commonmeta-ruby 3.0.0

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Files changed (791) hide show
  1. checksums.yaml +7 -0
  2. data/.github/workflows/build.yml +38 -0
  3. data/.github/workflows/changelog.yml +36 -0
  4. data/.github/workflows/codeql-analysis.yml +72 -0
  5. data/.github/workflows/rubocop.yml +50 -0
  6. data/.gitignore +59 -0
  7. data/.rubocop.yml +182 -0
  8. data/.rubocop_todo.yml +76 -0
  9. data/.tool-versions +1 -0
  10. data/CHANGELOG.md +124 -0
  11. data/CITATION +16 -0
  12. data/CITATION.cff +20 -0
  13. data/Gemfile +5 -0
  14. data/Gemfile.lock +270 -0
  15. data/LICENSE.md +21 -0
  16. data/README.md +733 -0
  17. data/Rakefile +13 -0
  18. data/bin/commonmeta +9 -0
  19. data/commonmeta.gemspec +68 -0
  20. data/lib/commonmeta/array.rb +13 -0
  21. data/lib/commonmeta/author_utils.rb +172 -0
  22. data/lib/commonmeta/cli.rb +70 -0
  23. data/lib/commonmeta/crossref_utils.rb +343 -0
  24. data/lib/commonmeta/doi_utils.rb +81 -0
  25. data/lib/commonmeta/metadata.rb +269 -0
  26. data/lib/commonmeta/metadata_utils.rb +184 -0
  27. data/lib/commonmeta/pubmed.rb +36 -0
  28. data/lib/commonmeta/readers/bibtex_reader.rb +62 -0
  29. data/lib/commonmeta/readers/cff_reader.rb +146 -0
  30. data/lib/commonmeta/readers/codemeta_reader.rb +90 -0
  31. data/lib/commonmeta/readers/crossref_reader.rb +186 -0
  32. data/lib/commonmeta/readers/crossref_xml_reader.rb +379 -0
  33. data/lib/commonmeta/readers/csl_reader.rb +85 -0
  34. data/lib/commonmeta/readers/datacite_reader.rb +169 -0
  35. data/lib/commonmeta/readers/npm_reader.rb +94 -0
  36. data/lib/commonmeta/readers/ris_reader.rb +66 -0
  37. data/lib/commonmeta/readers/schema_org_reader.rb +300 -0
  38. data/lib/commonmeta/schema_utils.rb +19 -0
  39. data/lib/commonmeta/string.rb +7 -0
  40. data/lib/commonmeta/utils.rb +1351 -0
  41. data/lib/commonmeta/version.rb +5 -0
  42. data/lib/commonmeta/whitelist_scrubber.rb +54 -0
  43. data/lib/commonmeta/writers/bibtex_writer.rb +36 -0
  44. data/lib/commonmeta/writers/cff_writer.rb +63 -0
  45. data/lib/commonmeta/writers/citation_writer.rb +14 -0
  46. data/lib/commonmeta/writers/codemeta_writer.rb +33 -0
  47. data/lib/commonmeta/writers/crossref_xml_writer.rb +11 -0
  48. data/lib/commonmeta/writers/csl_writer.rb +11 -0
  49. data/lib/commonmeta/writers/csv_writer.rb +26 -0
  50. data/lib/commonmeta/writers/datacite_writer.rb +94 -0
  51. data/lib/commonmeta/writers/jats_writer.rb +138 -0
  52. data/lib/commonmeta/writers/rdf_xml_writer.rb +11 -0
  53. data/lib/commonmeta/writers/ris_writer.rb +41 -0
  54. data/lib/commonmeta/writers/schema_org_writer.rb +61 -0
  55. data/lib/commonmeta/writers/turtle_writer.rb +11 -0
  56. data/lib/commonmeta/xml_converter.rb +14 -0
  57. data/lib/commonmeta.rb +35 -0
  58. data/resources/2008/09/xsd.xsl +997 -0
  59. data/resources/cff.json +1827 -0
  60. data/resources/commonmeta_v0.9.json +393 -0
  61. data/resources/crossref/AccessIndicators.xsd +47 -0
  62. data/resources/crossref/JATS-journalpublishing1-3d2-mathml3-elements.xsd +10130 -0
  63. data/resources/crossref/JATS-journalpublishing1-3d2-mathml3.xsd +48 -0
  64. data/resources/crossref/JATS-journalpublishing1-elements.xsd +8705 -0
  65. data/resources/crossref/JATS-journalpublishing1-mathml3-elements.xsd +8608 -0
  66. data/resources/crossref/JATS-journalpublishing1-mathml3.xsd +49 -0
  67. data/resources/crossref/JATS-journalpublishing1.xsd +6176 -0
  68. data/resources/crossref/clinicaltrials.xsd +61 -0
  69. data/resources/crossref/common5.3.1.xsd +1530 -0
  70. data/resources/crossref/crossref5.3.1.xsd +1949 -0
  71. data/resources/crossref/crossref_query_output3.0.xsd +1097 -0
  72. data/resources/crossref/fundref.xsd +49 -0
  73. data/resources/crossref/module-ali.xsd +39 -0
  74. data/resources/crossref/relations.xsd +444 -0
  75. data/resources/datacite-contributorType-v4.xsd +35 -0
  76. data/resources/datacite-dateType-v4.xsd +25 -0
  77. data/resources/datacite-descriptionType-v4.xsd +19 -0
  78. data/resources/datacite-funderIdentifierType-v4.xsd +15 -0
  79. data/resources/datacite-nameType-v4.xsd +10 -0
  80. data/resources/datacite-relatedIdentifierType-v4.xsd +34 -0
  81. data/resources/datacite-relationType-v4.xsd +49 -0
  82. data/resources/datacite-resourceType-v4.xsd +28 -0
  83. data/resources/datacite-titleType-v4.xsd +14 -0
  84. data/resources/datacite-v3.json +508 -0
  85. data/resources/datacite-v4.json +512 -0
  86. data/resources/kernel-3.0/include/datacite-contributorType-v3.xsd +33 -0
  87. data/resources/kernel-3.0/include/datacite-dateType-v3.xsd +21 -0
