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 +1,119 @@
1
+ # frozen_string_literal: true
2
+
3
+ module Briard
4
+ module Readers
5
+ module CiteprocReader
6
+ CP_TO_SO_TRANSLATIONS = {
7
+ "song" => "AudioObject",
8
+ "post-weblog" => "BlogPosting",
9
+ "dataset" => "Dataset",
10
+ "graphic" => "ImageObject",
11
+ "motion_picture" => "Movie",
12
+ "article-journal" => "ScholarlyArticle",
13
+ "broadcast" => "VideoObject",
14
+ "webpage" => "WebPage"
15
+ }
16
+
17
+ CP_TO_RIS_TRANSLATIONS = {
18
+ "post-weblog" => "BLOG",
19
+ "dataset" => "DATA",
20
+ "graphic" => "FIGURE",
21
+ "book" => "BOOK",
22
+ "motion_picture" => "MPCT",
23
+ "article-journal" => "JOUR",
24
+ "broadcast" => "MPCT",
25
+ "webpage" => "ELEC"
26
+ }
27
+
28
+ def read_citeproc(string: nil, **options)
29
+ if string.present?
30
+ errors = jsonlint(string)
31
+ return { "errors" => errors } if errors.present?
32
+ end
33
+
34
+ read_options = ActiveSupport::HashWithIndifferentAccess.new(options.except(:doi, :id, :url, :sandbox, :validate, :ra))
35
+
36
+ meta = string.present? ? Maremma.from_json(string) : {}
37
+
38
+ citeproc_type = meta.fetch("type", nil)
39
+ schema_org = CP_TO_SO_TRANSLATIONS[citeproc_type] || "CreativeWork"
40
+ types = {
41
+ "resourceTypeGeneral" => Briard::Utils::CP_TO_DC_TRANSLATIONS[citeproc_type],
42
+ "reourceType" => meta.fetch("additionalType", nil),
43
+ "schemaOrg" => schema_org,
44
+ "citeproc" => citeproc_type,
45
+ "bibtex" => Briard::Utils::SO_TO_BIB_TRANSLATIONS[schema_org] || "misc",
46
+ "ris" => CP_TO_RIS_TRANSLATIONS[schema_org] || "GEN"
47
+ }.compact
48
+
49
+ creators = if meta.fetch("author", nil).present?
50
+ get_authors(from_citeproc(Array.wrap(meta.fetch("author", nil))))
51
+ else
52
+ [{ "nameType" => "Organizational", "name" => ":(unav)" }]
53
+ end
54
+ contributors = get_authors(from_citeproc(Array.wrap(meta.fetch("editor", nil))))
55
+ dates = if date = get_date_from_date_parts(meta.fetch("issued", nil))
56
+ if Date.edtf(date).present?
57
+ [{ "date" => date,
58
+ "dateType" => "Issued" }]
59
+ end
60
+ end
61
+ publication_year = get_date_from_date_parts(meta.fetch("issued", nil)).to_s[0..3]
62
+ rights_list = if meta.fetch("copyright", nil)
63
+ [hsh_to_spdx("rightsURI" => meta.fetch("copyright"))]
64
+ end
65
+ related_identifiers = if meta.fetch("container-title", nil).present? && meta.fetch("ISSN", nil).present?
66
+ [{ "type" => "Periodical",
67
+ "relationType" => "IsPartOf",
68
+ "relatedIdentifierType" => "ISSN",
69
+ "title" => meta.fetch("container-title", nil),
70
+ "relatedIdentifier" => meta.fetch("ISSN", nil) }.compact]
71
+ end
72
+ container = if meta.fetch("container-title", nil).present?
