bolognese 2.3.6 → 2.3.9

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (551) hide show
  1. checksums.yaml +4 -4
  2. data/Gemfile.lock +1 -1
  3. data/README.md +1 -1
  4. data/bolognese.gemspec +1 -2
  5. data/lib/bolognese/datacite_utils.rb +10 -3
  6. data/lib/bolognese/readers/datacite_reader.rb +5 -9
  7. data/lib/bolognese/utils.rb +5 -3
  8. data/lib/bolognese/version.rb +1 -1
  9. metadata +2 -544
  10. data/spec/array_spec.rb +0 -22
  11. data/spec/author_utils_spec.rb +0 -259
  12. data/spec/cli_spec.rb +0 -226
  13. data/spec/datacite_utils_spec.rb +0 -357
  14. data/spec/doi_utils_spec.rb +0 -314
  15. data/spec/find_from_format_spec.rb +0 -114
  16. data/spec/fixtures/aida.json +0 -82
  17. data/spec/fixtures/cgimp_package.json +0 -18
  18. data/spec/fixtures/cit_package.json +0 -19
  19. data/spec/fixtures/citeproc-no-author.json +0 -26
  20. data/spec/fixtures/citeproc-no-categories.json +0 -21
  21. data/spec/fixtures/citeproc.json +0 -36
  22. data/spec/fixtures/codemeta.json +0 -86
  23. data/spec/fixtures/codemeta_v2.json +0 -86
  24. data/spec/fixtures/crosscite.json +0 -63
  25. data/spec/fixtures/crossref.bib +0 -14
  26. data/spec/fixtures/crossref.ris +0 -15
  27. data/spec/fixtures/crossref.xml +0 -606
  28. data/spec/fixtures/crossref_schema_4.6_values.xml +0 -183
  29. data/spec/fixtures/datacite-empty-sizes.xml +0 -57
  30. data/spec/fixtures/datacite-example-ROR-nameIdentifiers.xml +0 -125
  31. data/spec/fixtures/datacite-example-affiliation.xml +0 -114
  32. data/spec/fixtures/datacite-example-ancientdates-v4.3.xml +0 -29
  33. data/spec/fixtures/datacite-example-complicated-tba.xml +0 -56
  34. data/spec/fixtures/datacite-example-complicated-v3.0.xml +0 -48
  35. data/spec/fixtures/datacite-example-complicated-v4.0.xml +0 -54
  36. data/spec/fixtures/datacite-example-complicated-v4.1.xml +0 -57
  37. data/spec/fixtures/datacite-example-dissertation-v4.4.xml +0 -56
  38. data/spec/fixtures/datacite-example-escaped-text.xml +0 -56
  39. data/spec/fixtures/datacite-example-full-v4.4.xml +0 -114
  40. data/spec/fixtures/datacite-example-full-v4.5.xml +0 -255
  41. data/spec/fixtures/datacite-example-full-v4.6.xml +0 -114
  42. data/spec/fixtures/datacite-example-geolocation-2.xml +0 -141
  43. data/spec/fixtures/datacite-example-geolocation.xml +0 -66
  44. data/spec/fixtures/datacite-example-nameIdentifier-with-schemeURI.xml +0 -94
  45. data/spec/fixtures/datacite-example-polygon-v4.1.xml +0 -163
  46. data/spec/fixtures/datacite-example-relateditems-with-attributes.xml +0 -61
  47. data/spec/fixtures/datacite-example-relateditems.xml +0 -61
  48. data/spec/fixtures/datacite-example-xs-string.xml +0 -28
  49. data/spec/fixtures/datacite-formats-with-xs.xml +0 -22
  50. data/spec/fixtures/datacite-funderIdentifier.xml +0 -98
  51. data/spec/fixtures/datacite-geolocation-empty.xml +0 -159
  52. data/spec/fixtures/datacite-geolocationpolygons-multiple.xml +0 -76
  53. data/spec/fixtures/datacite-metadata-sample-complicated-v2.2.xml +0 -52
  54. data/spec/fixtures/datacite-multiple-language.xml +0 -38
  55. data/spec/fixtures/datacite-multiple-rights.xml +0 -59
  56. data/spec/fixtures/datacite-schema-2.2.xml +0 -80
  57. data/spec/fixtures/datacite-seriesinformation.xml +0 -46
  58. data/spec/fixtures/datacite-space-in-sizes.xml +0 -52
  59. data/spec/fixtures/datacite-xml-lang.xml +0 -51
  60. data/spec/fixtures/datacite.json +0 -89
  61. data/spec/fixtures/datacite.xml +0 -40
  62. data/spec/fixtures/datacite_blank_name_identifier.xml +0 -22
  63. data/spec/fixtures/datacite_blank_publisher.xml +0 -18
  64. data/spec/fixtures/datacite_dataset.xml +0 -58
  65. data/spec/fixtures/datacite_journal_article.xml +0 -64
  66. data/spec/fixtures/datacite_malformed_creator.xml +0 -52
  67. data/spec/fixtures/datacite_missing_creator.xml +0 -33
  68. data/spec/fixtures/datacite_schema_3.xml +0 -58
  69. data/spec/fixtures/datacite_software.json +0 -21
  70. data/spec/fixtures/datacite_software_missing_comma.json +0 -18
  71. data/spec/fixtures/datacite_software_overlapping_keys.json +0 -18
  72. data/spec/fixtures/datacite_software_version.json +0 -74
  73. data/spec/fixtures/edam_package.json +0 -12
  74. data/spec/fixtures/funding_reference.xml +0 -53
  75. data/spec/fixtures/gtex.xml +0 -71
  76. data/spec/fixtures/maremma/codemeta.json +0 -36
  77. data/spec/fixtures/nist.xml +0 -35
  78. data/spec/fixtures/ns0.xml +0 -2
  79. data/spec/fixtures/pure.bib +0 -14
  80. data/spec/fixtures/pure.ris +0 -15
  81. data/spec/fixtures/pure.xml +0 -188
  82. data/spec/fixtures/ris_bug.ris +0 -9
  83. data/spec/fixtures/schema_4.0.xml +0 -140
  84. data/spec/fixtures/schema_org.json +0 -50
  85. data/spec/fixtures/schema_org_4.6_attributes.json +0 -108
  86. data/spec/fixtures/schema_org_geolocation.json +0 -82
  87. data/spec/fixtures/schema_org_geoshape.json +0 -550
  88. data/spec/fixtures/schema_org_gtex.json +0 -75
  89. data/spec/fixtures/schema_org_list.json +0 -12623
  90. data/spec/fixtures/schema_org_tdl_iodp_invalid_authors.json +0 -25
  91. data/spec/fixtures/schema_org_topmed.json +0 -53
  92. data/spec/fixtures/schema_org_type_as_array.json +0 -41
  93. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/default.yml +0 -106
  94. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/to_bibtex.yml +0 -106
  95. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/to_citation.yml +0 -106
  96. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/to_crossref.yml +0 -106
  97. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/to_datacite.yml +0 -106