  88. data/resources/kernel-3.0/include/datacite-descriptionType-v3.xsd +17 -0
  89. data/resources/kernel-3.0/include/datacite-relatedIdentifierType-v3.xsd +27 -0
  90. data/resources/kernel-3.0/include/datacite-relationType-v3.xsd +33 -0
  91. data/resources/kernel-3.0/include/datacite-resourceType-v3.xsd +26 -0
  92. data/resources/kernel-3.0/include/datacite-titleType-v3.xsd +12 -0
  93. data/resources/kernel-3.0/include/xml.xsd +286 -0
  94. data/resources/kernel-3.0/metadata.xsd +377 -0
  95. data/resources/kernel-4/include/datacite-contributorType-v4.xsd +35 -0
  96. data/resources/kernel-4/include/datacite-dateType-v4.xsd +25 -0
  97. data/resources/kernel-4/include/datacite-descriptionType-v4.xsd +19 -0
  98. data/resources/kernel-4/include/datacite-funderIdentifierType-v4.xsd +16 -0
  99. data/resources/kernel-4/include/datacite-nameType-v4.xsd +10 -0
  100. data/resources/kernel-4/include/datacite-numberType-v4.xsd +12 -0
  101. data/resources/kernel-4/include/datacite-relatedIdentifierType-v4.xsd +34 -0
  102. data/resources/kernel-4/include/datacite-relationType-v4.xsd +51 -0
  103. data/resources/kernel-4/include/datacite-resourceType-v4.xsd +43 -0
  104. data/resources/kernel-4/include/datacite-titleType-v4.xsd +14 -0
  105. data/resources/kernel-4/include/xml.xsd +286 -0
  106. data/resources/kernel-4/metadata.xsd +707 -0
  107. data/resources/oecd/dfg-mappings.json +1866 -0
  108. data/resources/oecd/for-mappings.json +1099 -0
  109. data/resources/oecd/fos-mappings.json +198 -0
  110. data/resources/schema_org/jsonldcontext.json +7477 -0
  111. data/resources/spdx/licenses.json +5297 -0
  112. data/resources/xml.xsd +286 -0
  113. data/rubocop.sarif +0 -0
  114. data/sonar-project.properties +11 -0
  115. data/spec/array_spec.rb +22 -0
  116. data/spec/author_utils_spec.rb +132 -0
  117. data/spec/cli_spec.rb +309 -0
  118. data/spec/doi_utils_spec.rb +318 -0
  119. data/spec/find_from_format_spec.rb +144 -0
  120. data/spec/fixtures/CITATION.cff +83 -0
  121. data/spec/fixtures/aida.json +82 -0
  122. data/spec/fixtures/cgimp_package.json +18 -0
  123. data/spec/fixtures/cit_package.json +19 -0
  124. data/spec/fixtures/citeproc-no-author.json +26 -0
  125. data/spec/fixtures/citeproc-no-categories.json +21 -0
  126. data/spec/fixtures/citeproc.json +30 -0
  127. data/spec/fixtures/codemeta.json +86 -0
  128. data/spec/fixtures/codemeta_v2.json +86 -0
  129. data/spec/fixtures/crosscite.json +63 -0
  130. data/spec/fixtures/crossref.bib +14 -0
  131. data/spec/fixtures/crossref.json +572 -0
  132. data/spec/fixtures/crossref.ris +15 -0
  133. data/spec/fixtures/crossref.xml +606 -0
  134. data/spec/fixtures/datacite.json +86 -0
  135. data/spec/fixtures/datacite_software.json +21 -0
  136. data/spec/fixtures/datacite_software_missing_comma.json +18 -0
  137. data/spec/fixtures/datacite_software_overlapping_keys.json +18 -0
  138. data/spec/fixtures/datacite_software_version.json +74 -0
  139. data/spec/fixtures/edam_package.json +12 -0
  140. data/spec/fixtures/maremma/codemeta.json +36 -0
  141. data/spec/fixtures/pure.bib +14 -0
  142. data/spec/fixtures/pure.ris +15 -0
  143. data/spec/fixtures/pure.xml +188 -0
  144. data/spec/fixtures/ris_bug.ris +9 -0
  145. data/spec/fixtures/schema_4.0.xml +140 -0
  146. data/spec/fixtures/schema_org.json +49 -0
  147. data/spec/fixtures/schema_org_front-matter.json +32 -0
  148. data/spec/fixtures/schema_org_geolocation.json +82 -0
  149. data/spec/fixtures/schema_org_geoshape.json +550 -0
  150. data/spec/fixtures/schema_org_gtex.json +75 -0
  151. data/spec/fixtures/schema_org_list.json +12623 -0
  152. data/spec/fixtures/schema_org_tdl_iodp_invalid_authors.json +25 -0
  153. data/spec/fixtures/schema_org_topmed.json +53 -0
  154. data/spec/fixtures/schema_org_type_as_array.json +41 -0
  155. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref/default.yml +110 -0
  156. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref/to_bibtex.yml +110 -0
  157. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref/to_crossref_xml.yml +110 -0
  158. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref/to_datacite.yml +110 -0
  159. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref/to_schema_org.yml +110 -0
  160. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref_xml/default.yml +55 -0
  161. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref_xml/to_bibtex.yml +55 -0
  162. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref_xml/to_crossref_xml.yml +55 -0
  163. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref_xml/to_datacite.yml +55 -0
  164. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_file/crossref_xml/to_schema_org.yml +55 -0