73
+ first_page = meta.fetch("page", nil).present? ? meta.fetch("page").split("-").map(&:strip)[0] : nil
74
+ last_page = meta.fetch("page", nil).present? ? meta.fetch("page").split("-").map(&:strip)[1] : nil
75
+
76
+ { "type" => "Periodical",
77
+ "title" => meta.fetch("container-title", nil),
78
+ "identifier" => meta.fetch("ISSN", nil),
79
+ "identifierType" => meta.fetch("ISSN", nil).present? ? "ISSN" : nil,
80
+ "volume" => meta.fetch("volume", nil),
81
+ "issue" => meta.fetch("issue", nil),
82
+ "firstPage" => first_page,
83
+ "lastPage" => last_page
84
+ }.compact
85
+ else
86
+ nil
87
+ end
88
+
89
+ id = normalize_id(meta.fetch("id", nil) || meta.fetch("DOI", nil))
90
+
91
+ state = id.present? || read_options.present? ? "findable" : "not_found"
92
+ subjects = Array.wrap(meta.fetch("categories", nil)).reduce([]) do |sum, subject|
93
+ sum += name_to_fos(subject)
94
+
95
+ sum
96
+ end
97
+
98
+ { "id" => id,
99
+ "types" => types,
100
+ "doi" => doi_from_url(id),
101
+ "url" => normalize_id(meta.fetch("URL", nil)),
102
+ "titles" => [{ "title" => meta.fetch("title", nil) }],
103
+ "creators" => creators,
104
+ "contributors" => contributors,
105
+ "container" => container,
106
+ "publisher" => meta.fetch("publisher", nil),
107
+ "related_identifiers" => related_identifiers,
108
+ "dates" => dates,
109
+ "publication_year" => publication_year,
110
+ "descriptions" => meta.fetch("abstract", nil).present? ? [{ "description" => sanitize(meta.fetch("abstract")), "descriptionType" => "Abstract" }] : [],
111
+ "rights_list" => rights_list,
112
+ "version_info" => meta.fetch("version", nil),
113
+ "subjects" => subjects,
114
+ "state" => state
115
+ }.merge(read_options)
116
+ end
117
+ end
118
+ end
119
+ end
@@ -0,0 +1,108 @@
1
+ # frozen_string_literal: true
2
+
3
+ module Briard
4
+ module Readers
5
+ module CodemetaReader
6
+ def get_codemeta(id: nil, **options)
7
+ return { "string" => nil, "state" => "not_found" } unless id.present?
8
+ id = normalize_id(id)
9
+ response = Maremma.get(github_as_codemeta_url(id), accept: "json", raw: true)
10
+ string = response.body.fetch("data", nil)
11
+
12
+ { "string" => string }
13
+ end
14
+
15
+ def read_codemeta(string: nil, **options)
16
+ if string.present?
17
+ errors = jsonlint(string)
18
+ return { "errors" => errors } if errors.present?
19
+ end
20
+
21
+ read_options = ActiveSupport::HashWithIndifferentAccess.new(options.except(:doi, :id, :url, :sandbox, :validate, :ra))
22
+
23
+ meta = string.present? ? Maremma.from_json(string) : {}
24
+
25
+ identifiers = Array.wrap(meta.fetch("identifier", nil)).map do |r|
26
+ r = normalize_id(r) if r.is_a?(String)
27
+ if r.is_a?(String) && !r.start_with?("https://doi.org")
28
+ { "identifierType" => "URL", "identifier" => r }
29
+ elsif r.is_a?(Hash)
30
+ { "identifierType" => get_identifier_type(r["propertyID"]), "identifier" => r["value"] }
31
+ end
32
+ end.compact.uniq
33
+
34
+ id = normalize_id(options[:doi] || meta.fetch("@id", nil) || meta.fetch("identifier", nil))
35
+
36
+ has_agents = meta.fetch("agents", nil)
37
+ authors = has_agents.nil? ? meta.fetch("authors", nil) : has_agents
38
+ creators = get_authors(from_schema_org_creators(Array.wrap(authors)))
39
+
40
+ contributors = get_authors(from_schema_org_contributors(Array.wrap(meta.fetch("editor", nil))))
41
+ dates = []
42
+ dates << { "date" => meta.fetch("datePublished"), "dateType" => "Issued" } if meta.fetch("datePublished", nil).present?
