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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+ roles, membrane lipids have not been fully elucidated for many pathogens.
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+ (Lys-PG) which carries one positive net charge due to the presence of a negatively
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+ (HRMS\/MS) and genetic approaches to determine that Lys-Glc-DAG is synthesized
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+ by the enzyme MprF in GBS, which covalently modifies the neutral glycolipid
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+ Glc-DAG with the cationic amino acid lysine. GBS is a leading cause of neonatal
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Services</h1><time>October 21, 2022</time><div><p><p>How does a <a href=https://researchsoftware.org/>Research Software Engineer (RSE)</a> — often
50
+ responsible for developing infrastructure to manage and share digital research objects (data,
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+ models, code, notebooks, workflows, etc.) — get from &ldquo;Yes, FAIR sounds great, but how?&rdquo; to &ldquo;I better
52
+ understand what the FAIR principles really mean and how I can put them into practice.&rdquo;? I hope the
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+ diagram below can help.</p><figure><a href=/fair-enabling-resources-services-principles-diagram.pdf><img src=/img/fair-enabling-resources-services-principles-diagram-nocaption.svg width=100%></a><figcaption>Relating
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+ <a href=https://w3id.org/fair/fip/terms/FAIR-Enabling-Resource>FAIR-Enabling Resource</a>
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+ <strong>artifacts</strong>, from the
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+ <a href=https://w3id.org/fair/fip/terms/FIP-Ontology>FAIR Implementation Profile (FIP) ontology</a>,
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+ to <strong>services</strong>.
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+ These services are what you deploy to implement each of the 15
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+ <a href=https://w3id.org/fair/principles/terms/FAIR>FAIR Principles</a>
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+ (from Box 2 of the <a href=https://doi.org/10.1038/sdata.2016.18>seminal publication</a>)
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+ for any actual given digital research object.</figcaption></figure></p></div><div class=page-footer></div><link rel=stylesheet type=text/css href=/css/katex.min.css crossorigin=anonymous><script type=text/javascript src=/js/katex.min.js crossorigin=anonymous></script>
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+ <!doctype html><html lang=en-us><head><meta charset=utf-8><meta http-equiv=x-ua-compatible content="IE=edge,chrome=1"><meta name=viewport content="width=device-width,initial-scale=1"><meta name=format-detection content="telephone=no"><title>Implementing the FAIR Principles Through FAIR-Enabling Artifacts and Services | Donny Winston</title><script type=application/ld+json>{"@context":{"@vocab":"https://schema.org/","dcterms":"http://purl.org/dc/terms/"},"@type":"BlogPosting","author":[{"@type":"Person","name":"Donny Winston","image":{"@type":"ImageObject","url":"https://www.gravatar.com/avatar/7fd9c14251809462e5f9cee070cf881d?s=250&r=x&d=mp","width":250,"height":250},"url":"https://donnywinston.com","identifier":"https://orcid.org/0000-0002-8424-0604","sameAs":["https://twitter.com/donnywinston","https://www.linkedin.com/in/donnywinston/"]}],"publisher":{"@type":"Organization","name":"Polyneme LLC","url":"https://www.polyneme.xyz","logo":{"@type":"ImageObject","url":"https://polyneme.xyz/icons/icon-96x96.png","width":60,"height":60}},"headline":"Implementing the FAIR Principles Through FAIR-Enabling Artifacts and Services","url":"https:\/\/donnywinston.com\/posts\/implementing-the-fair-principles-through-fair-enabling-artifacts-and-services\/","datePublished":"2022-10-21 13:24:46 -0400 -0400","dateModified":"2022-10-21 13:24:46 -0400 -0400","keywords":[],"@id":"https://doi.org/10.57099/11h5yt3819","name":"Implementing the FAIR Principles Through FAIR-Enabling Artifacts and Services","educationalLevel":"Beginner","description":"How does a Research Software Engineer (RSE) — often responsible for developing infrastructure to manage and share digital research objects (data, models, code, notebooks, workflows, etc.","competencyRequired":[],"teaches":[],"abstract":"How does a Research Software Engineer (RSE) — often responsible for developing infrastructure to manage and share digital research objects (data, models, code, notebooks, workflows, etc.","about":[{"@type":"DefinedTerm","@id":"http://edamontology.org/data_3669","inDefinedTermSet":"http://edamontology.org","termCode":"data_3670","name":"Training