  165. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/default.yml +299 -0
  166. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_bibtex.yml +299 -0
  167. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_citation.yml +299 -0
  168. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_crossref_xml.yml +299 -0
  169. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_datacite.yml +299 -0
  170. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_jats.yml +299 -0
  171. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_schema_org.yml +299 -0
  172. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/default.yml +172 -0
  173. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_bibtex.yml +172 -0
  174. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_citation.yml +172 -0
  175. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_datacite.yml +172 -0
  176. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_jats.yml +172 -0
  177. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_schema_org.yml +172 -0
  178. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/default.yml +1098 -0
  179. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/to_datacite.yml +1098 -0
  180. data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/to_schema_org.yml +1100 -0
  181. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/crossref.yml +55 -0
  182. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/datacite.yml +55 -0
  183. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/jalc.yml +55 -0
  184. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/kisti.yml +55 -0
  185. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/medra.yml +55 -0
  186. data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/op.yml +55 -0
  187. data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/author.yml +164 -0
  188. data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/no_author.yml +164 -0
  189. data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/single_author.yml +164 -0
  190. data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/with_organization.yml +164 -0
  191. data/spec/fixtures/vcr_cassettes/Briard_Metadata/change_metadata_as_datacite_xml/with_data_citation.yml +247 -0
  192. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/crossref.yml +55 -0
  193. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/datacite.yml +55 -0
  194. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/jalc.yml +55 -0
  195. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/kisti.yml +55 -0
  196. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/medra.yml +55 -0
  197. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/not_found.yml +55 -0
  198. data/spec/fixtures/vcr_cassettes/Briard_Metadata/doi_registration_agency/op.yml +55 -0
  199. data/spec/fixtures/vcr_cassettes/Briard_Metadata/find_from_format_by_ID/crossref.yml +55 -0
  200. data/spec/fixtures/vcr_cassettes/Briard_Metadata/find_from_format_by_ID/crossref_doi_not_url.yml +55 -0
  201. data/spec/fixtures/vcr_cassettes/Briard_Metadata/find_from_format_by_ID/datacite.yml +55 -0
  202. data/spec/fixtures/vcr_cassettes/Briard_Metadata/find_from_format_by_ID/datacite_doi_http.yml +55 -0
  203. data/spec/fixtures/vcr_cassettes/Briard_Metadata/find_from_format_by_ID/unknown_DOI_registration_agency.yml +55 -0
  204. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/hsh_to_fos_for_match.yml +221 -0
  205. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/hsh_to_fos_for_with_schemeUri_in_hash.yml +221 -0
  206. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/hsh_to_fos_match.yml +221 -0
  207. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/hsh_to_fos_no_match.yml +221 -0
  208. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/name_to_fos_for_match.yml +221 -0
  209. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/name_to_fos_match.yml +221 -0
  210. data/spec/fixtures/vcr_cassettes/Briard_Metadata/fos/name_to_fos_no_match.yml +221 -0
  211. data/spec/fixtures/vcr_cassettes/Briard_Metadata/from_schema_org/with_id.yml +221 -0
  212. data/spec/fixtures/vcr_cassettes/Briard_Metadata/from_schema_org_creators/with_affiliation.yml +221 -0
  213. data/spec/fixtures/vcr_cassettes/Briard_Metadata/from_schema_org_creators/without_affiliation.yml +221 -0
  214. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_cff_metadata/cff-converter-python.yml +200 -0
  215. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_cff_metadata/ruby-cff.yml +154 -0
  216. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_cff_metadata/ruby-cff_repository_url.yml +154 -0
