familyName"=>"Fenner", "givenName"=>"Martin", "name"=>"Fenner, Martin"}])
52
+ end
53
+
54
+ it "rdataone" do
55
+ input = fixture_path + 'codemeta.json'
56
+ subject = Briard::Metadata.new(input: input, from: "codemeta")
57
+ datacite = JSON.parse(subject.datacite_json)
58
+ expect(datacite.fetch("titles")).to eq([{"title"=>"R Interface to the DataONE REST API"}])
59
+ expect(datacite.fetch("creators").length).to eq(3)
60
+ expect(datacite.fetch("creators").first).to eq("affiliation"=>[{"name"=>"NCEAS"}], "nameType"=>"Personal", "name" => "Jones, Matt",
61
+ "nameIdentifiers" => [{"nameIdentifier"=>"https://orcid.org/0000-0003-0077-4738", "nameIdentifierScheme"=>"ORCID", "schemeUri"=>"https://orcid.org"}], "givenName"=>"Matt", "familyName"=>"Jones")
62
+ expect(datacite.fetch("version")).to eq("2.0.0")
63
+ end
64
+
65
+ it "maremma" do
66
+ input = "https://github.com/datacite/maremma"
67
+ subject = Briard::Metadata.new(input: input, from: "codemeta")
68
+ datacite = JSON.parse(subject.datacite_json)
69
+ expect(datacite.fetch("titles")).to eq([{"title"=>"Maremma: a Ruby library for simplified network calls"}])
70
+ expect(datacite.fetch("creators")).to eq([{"affiliation"=>[{"name"=>"DataCite"}],
71
+ "familyName"=>"Fenner",
72
+ "givenName"=>"Martin",
73
+ "name"=>"Fenner, Martin",
74
+ "nameIdentifiers"=>
75
+ [{"nameIdentifier"=>"https://orcid.org/0000-0003-0077-4738",
76
+ "nameIdentifierScheme"=>"ORCID", "schemeUri"=>"https://orcid.org"}],
77
+ "nameType"=>"Personal"}])
78
+ end
79
+
80
+ it "with data citation schema.org" do
81
+ input = "https://blog.datacite.org/eating-your-own-dog-food/"
82
+ subject = Briard::Metadata.new(input: input, from: "schema_org")
83
+ expect(subject.valid?).to be true
84
+ datacite = JSON.parse(subject.datacite_json)
85
+ expect(datacite.fetch("titles")).to eq([{"title"=>"Eating your own Dog Food"}])
86
+ expect(datacite.fetch("relatedIdentifiers").count).to eq(3)
87
+ expect(datacite.fetch("relatedIdentifiers").first).to eq("relatedIdentifier"=>"10.5438/0000-00ss", "relatedIdentifierType"=>"DOI", "relationType"=>"IsPartOf", "resourceTypeGeneral"=>"Text")
88
+ end
89
+ end
90
+ end