43
+ dates << { "date" => meta.fetch("dateCreated"), "dateType" => "Created" } if meta.fetch("dateCreated", nil).present?
44
+ dates << { "date" => meta.fetch("dateModified"), "dateType" => "Updated" } if meta.fetch("dateModified", nil).present?
45
+ publication_year = meta.fetch("datePublished")[0..3] if meta.fetch("datePublished", nil).present?
46
+ publisher = meta.fetch("publisher", nil)
47
+ state = meta.present? || read_options.present? ? "findable" : "not_found"
48
+ schema_org = meta.fetch("@type", nil)
49
+ types = {
50
+ "resourceTypeGeneral" => Briard::Utils::SO_TO_DC_TRANSLATIONS[schema_org],
51
+ "resourceType" => meta.fetch("additionalType", nil),
52
+ "schemaOrg" => schema_org,
53
+ "citeproc" => Briard::Utils::SO_TO_CP_TRANSLATIONS[schema_org] || "article-journal",
54
+ "bibtex" => Briard::Utils::SO_TO_BIB_TRANSLATIONS[schema_org] || "misc",
55
+ "ris" => Briard::Utils::SO_TO_RIS_TRANSLATIONS[schema_org] || "GEN"
56
+ }.compact
57
+ subjects = Array.wrap(meta.fetch("tags", nil)).reduce([]) do |sum, subject|
58
+ sum += name_to_fos(subject)
59
+
60
+ sum
61
+ end
62
+
63
+ has_title = meta.fetch("title", nil)
64
+ titles = has_title.nil? ? [{ "title" => meta.fetch("name", nil) }] : [{ "title" => has_title }]
65
+ rights_list = meta.fetch("licenseId", nil).present? ? [hsh_to_spdx("rightsIdentifier" => meta.fetch("licenseId"))] : nil
66
+
67
+ { "id" => id,
68
+ "types" => types,
69
+ "identifiers" => identifiers,
70
+ "doi" => doi_from_url(id),
71
+ "url" => normalize_id(meta.fetch("codeRepository", nil)),
72
+ "titles" => titles,
73
+ "creators" => creators,
74
+ "contributors" => contributors,
75
+ "publisher" => publisher,
76
+ #{}"is_part_of" => is_part_of,
77
+ "dates" => dates,
78
+ "publication_year" => publication_year,
79
+ "descriptions" => meta.fetch("description", nil).present? ? [{ "description" => sanitize(meta.fetch("description")), "descriptionType" => "Abstract" }] : nil,
80
+ "rights_list" => rights_list,
81
+ "version_info" => meta.fetch("version", nil),
82
+ "subjects" => subjects,
83
+ "state" => state
84
+ }.merge(read_options)
85
+ end
86
+
87
+ # def related_identifiers(relation_type)
88
+ # normalize_ids(ids: metadata.fetch(relation_type, nil), relation_type: relation_type)
89
+ # end
90
+ #
91
+ # def same_as
92
+ # related_identifiers("isIdenticalTo")
93
+ # end
94
+ #
95
+ # def is_part_of
96
+ # related_identifiers("isPartOf")
97
+ # end
98
+ #
99
+ # def has_part
100
+ # related_identifiers("hasPart")
101
+ # end
102
+ #
103
+ # def citation
104
+ # related_identifiers("citation")
105
+ # end
106
+ end
107
+ end
108
+ end
@@ -0,0 +1,14 @@
1
+ # frozen_string_literal: true
2
+
3
+ module Briard
4
+ module Readers
5
+ module CrossciteReader
6
+ def read_crosscite(string: nil, **options)
7
+ errors = jsonlint(string)
8
+ return { "errors" => errors } if errors.present?