  217. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_codemeta_metadata/maremma.yml +86 -0
  218. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_codemeta_metadata/metadata_reports.yml +93 -0
  219. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/DOI_with_ORCID_ID.yml +337 -0
  220. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/DOI_with_SICI_DOI.yml +347 -0
  221. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/DOI_with_data_citation.yml +359 -0
  222. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/JaLC.yml +384 -0
  223. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/KISTI.yml +330 -0
  224. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/OP.yml +969 -0
  225. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/affiliation_is_space.yml +358 -0
  226. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/another_book.yml +312 -0
  227. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/another_book_chapter.yml +465 -0
  228. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/article_id_as_page_number.yml +276 -0
  229. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/author_literal.yml +492 -0
  230. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/book.yml +523 -0
  231. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/book_chapter.yml +377 -0
  232. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/book_chapter_with_RDF_for_container.yml +336 -0
  233. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/book_oup.yml +289 -0
  234. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/component.yml +289 -0
  235. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/dataset.yml +299 -0
  236. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/dataset_usda.yml +341 -0
  237. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/date_in_future.yml +570 -0
  238. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/dissertation.yml +301 -0
  239. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/empty_given_name.yml +303 -0
  240. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/invalid_date.yml +307 -0
  241. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/journal_article.yml +461 -0
  242. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/journal_article_original_language_title.yml +276 -0
  243. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/journal_article_with.yml +470 -0
  244. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/journal_article_with_RDF_for_container.yml +519 -0
  245. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/journal_article_with_funding.yml +456 -0
  246. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/journal_issue.yml +270 -0
  247. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/mEDRA.yml +310 -0
  248. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/markup.yml +329 -0
  249. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/missing_creator.yml +307 -0
  250. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/multiple_issn.yml +393 -0
  251. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/multiple_titles.yml +265 -0
  252. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/multiple_titles_with_missing.yml +860 -0
  253. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/not_found_error.yml +209 -0
  254. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/peer_review.yml +287 -0
  255. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/posted_content.yml +326 -0
  256. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/posted_content_copernicus.yml +297 -0
  257. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/report_osti.yml +315 -0
  258. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/vor_with_url.yml +451 -0
  259. data/spec/fixtures/vcr_cassettes/Briard_Metadata/get_crossref_metadata/yet_another_book.yml +816 -0
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+ \ <article class=\"gh-article post tag-feature\">\n\n <header
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+ class=\"gh-article-header gh-canvas\">\n <a class=\"gh-article-tag\"
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+ href=\"https://blog.front-matter.io/tag/feature/\">Feature</a>\n\n <h1
274
+ class=\"gh-article-title\">Eating your own Dog Food</h1>\n\n <aside
275
+ class=\"gh-article-sidebar\">\n\n <div class=\"gh-author-image-list\">\n
276
+ \ <a class=\"gh-author-image\" href=\"/author/martin/\">\n <img
277
+ src=\"https://www.gravatar.com/avatar/8adea77ad740876f5cb832f92d49f08d?s&#x3D;250&amp;r&#x3D;x&amp;d&#x3D;mp\"
278
+ alt=\"Martin Fenner\">\n </a>\n </div>\n\n <div
279