material","url":"http://edamontology.org/data_3669"},{"@type":"DefinedTerm","@id":"http://edamontology.org/topic_0605","inDefinedTermSet":"http://edamontology.org","termCode":"topic_0605","name":"Informatics","alternate_name":["Information science","Knowledge management","Information management"],"description":"The study and practice of information processing and use of computer information systems.","url":"http://edamontology.org/data_3669"}],"audience":{"@type":"Audience","audienceType":"People interested in publishing their research output"},"identifier":"https://n2t.net/ark:57802/dw0/blog/\/posts\/implementing-the-fair-principles-through-fair-enabling-artifacts-and-services\/","inLanguage":["en-US"],"learningResourceType":["blogpost"],"license":["https://creativecommons.org/licenses/by/4.0/"],"timeRequired":"PT10M","creativeWorkStatus":"Active","dateCreated":"2022-10-21 13:24:46 -0400 -0400","version":"1"}</script><link rel=apple-touch-icon sizes=180x180 href=/apple-touch-icon.png><link rel=icon type=image/png sizes=32x32 href=/favicon-32x32.png><link rel=icon type=image/png sizes=16x16 href=/favicon-16x16.png><link rel=manifest href=/manifest.json><link rel=mask-icon href=/safari-pinned-tab.svg color=#ff3db4><meta name=theme-color content="#ffffff"><link rel=me href=https://fairpoints.social/@donny><link rel=stylesheet href=https://donnywinston.com/css/main.min.b9c692d7b890e6a24e0280548d2a8519d6f71fa047a6c9fac701d2de45896323.css><link rel=stylesheet href=https://donnywinston.com/css/custom.min.817b30e0146652a7e9e48e1ca44f82117b0e69dca0b10ac258150d1c6f325fcd.css></head><body><nav><header><div class=site-title><a href=/>Donny Winston</a></div></header><div class=nav-menu><a class="color-link nav-link" href=/about/>About</a>
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11.0611968 22.2922435 12.2223743 22.2922435 13.6413251c0 4.9942601-3.039811 6.0931889-5.935173 6.4148071.4660671.401424200000001.8818564 1.194696.8818564 2.4077473C17.2389269 24.2012564 17.2229657 25.603448 17.2229657 26.0296121 17.2229657 26.3775663 17.4575954 26.7821827 18.116793 26.6552912 23.2786458 24.9322794 27 20.0633148 27 14.3212723 27 7.14112562 21.1789496 1.32087331 13.9988029 1.32087331"/></svg></a></div><div class=hugo-attrib><p><a href=https://github.com/kimcc/hugo-theme-noteworthy target=_blank rel=noopener>Noteworthy theme</a></p><p><a href=https://gohugo.io target=_blank rel=noopener>Built with Hugo</a></p></div><script src=https://donnywinston.com/js/main.min.a7205ef73b078c8daed6fe1b0826e8ba229ffabbb69d299d9446cf41f2c7d8aa.js integrity="sha256-pyBe9zsHjI2u1v4bCCbouiKf+ru2nSmdlEbPQfLH2Ko=" crossorigin=anonymous></script></footer></nav><div id=content class=content-container><h1 class=post-title>Implementing the FAIR Principles Through FAIR-Enabling Artifacts and Services</h1><time>October 21, 2022</time><div><p><p>How does a <a href=https://researchsoftware.org/>Research Software Engineer (RSE)</a> — often
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+ responsible for developing infrastructure to manage and share digital research objects (data,
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+ models, code, notebooks, workflows, etc.) — get from &ldquo;Yes, FAIR sounds great, but how?&rdquo; to &ldquo;I better
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+ understand what the FAIR principles really mean and how I can put them into practice.&rdquo;? I hope the
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+ diagram below can help.</p><figure><a href=/fair-enabling-resources-services-principles-diagram.pdf><img src=/img/fair-enabling-resources-services-principles-diagram-nocaption.svg width=100%></a><figcaption>Relating
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+ <a href=https://w3id.org/fair/fip/terms/FAIR-Enabling-Resource>FAIR-Enabling Resource</a>
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+ <strong>artifacts</strong>, from the
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+ <a href=https://w3id.org/fair/fip/terms/FIP-Ontology>FAIR Implementation Profile (FIP) ontology</a>,
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+ to <strong>services</strong>.
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+ These services are what you deploy to implement each of the 15
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+ <a href=https://w3id.org/fair/principles/terms/FAIR>FAIR Principles</a>
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+ (from Box 2 of the <a href=https://doi.org/10.1038/sdata.2016.18>seminal publication</a>)
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+ for any actual given digital research object.</figcaption></figure></p></div><div class=page-footer></div><link rel=stylesheet type=text/css href=/css/katex.min.css crossorigin=anonymous><script type=text/javascript src=/js/katex.min.js crossorigin=anonymous></script>
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+ recorded_at: Sun, 19 Mar 2023 17:36:01 GMT
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