9
+
10
+ string.present? ? Maremma.from_json(string) : {}
11
+ end
12
+ end
13
+ end
14
+ end
@@ -0,0 +1,368 @@
1
+ # frozen_string_literal: true
2
+
3
+ module Briard
4
+ module Readers
5
+ module CrossrefReader
6
+ # CrossRef types from https://api.crossref.org/types
7
+ def get_crossref(id: nil, **options)
8
+ return { "string" => nil, "state" => "not_found" } unless id.present?
9
+
10
+ doi = doi_from_url(id)
11
+ url = "https://api.crossref.org/works/#{doi}/transform/application/vnd.crossref.unixsd+xml"
12
+ response = Maremma.get(url, accept: "text/xml;charset=utf-8", raw: true)
13
+ string = response.body.fetch("data", nil)
14
+ string = Nokogiri::XML(string, nil, 'UTF-8', &:noblanks).to_s if string.present?
15
+
16
+ { "string" => string }
17
+ end
18
+
19
+ def read_crossref(string: nil, **options)
20
+ read_options = ActiveSupport::HashWithIndifferentAccess.new(options.except(:doi, :id, :url, :sandbox, :validate, :ra))
21
+
22
+ if string.present?
23
+ m = Maremma.from_xml(string).dig("crossref_result", "query_result", "body", "query", "doi_record") || {}
24
+ meta = m.dig("doi_record", "crossref", "error").nil? ? m : {}
25
+
26
+ # query contains information from outside metadata schema, e.g. publisher name
27
+ query = Maremma.from_xml(string).dig("crossref_result", "query_result", "body", "query") || {}
28
+ else
29
+ meta = {}
30
+ query = {}
31
+ end
32
+
33
+ # model should be one of book, conference, database, dissertation, journal, peer_review, posted_content,
34
+ # report_paper, sa_component, standard
35
+ model = meta.dig("crossref").to_h.keys.last
36
+
37
+ resource_type = nil
38
+ bibliographic_metadata = {}
39
+ program_metadata = {}
40
+ journal_metadata = nil
41
+ journal_issue = {}
42
+ journal_metadata = nil
43
+ publisher = query.dig("crm_item", 0)
44
+ publisher = nil unless publisher.is_a?(String)
45
+
46
+ case model
47
+ when "book"
48
+ book_metadata = meta.dig("crossref", "book", "book_metadata")
49
+ book_series_metadata = meta.dig("crossref", "book", "book_series_metadata")
50
+ book_set_metadata = meta.dig("crossref", "book", "book_set_metadata")
51
+ bibliographic_metadata = meta.dig("crossref", "book", "content_item") || book_metadata || book_series_metadata || book_set_metadata
52
+ resource_type = bibliographic_metadata.fetch("component_type", nil) ? "book-" + bibliographic_metadata.fetch("component_type") : "book"
53
+ # publisher = if book_metadata.present?
54
+ # book_metadata.dig("publisher", "publisher_name")
55
+ # elsif book_series_metadata.present?
56
+ # book_series_metadata.dig("publisher", "publisher_name")
57
+ # end
58
+ when "conference"
59
+ event_metadata = meta.dig("crossref", "conference", "event_metadata") || {}
60
+ bibliographic_metadata = meta.dig("crossref", "conference", "conference_paper").to_h
61
+ when "journal"
62
+ journal_metadata = meta.dig("crossref", "journal", "journal_metadata") || {}
63
+ journal_issue = meta.dig("crossref", "journal", "journal_issue") || {}
64
+ journal_article = meta.dig("crossref", "journal", "journal_article") || {}
65
+ bibliographic_metadata = journal_article.presence || journal_issue.presence || journal_metadata
66
+ program_metadata = bibliographic_metadata.dig("crossmark", "custom_metadata", "program") || bibliographic_metadata.dig("program")
67
+ resource_type = if journal_article.present?
68
+ "journal_article"
69
+ elsif journal_issue.present?