+ class=\"gh-author-name-list\">\n <h4 class=\"gh-author-name\">\n
280
+ \ <a href=\"/author/martin/\">Martin Fenner</a>\n </h4>\n
281
+ \ \n </div>\n\n <div class=\"gh-article-meta\">\n
282
+ \ <div class=\"gh-article-meta-inner\">\n <time class=\"gh-article-date\"
283
+ datetime=\"2016-12-20\">Dec 20, 2016</time>\n <span class=\"gh-article-meta-sep\"></span>\n
284
+ \ <span class=\"gh-article-length\">4 min</span>\n </div>\n
285
+ \ <a class=\"gh-card-link\" href=\"https://doi.org/10.53731/r79vxn1-97aq74v-ag58n\">https://doi.org/10.53731/r79vxn1-97aq74v-ag58n</a>\n
286
+ \ </div>\n\n </aside>\n\n\n <figure class=\"gh-article-image\">\n
287
+ \ <img\n srcset=\"/content/images/size/w300/2022/08/230785.jpeg
288
+ 300w,\n /content/images/size/w720/2022/08/230785.jpeg 720w,\n
289
+ \ /content/images/size/w960/2022/08/230785.jpeg 960w,\n
290
+ \ /content/images/size/w1200/2022/08/230785.jpeg 1200w,\n
291
+ \ /content/images/size/w2000/2022/08/230785.jpeg 2000w\"\n
292
+ \ sizes=\"(max-width: 1200px) 100vw, 1200px\"\n src=\"/content/images/size/w1200/2022/08/230785.jpeg\"\n
293
+ \ alt=\"Eating your own Dog Food\"\n >\n <figcaption>Photo
294
+ by <a href=\"https://www.pexels.com/photo/black-and-tan-yorkshire-terrier-puppy-230785/\">Bill
295
+ Emrich</a>. <a href=\"https://creativecommons.org/publicdomain/zero/1.0/\">CC
296
+ Zero</a>.</figcaption>\n </figure>\n </header>\n\n <section
297
+ class=\"gh-content gh-canvas\">\n <p><a href=\"https://newrepublic.com/article/115349/dogfooding-tech-slang-working-out-glitches\">Eating
298
+ your own dog food</a> is a slang term to describe that an organization should
299
+ itself use the products and services it provides. For DataCite this means
300
+ that we should use DOIs with appropriate metadata and strategies for long-term
301
+ preservation for the scholarly outputs we produce. For the most part this
302
+ is not research data, but rather technical documents such as the DataCite
303
+ Schema and its documentation (<a href=\"https://blog.datacite.org/eating-your-own-dog-food/#ref-https://doi.org/10.5438/0012\">2016</a>).</p><p>These
304
+ outputs also include the posts on this blog, where we discuss topics relevant
305
+ for the DataCite community, but also of broader interest to anyone who cares
306
+ about research data, persistent identifiers, and scholarly infrastructure.
307
+ And starting today all blog posts on this blog will have a DOI, metadata and
308
+ use a persistent storage mechanism.</p><h3 id=\"technical-implementation\">Technical
309
+ Implementation</h3><p>This blog is powered by the static site generator <a
310
+ href=\"https://middlemanapp.com/\">Middleman</a>, with blog posts written
311
+ in <a href=\"http://commonmark.org/\">Markdown</a> and converted to HTML using
312
+ <a href=\"http://pandoc.org/\">Pandoc</a> and the <a href=\"https://travis-ci.org/\">Travis
313
+ CI</a> continuous integration service. Static site generator means that there
314
+ is no database or application server powering the site, making website adminstration
315
+ simpler, cheaper and safer. In addition to the blog, the <a href=\"https://www.datacite.org/\">DataCite
316
+ homepage</a> and <a href=\"https://schema.datacite.org/\">Metadata Schema
317
+ subsite</a> are also generated using Middleman.</p><p>The simplicity is particularly
318
+ important here, as registering the DOIs and metadata can be accomplished using
319
+ a command line utility written by DataCite staff that doesn't need to know
320
+ much about the internals of Middleman, and thus can be easily adapted to other
321
+ static site generators such as <a href=\"http://jekyllrb.com/\">Jekyll</a>,
322
+ <a href=\"http://gohugo.io/\">Hugo</a> or <a href=\"https://hexo.io/\">Hexo</a>.
323
+ The command line utility is <a href=\"https://github.com/datacite/cirneco\">Cirneco</a>,
324
+ generating the metadata XML according to the DataCite Metadata Schema, and
325
+ registering DOI and metadata with the DataCite MDS. Like all tools mentioned
326
+ in this post Cirneco is open source software, please reach out to us if you
327
+ are interested in implementing similar functionality for your blog.</p><h3
328
+ id=\"generating-dois\">Generating DOIs</h3><p>The DOIs for this blog are generated
329
+ automatically, using a modified base32 encoding algorithm that is provided
330
+ by Cirneco, as discussed last week (Fenner, <a href=\"https://blog.datacite.org/eating-your-own-dog-food/#ref-https://doi.org/10.5438/55E5-T5C0\">2016</a>).
331
+ The DOI is generated and minted when a new post is pushed to <a href=\"https://blog.datacite.org/\">https://blog.datacite.org</a>.
