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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fwc6dPSfYeffQ2fxJ9p5x/JvwJc0i7b/A7B3mRdKPwAA
63
+ http_version:
64
+ recorded_at: Mon, 06 Dec 2021 07:16:19 GMT
65
+ recorded_with: VCR 3.0.3