70
+ "journal_issue"
71
+ else
72
+ "journal"
73
+ end
74
+ when "posted_content"
75
+ bibliographic_metadata = meta.dig("crossref", "posted_content").to_h
76
+ publisher ||= bibliographic_metadata.dig("institution", "institution_name")
77
+ when "sa_component"
78
+ bibliographic_metadata = meta.dig("crossref", "sa_component", "component_list", "component").to_h
79
+ related_identifier = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "relation" }
80
+ journal_metadata = { "relatedIdentifier" => related_identifier.to_h.fetch("__content", nil) }
81
+ when "database"
82
+ bibliographic_metadata = meta.dig("crossref", "database", "dataset").to_h
83
+ resource_type = "dataset"
84
+ when "report_paper"
85
+ bibliographic_metadata = meta.dig("crossref", "report_paper", "report_paper_metadata").to_h
86
+ resource_type = "report"
87
+ when "peer_review"
88
+ bibliographic_metadata = meta.dig("crossref", "peer_review")
89
+ when "dissertation"
90
+ bibliographic_metadata = meta.dig("crossref", "dissertation")
91
+ end
92
+
93
+ resource_type = (resource_type || model).to_s.underscore.camelcase.presence
94
+ schema_org = Briard::Utils::CR_TO_SO_TRANSLATIONS[resource_type] || "ScholarlyArticle"
95
+ types = {
96
+ "resourceTypeGeneral" => Briard::Utils::CR_TO_DC_TRANSLATIONS[resource_type],
97
+ "resourceType" => resource_type,
98
+ "schemaOrg" => schema_org,
99
+ "citeproc" => Briard::Utils::CR_TO_CP_TRANSLATIONS[resource_type] || "article-journal",
100
+ "bibtex" => Briard::Utils::CR_TO_BIB_TRANSLATIONS[resource_type] || "misc",
101
+ "ris" => Briard::Utils::CR_TO_RIS_TRANSLATIONS[resource_type] || "JOUR"
102
+ }.compact
103
+
104
+ titles = if bibliographic_metadata.dig("titles").present?
105
+ Array.wrap(bibliographic_metadata.dig("titles")).map do |r|
106
+ if r.blank? || (r["title"].blank? && r["original_language_title"].blank?)
107
+ nil
108
+ elsif r["title"].is_a?(String)
109
+ { "title" => sanitize(r["title"]) }
110
+ elsif r["original_language_title"].present?
111
+ { "title" => sanitize(r.dig("original_language_title", "__content__")), "lang" => r.dig("original_language_title", "language") }
112
+ else
113
+ { "title" => sanitize(r.dig("title", "__content__")) }.compact
114
+ end
115
+ end.compact
116
+ else
117
+ [{ "title" => ":(unav)" }]
118
+ end
119
+
120
+ date_published = crossref_date_published(bibliographic_metadata)
121
+ if date_published.present?
122
+ date_published = { "date" => date_published, "dateType" => "Issued" }
123
+ else
124
+ date_published = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "created" }
125
+ date_published = { "date" => date_published.fetch("__content__", "")[0..9], "dateType" => "Issued" } if date_published.present?
126
+ end
127
+ date_updated = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "last-update" }
128
+ date_updated = { "date" => date_updated.fetch("__content__", nil), "dateType" => "Updated" } if date_updated.present?
129
+
130
+ date_registered = Array.wrap(query.to_h["crm_item"]).find { |cr| cr["name"] == "deposit-timestamp" }
131
+ date_registered = get_datetime_from_time(date_registered.fetch("__content__", nil)) if date_registered.present?
132
+
133
+ # check that date is valid iso8601 date
134
+ date_published = nil unless Date.edtf(date_published.to_h["date"]).present?
135
+ date_updated = nil unless Date.edtf(date_updated.to_h["date"]).present?
136
+
137
+ dates = [date_published, date_updated].compact
138
+ publication_year = date_published.to_h.fetch("date", "")[0..3].presence
139
+
140
+ state = meta.present? || read_options.present? ? "findable" : "not_found"
141
+
142
+ related_identifiers = Array.wrap(crossref_is_part_of(journal_metadata)) + Array.wrap(crossref_references(bibliographic_metadata))
143
+
144
+ container = if journal_metadata.present?