332
+ This avoids two problems: a) DOI-like strings in the wild before publication
333
+ and b) the randomly generated DOI exists already (we can simply generate a
334
+ new one). All DOIs are short, without semantic infomation that might change
335
+ over time, and with a checksum to minimize transcription errors, for example
336
+ <strong><strong>https://doi.org/10.5438/XCBJ-G7ZY</strong></strong>. Going
337
+ forward we encourage users to link to the DataCite Blog using the DOI, as
338
+ these links will continue to work even if we ever move the blog to a different
339
+ location.</p><h3 id=\"generating-metadata\">Generating Metadata</h3><p>For
340
+ the generation of metadata, we need to strike a balance between simple author
341
+ provided metadata, but rich enough to aid discovery. We are doing this via
342
+ three mechanisms:</p><ul><li>metadata provided by the author</li><li>default
343
+ metadata for the blog</li><li>metadata automatically extracted from content</li></ul><p>The
344
+ metadata provided by the author are the typical metadata for blog posts, provided
345
+ via <a href=\"https://gohugo.io/content/front-matter/\">YAML front matter</a>
346
+ at the beginning of each post:</p><pre><code>---\nlayout: post\ntitle: Eating
347
+ your own Dog Food\nauthor: mfenner\ndate: 2016-12-19\ntags:\n- datacite\n-
348
+ doi\n- metadata\n---</code></pre><p>We can reuse all these metadata when generating
349
+ DataCite metadata, using the tags as <code>subjects</code>.</p><p>The default
350
+ metadata are metadata that always stay the same for the blog, such as <code>publisher</code>,
351
+ <code>HostingInstitution</code> and <code>rights</code>. We can store them
352
+ in a site-wide configuration file. We can also assume reasonable defaults
353
+ that can be overridden in the YAML front matter, e.g. <code>resourceType</code>
354
+ (we use <a href=\"https://schema.org/BlogPosting\">BlogPosting</a> with <code>resourceTypeGeneral</code>
355
+ Text) and <code>version</code>. We store more information about authors outside
356
+ the blog post, including <code>givenName</code>, <code>familyName</code> and
357
+ <code>nameIdentifier</code> (we now show the ORCID ID of every blog author
358
+ at the bottom of the post).</p><p>Finally, there are metadata that we can
359
+ automatically extract from the blog post, and we are currently doing this
360
+ for the <code>description</code> and <code>relatedIdentifier</code>. This
361
+ blog uses Pandoc and BibTex to generate the references section at the end,
362
+ and we can fetch this information and convert it into the format needed for
363
+ <code>relatedIdentifier</code>.</p><p>Taken together we can provide all metadata
364
+ that are <em>required</em> or <em>recommended</em> in the Metadata Schema
365
+ documentation (<a href=\"https://blog.datacite.org/eating-your-own-dog-food/#ref-https://doi.org/10.5438/0012\">2016</a>),
366
+ and we can do this without any extra effort for the author. The full XML is
367
+ avalailable <a href=\"https://data.crosscite.org/application/vnd.datacite.datacite+xml/10.5438/4K3M-NYVG\">here</a>.</p><p>Not
368
+ all blog posts need to be cited formally with metadata in a <em>references</em>
369
+ list formatted according to a specific citation style. But these metadata
370
+ greatly help with discovery, a search in DataCite Search for <a href=\"http://search.datacite.org/works?query=eating+dog+food\">eating
371
+ dog food</a> will for example bring up this blog post as the first hit.</p><h3
372
+ id=\"persistent-storage\">Persistent storage</h3><p>Using DOIs means that
373
+ readers not only expect rich metadata that help with citation and discovery,
374
+ but also that DataCite takes extra care to preserve the blog posts, thinking
375
+ beyond the particular technical implementation or even the contiuing existence
376
+ of this blog. This is an area where we do need to do more work, starting with
377
+ a decision about the best archival format for a blog post (HTML, PDF, <a href=\"https://jats.nlm.nih.gov/\">JATS</a>?).
378
+ For now blog posts are hosted in multiple Git repositories (<a href=\"https://github.com/datacite/blog\">one
379
+ of them on Github</a>), and in two independent Amazon S3 buckets that each
380
+ use <a href=\"http://docs.aws.amazon.com/AmazonS3/latest/dev/Versioning.html\">versioning</a>.
381
+ Multiple locations with versioning are a good start, but more work is clearly
382
+ needed.</p><p><em>This blog post was <a href=\"https://doi.org/10.5438/4k3m-nyvg\">originally
383
+ published</a> on the DataCite Blog.</em></p><h2 id=\"references\">References</h2><p>DataCite
384
+ Metadata Working Group. (2016). DataCite metadata schema for the publication