145
+ issn = normalize_issn(journal_metadata.to_h.fetch("issn", nil))
146
+
147
+ { "type" => "Journal",
148
+ "identifier" => issn,
149
+ "identifierType" => issn.present? ? "ISSN" : nil,
150
+ "title" => parse_attributes(journal_metadata.to_h["full_title"]),
151
+ "volume" => parse_attributes(journal_issue.dig("journal_volume", "volume")),
152
+ "issue" => parse_attributes(journal_issue.dig("issue")),
153
+ "firstPage" => bibliographic_metadata.dig("pages", "first_page") || parse_attributes(journal_article.to_h.dig("publisher_item", "item_number"), first: true),
154
+ "lastPage" => bibliographic_metadata.dig("pages", "last_page") }.compact
155
+
156
+ # By using book_metadata, we can account for where resource_type is `BookChapter` and not assume its a whole book
157
+ elsif book_metadata.present?
158
+ identifiers = crossref_alternate_identifiers(book_metadata)
159
+
160
+ {
161
+ "type" => "Book",
162
+ "title" => book_metadata.dig("titles", "title"),
163
+ "firstPage" => bibliographic_metadata.dig("pages", "first_page"),
164
+ "lastPage" => bibliographic_metadata.dig("pages", "last_page"),
165
+ "identifiers" => identifiers,
166
+ }.compact
167
+
168
+ elsif book_series_metadata.to_h.fetch("series_metadata", nil).present?
169
+ issn = normalize_issn(book_series_metadata.dig("series_metadata", "issn"))
170
+
171
+ { "type" => "Book Series",
172
+ "identifier" => issn,
173
+ "identifierType" => issn.present? ? "ISSN" : nil,
174
+ "title" => book_series_metadata.dig("series_metadata", "titles", "title"),
175
+ "volume" => bibliographic_metadata.fetch("volume", nil) }.compact
176
+ end
177
+
178
+ id = normalize_doi(options[:doi] || options[:id] || bibliographic_metadata.dig("doi_data", "doi"))
179
+
180
+ # Let sections override this in case of alternative metadata structures, such as book chapters, which
181
+ # have their meta inside `content_item`, but the main book indentifers inside of `book_metadata`
182
+ identifiers ||= crossref_alternate_identifiers(bibliographic_metadata)
183
+
184
+ { "id" => id,
185
+ "types" => types,
186
+ "doi" => doi_from_url(id),
187
+ "url" => parse_attributes(bibliographic_metadata.dig("doi_data", "resource"), first: true),
188
+ "titles" => titles,
189
+ "identifiers" => identifiers,
190
+ "creators" => crossref_people(bibliographic_metadata, "author"),
191
+ "contributors" => crossref_people(bibliographic_metadata, "editor"),
192
+ "funding_references" => crossref_funding_reference(program_metadata),
193
+ "publisher" => publisher,
194
+ "container" => container,
195
+ "agency" => agency = options[:ra] || "crossref",
196
+ "related_identifiers" => related_identifiers,
197
+ "dates" => dates,
198
+ "publication_year" => publication_year,
199
+ "descriptions" => crossref_description(bibliographic_metadata),
200
+ "rights_list" => crossref_license(program_metadata),
201
+ "version_info" => nil,
202
+ "subjects" => nil,
203
+ "language" => nil,
204
+ "sizes" => nil,
205
+ "schema_version" => "http://datacite.org/schema/kernel-4",
206
+ "state" => state,
207
+ "date_registered" => date_registered
208
+ }.merge(read_options)
209
+ end
210
+
211
+ def crossref_alternate_identifiers(bibliographic_metadata)
212
+ if bibliographic_metadata.dig("publisher_item", "item_number").present?
213
+ Array.wrap(bibliographic_metadata.dig("publisher_item", "item_number")).map do |item|
214
+ if item.is_a?(String)
215
+ { "identifier" => item,
216
+ "identifierType" => "Publisher ID" }
217
+ else
218
+ { "identifier" => item.fetch("__content__", nil),
219
+ "identifierType" => item.fetch("item_number_type", nil) || "Publisher ID" }
220
+ end
221
+ end
222
+ elsif parse_attributes(bibliographic_metadata.fetch("item_number", nil)).present?
223
+ [{ "identifier" => parse_attributes(bibliographic_metadata.fetch("item_number", nil)),
224
+ "identifierType" => parse_attributes(bibliographic_metadata.dig("item_number", "item_number_type")) || "Publisher ID" }]
225
+ elsif parse_attributes(bibliographic_metadata.fetch("isbn", nil)).present?
226
+ [{ "identifier" => parse_attributes(bibliographic_metadata.fetch("isbn", nil), first: true),
227
+ "identifierType" => "ISBN" }]
228
+ else
229
+ []
230
+ end
231
+ end
232
+
233
+ def crossref_description(bibliographic_metadata)
234
+ abstract = Array.wrap(bibliographic_metadata.dig("abstract")).map do |r|
235
+ { "descriptionType" => "Abstract", "description" => sanitize(parse_attributes(r, content: 'p')) }.compact
236
+ end
237
+
238
+ description = Array.wrap(bibliographic_metadata.dig("description")).map do |r|
239
+ { "descriptionType" => "Other", "description" => sanitize(parse_attributes(r)) }.compact
240
+ end
241
+
242
+ (abstract + description)
243
+ end
244
+
245
+ def crossref_license(program_metadata)
246
+ access_indicator = Array.wrap(program_metadata).find { |m| m["name"] == "AccessIndicators" }
247
+ if access_indicator.present?
248
+ Array.wrap(access_indicator["license_ref"]).map do |license|
249
+ hsh_to_spdx("rightsURI" => parse_attributes(license))
250
+ end.uniq
251
+ else
252
+ []
253
+ end
254
+ end
255
+
256
+ def crossref_people(bibliographic_metadata, contributor_role)
257
+ person = bibliographic_metadata.dig("contributors", "person_name") || bibliographic_metadata.dig("person_name")
258
+ organization = Array.wrap(bibliographic_metadata.dig("contributors", "organization"))
259
+ 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?
260
+
261
+ (Array.wrap(person) + Array.wrap(organization)).select { |a| a["contributor_role"] == contributor_role }.map do |a|
262
+ name_identifiers = normalize_orcid(parse_attributes(a["ORCID"])).present? ? [{ "nameIdentifier" => normalize_orcid(parse_attributes(a["ORCID"])), "nameIdentifierScheme" => "ORCID", "schemeUri"=>"https://orcid.org" }] : nil
263
+ if a["surname"].present? || a["given_name"].present? || name_identifiers.present?
264
+ given_name = parse_attributes(a["given_name"])
265
+ family_name = parse_attributes(a["surname"])
266
+ affiliation = Array.wrap(a["affiliation"]).map do |a|
267
+ if a.is_a?(Hash) && a.key?("__content__") && a["__content__"].strip.blank?
268
+ nil
269
+ elsif a.is_a?(Hash) && a.key?("__content__")
270
+ { "name" => a["__content__"] }
271
+ elsif a.is_a?(Hash)
272
+ a
273
+ elsif a.strip.blank?