385
+ and citation of research data v4.0. <em>DataCite</em>. <a href=\"https://doi.org/10.5438/0012\">https://doi.org/10.5438/0012</a></p><p>Fenner,
386
+ M. (2016). Cool doi’s. <em>DataCite</em>. <a href=\"https://doi.org/10.5438/55E5-T5C0\">https://doi.org/10.5438/55E5-T5C0</a></p>\n
387
+ \ <div class=\"gh-license\">\n Copyright
388
+ © 2016 Martin Fenner. Distributed under the terms of the\n <a\n
389
+ \ class=\"gh-license-link\"\n href=\"https://creativecommons.org/licenses/by/4.0/legalcode\"\n
390
+ \ >\n Creative Commons
391
+ Attribution 4.0 License.\n </a>\n </div>\n
392
+ \ </section> \n </section>\n\n </article>\n\n
393
+ \ <div class=\"gh-read-next gh-canvas\">\n <section
394
+ class=\"gh-pagehead\">\n <h4 class=\"gh-pagehead-title\">Read
395
+ next</h4>\n </section>\n\n <div class=\"gh-topic
396
+ gh-topic-grid\">\n <div class=\"gh-topic-content\">\n <article
397
+ class=\"gh-card post\">\n <a class=\"gh-card-link\" href=\"/posts/talking-about-talbot/\">\n
398
+ \ <figure class=\"gh-card-image\">\n <img\n srcset=\"/content/images/size/w300/2023/02/TalbotHound_Talbot_Shrewsbury_Book_1445.png
399
+ 300w,\n /content/images/size/w720/2023/02/TalbotHound_Talbot_Shrewsbury_Book_1445.png
400
+ 720w,\n /content/images/size/w960/2023/02/TalbotHound_Talbot_Shrewsbury_Book_1445.png
401
+ 960w,\n /content/images/size/w1200/2023/02/TalbotHound_Talbot_Shrewsbury_Book_1445.png
402
+ 1200w,\n /content/images/size/w2000/2023/02/TalbotHound_Talbot_Shrewsbury_Book_1445.png
403
+ 2000w\"\n sizes=\"(max-width: 1200px) 100vw, 1200px\"\n
404
+ \ src=\"/content/images/size/w720/2023/02/TalbotHound_Talbot_Shrewsbury_Book_1445.png\"\n
405
+ \ alt=\"A talbot hound\"\n >\n </figure>\n\n
406
+ \ <div class=\"gh-card-wrapper\">\n <header class=\"gh-card-header\">\n
407
+ \ <h3 class=\"gh-card-title\">Talking about Talbot</h3>\n </header>\n\n
408
+ \ <div class=\"gh-card-excerpt\">Talbot is a Python package
409
+ I started working on at the end of 2022 and plan to release to the Python
410
+ Package Index (PyPi) in March. Talbot converts scholarly metadata in various
411
+ formats, including Crossref, DataCite, Schema.org, BibTeX, RIS, and formatted
412
+ citations – the complete list of supported formats is</div>\n\n <footer
413
+ class=\"gh-card-footer\">\n <span class=\"gh-card-author\">Martin
414
+ Fenner</span>\n <time class=\"gh-card-date\" datetime=\"2023-02-13\">Feb
415
+ 13, 2023</time>\n <script\n data-ghost-comment-count=\"63ea6985b3d553003d317d11\"\n
416
+ \ data-ghost-comment-count-empty=\"\"\n data-ghost-comment-count-singular=\"comment\"\n
417
+ \ data-ghost-comment-count-plural=\"comments\"\n data-ghost-comment-count-tag=\"span\"\n
418
+ \ data-ghost-comment-count-class-name=\"gh-card-comments\"\n data-ghost-comment-count-autowrap=\"true\"\n>\n</script>\n
419
+ \ </footer>\n </div>\n </a>\n</article> <article
420
+ class=\"gh-card post\">\n <a class=\"gh-card-link\" href=\"/posts/guidelines-for-scholarly-blogs/\">\n
421
+ \ <figure class=\"gh-card-image\">\n <img\n srcset=\"https://images.unsplash.com/photo-1584631277142-0ca0cfc76aec?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDZ8fGd1aWRlbGluZXxlbnwwfHx8fDE2NzU2ODM0NDc&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;300
422
+ 300w,\n https://images.unsplash.com/photo-1584631277142-0ca0cfc76aec?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDZ8fGd1aWRlbGluZXxlbnwwfHx8fDE2NzU2ODM0NDc&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;720
423
+ 720w,\n https://images.unsplash.com/photo-1584631277142-0ca0cfc76aec?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDZ8fGd1aWRlbGluZXxlbnwwfHx8fDE2NzU2ODM0NDc&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;960
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+ 960w,\n https://images.unsplash.com/photo-1584631277142-0ca0cfc76aec?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDZ8fGd1aWRlbGluZXxlbnwwfHx8fDE2NzU2ODM0NDc&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;1200
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+ 1200w,\n https://images.unsplash.com/photo-1584631277142-0ca0cfc76aec?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDZ8fGd1aWRlbGluZXxlbnwwfHx8fDE2NzU2ODM0NDc&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;2000
426
+ 2000w\"\n sizes=\"(max-width: 1200px) 100vw, 1200px\"\n
427
+ \ src=\"https://images.unsplash.com/photo-1584631277142-0ca0cfc76aec?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDZ8fGd1aWRlbGluZXxlbnwwfHx8fDE2NzU2ODM0NDc&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;720\"\n
428
+ \ alt=\"Guidelines for Scholarly Blogs\"\n >\n
429
+ \ </figure>\n\n <div class=\"gh-card-wrapper\">\n <header
430