274
+ nil
275
+ elsif a.is_a?(String)
276
+ { "name" => a }
277
+ end
278
+ end.compact
279
+
280
+ { "nameType" => "Personal",
281
+ "nameIdentifiers" => name_identifiers,
282
+ "name" => [family_name, given_name].compact.join(", "),
283
+ "givenName" => given_name,
284
+ "familyName" => family_name,
285
+ "affiliation" => affiliation.presence,
286
+ "contributorType" => contributor_role == "editor" ? "Editor" : nil }.compact
287
+ else
288
+ { "nameType" => "Organizational",
289
+ "name" => a["name"] || a["__content__"] }
290
+ end
291
+ end
292
+ end
293
+
294
+ def crossref_funding_reference(program_metadata)
295
+ fundref = Array.wrap(program_metadata).find { |a| a["name"] == "fundref" } || {}
296
+ Array.wrap(fundref.fetch("assertion", [])).select { |a| a["name"] == "fundgroup" && a["assertion"].present? }.map do |f|
297
+ funder_identifier = nil
298
+ funder_identifier_type = nil
299
+ funder_name = nil
300
+ award_title = nil
301
+ award_number = nil
302
+ award_uri = nil
303
+
304
+ Array.wrap(f.fetch("assertion")).each do |a|
305
+ if a.fetch("name") == "award_number"
306
+ award_number = a.fetch("__content__", nil)
307
+ award_uri = a.fetch("awardURI", nil)
308
+ elsif a.fetch("name") == "funder_name"
309
+ funder_name = a.fetch("__content__", nil).to_s.squish.presence
310
+ funder_identifier = validate_funder_doi(a.dig("assertion", "__content__"))
311
+ funder_identifier_type = "Crossref Funder ID" if funder_identifier.present?
312
+ end
313
+ end
314
+
315
+ # funder_name is required in DataCite
316
+ if funder_name.present?
317
+ { "funderIdentifier" => funder_identifier,
318
+ "funderIdentifierType" => funder_identifier_type,
319
+ "funderName" => funder_name,
320
+ "awardTitle" => award_title,
321
+ "awardNumber" => award_number,
322
+ "awardUri" => award_uri }.compact
323
+ else
324
+ nil
325
+ end
326
+ end.compact
327
+ end
328
+
329
+ def crossref_date_published(bibliographic_metadata)
330
+ pub_date = Array.wrap(bibliographic_metadata.fetch("publication_date", nil)).presence ||
331
+ Array.wrap(bibliographic_metadata.fetch("acceptance_date", nil))
332
+ if pub_date.present?
333
+ get_date_from_parts(pub_date.first["year"], pub_date.first["month"], pub_date.first["day"])
334
+ else
335
+ nil
336
+ end
337
+ end
338
+
339
+ def crossref_is_part_of(model_metadata)
340
+ if model_metadata.present? && model_metadata.fetch("issn", nil).present?
341
+ { "relatedIdentifier" => normalize_issn(model_metadata.fetch("issn", nil)),
342
+ "relationType" => "IsPartOf",
343
+ "relatedIdentifierType" => "ISSN",
344
+ "resourceTypeGeneral" => "Collection" }.compact
345
+ elsif model_metadata.present? && model_metadata.fetch("relatedIdentifier", nil).present?
346
+ { "relatedIdentifier" => model_metadata.fetch("relatedIdentifier", nil),
347
+ "relationType" => "IsPartOf",
348
+ "relatedIdentifierType" => "DOI" }.compact
349
+ else
350
+ nil
351
+ end
352
+ end
353
+
354
+ def crossref_references(bibliographic_metadata)
355
+ refs = bibliographic_metadata.dig("citation_list", "citation")
356
+ Array.wrap(refs).select { |a| a["doi"].present? }.map do |c|
357
+ if c["doi"].present?
358
+ { "relatedIdentifier" => parse_attributes(c["doi"]).downcase,
359
+ "relationType" => "References",
360
+ "relatedIdentifierType" => "DOI" }.compact
361
+ else
362
+ nil
363
+ end
364
+ end.compact.unwrap
365
+ end
366
+ end
367
+ end
368
+ end
@@ -0,0 +1,14 @@
1
+ # frozen_string_literal: true
2
+
3
+ module Briard
4
+ module Readers
5
+ module DataciteJsonReader
6
+ def read_datacite_json(string: nil, **options)
7
+ errors = jsonlint(string)
8
+ return { "errors" => errors } if errors.present?
9
+
10
+ string.present? ? Maremma.from_json(string).transform_keys! { |key| key.underscore } : {}
11
+ end
12
+ end
13
+ end
14
+ end