+ class=\"gh-card-header\">\n <h3 class=\"gh-card-title\">Guidelines
431
+ for Scholarly Blogs</h3>\n </header>\n\n <div
432
+ class=\"gh-card-excerpt\">These guidelines are recommendations for authors
433
+ of scholarly blogs to help with long-term archiving, discoverability, and
434
+ citation of blog content.\nThey are modeled after the publication A Data Citation
435
+ Roadmap for Scholarly Data Repositories, where many of the same guidelines
436
+ apply, and where I was the first author and co-chair</div>\n\n <footer
437
+ class=\"gh-card-footer\">\n <span class=\"gh-card-author\">Martin
438
+ Fenner</span>\n <time class=\"gh-card-date\" datetime=\"2023-02-06\">Feb
439
+ 6, 2023</time>\n <script\n data-ghost-comment-count=\"63e0dd6e35c7ab003d9cda81\"\n
440
+ \ data-ghost-comment-count-empty=\"\"\n data-ghost-comment-count-singular=\"comment\"\n
441
+ \ data-ghost-comment-count-plural=\"comments\"\n data-ghost-comment-count-tag=\"span\"\n
442
+ \ data-ghost-comment-count-class-name=\"gh-card-comments\"\n data-ghost-comment-count-autowrap=\"true\"\n>\n</script>\n
443
+ \ </footer>\n </div>\n </a>\n</article> <article
444
+ class=\"gh-card post\">\n <a class=\"gh-card-link\" href=\"/posts/need-to-fix-science-blogs/\">\n
445
+ \ <figure class=\"gh-card-image\">\n <img\n srcset=\"https://images.unsplash.com/photo-1585838017777-5003198884b5?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDMyfHxicm9rZW58ZW58MHx8fHwxNjc0NjUyMTEy&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;300
446
+ 300w,\n https://images.unsplash.com/photo-1585838017777-5003198884b5?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDMyfHxicm9rZW58ZW58MHx8fHwxNjc0NjUyMTEy&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;720
447
+ 720w,\n https://images.unsplash.com/photo-1585838017777-5003198884b5?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDMyfHxicm9rZW58ZW58MHx8fHwxNjc0NjUyMTEy&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;960
448
+ 960w,\n https://images.unsplash.com/photo-1585838017777-5003198884b5?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDMyfHxicm9rZW58ZW58MHx8fHwxNjc0NjUyMTEy&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;1200
449
+ 1200w,\n https://images.unsplash.com/photo-1585838017777-5003198884b5?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDMyfHxicm9rZW58ZW58MHx8fHwxNjc0NjUyMTEy&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;2000
450
+ 2000w\"\n sizes=\"(max-width: 1200px) 100vw, 1200px\"\n
451
+ \ src=\"https://images.unsplash.com/photo-1585838017777-5003198884b5?crop&#x3D;entropy&amp;cs&#x3D;tinysrgb&amp;fit&#x3D;max&amp;fm&#x3D;jpg&amp;ixid&#x3D;MnwxMTc3M3wwfDF8c2VhcmNofDMyfHxicm9rZW58ZW58MHx8fHwxNjc0NjUyMTEy&amp;ixlib&#x3D;rb-4.0.3&amp;q&#x3D;80&amp;w&#x3D;720\"\n
452
+ \ alt=\"Do we need to fix science blogs?\"\n >\n
453
+ \ </figure>\n\n <div class=\"gh-card-wrapper\">\n <header
454
+ class=\"gh-card-header\">\n <h3 class=\"gh-card-title\">Do
455
+ we need to fix science blogs?</h3>\n </header>\n\n <div
456
+ class=\"gh-card-excerpt\">Science blogs have been around for at least 20 years
457
+ and have become an important part of science communication. So are there any
458
+ fundamental issues that need fixing?\n\n\nBarriers to Entry\n\nBlogging platforms
459
+ are mature at this point, and the technology is not imposing barriers to entry
460
+ for most people.</div>\n\n <footer class=\"gh-card-footer\">\n
461
+ \ <span class=\"gh-card-author\">Martin Fenner</span>\n <time
462
+ class=\"gh-card-date\" datetime=\"2023-01-25\">Jan 25, 2023</time>\n <script\n
463
+ \ data-ghost-comment-count=\"63c889b63b62db003dc5eb9c\"\n data-ghost-comment-count-empty=\"\"\n
464
+ \ data-ghost-comment-count-singular=\"comment\"\n data-ghost-comment-count-plural=\"comments\"\n
465
+ \ data-ghost-comment-count-tag=\"span\"\n data-ghost-comment-count-class-name=\"gh-card-comments\"\n
466
+ \ data-ghost-comment-count-autowrap=\"true\"\n>\n</script>\n </footer>\n
467
+ \ </div>\n </a>\n</article> </div>\n </div>\n
468
+ \ </div>\n\n <div class=\"gh-comments gh-read-next
469
+ gh-canvas\">\n <section class=\"gh-pagehead\">\n <h4
470
+ class=\"gh-pagehead-title\">Comments (<script\n data-ghost-comment-count=\"62d42bbd41e317003df48efd\"\n
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+ \ data-ghost-comment-count-plural=\"\"\n data-ghost-comment-count-tag=\"span\"\n
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+ \ data-ghost-comment-count-class-name=\"\"\n data-ghost-comment-count-autowrap=\"true\"\n>\n</script>)</h3>\n
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+ recorded_at: Tue, 14 Mar 2023 12:43:36 GMT
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+ recorded_with: VCR 6.1.0