  98. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/to_jats.yml +0 -106
  99. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/crossref/to_schema_org.yml +0 -106
  100. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/default.yml +0 -106
  101. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/to_bibtex.yml +0 -106
  102. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/to_citation.yml +0 -106
  103. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/to_datacite.yml +0 -106
  104. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/to_datacite_json.yml +0 -106
  105. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/to_jats.yml +0 -106
  106. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/datacite/to_schema_org.yml +0 -106
  107. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/schema_org/default.yml +0 -117
  108. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/schema_org/to_datacite.yml +0 -117
  109. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/convert_from_id/schema_org/to_schema_org.yml +0 -115
  110. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/find_from_format_by_id/crossref.yml +0 -54
  111. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/find_from_format_by_id/datacite.yml +0 -54
  112. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/find_from_format_by_id/jalc.yml +0 -54
  113. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/find_from_format_by_id/kisti.yml +0 -54
  114. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/find_from_format_by_id/medra.yml +0 -54
  115. data/spec/fixtures/vcr_cassettes/Bolognese_CLI/find_from_format_by_id/op.yml +0 -54
  116. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/authors_as_string/author.yml +0 -48
  117. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/authors_as_string/no_author.yml +0 -48
  118. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/authors_as_string/single_author.yml +0 -48
  119. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/authors_as_string/with_organization.yml +0 -48
  120. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_datacite_metadata/change_state.yml +0 -106
  121. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_datacite_metadata/change_title.yml +0 -106
  122. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/change_description.yml +0 -55
  123. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/change_identifiers.yml +0 -55
  124. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/change_license.yml +0 -55
  125. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/change_license_name.yml +0 -55
  126. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/change_license_url.yml +0 -55
  127. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/change_state.yml +0 -55
  128. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/validates_against_schema.yml +0 -55
  129. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/change_metadata_as_datacite_xml/with_data_citation.yml +0 -55
  130. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/doi.yml +0 -48
  131. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/doi_with_protocol.yml +0 -48
  132. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/dx_doi_org_url.yml +0 -48
  133. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/force_test_resolver.yml +0 -48
  134. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/https_url.yml +0 -48
  135. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/test_resolver.yml +0 -48
  136. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_api_url/test_resolver_http.yml +0 -48
  137. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_from_url/doi.yml +0 -48
  138. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_from_url/doi_with_special_characters.yml +0 -48
  139. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_from_url/not_a_doi.yml +0 -48
  140. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_from_url/sandbox_url.yml +0 -48
  141. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_from_url/url.yml +0 -48
  142. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/crossref.yml +0 -99
  143. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/datacite.yml +0 -99
  144. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/jalc.yml +0 -99
  145. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/kisti.yml +0 -99
  146. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/medra.yml +0 -99
  147. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/not_a_valid_prefix.yml +0 -48
  148. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/not_found.yml +0 -99
  149. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_registration_agency/op.yml +0 -99
  150. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/doi.yml +0 -48
  151. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/doi_with_protocol.yml +0 -48
  152. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/dx_doi_org_url.yml +0 -48
  153. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/force_stage_resolver.yml +0 -48
  154. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/https_url.yml +0 -48
  155. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/stage_resolver.yml +0 -48
  156. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/doi_resolver/stage_resolver_http.yml +0 -48
  157. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/crossref.yml +0 -157
  158. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/crossref_doi_not_url.yml +0 -157
  159. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/datacite.yml +0 -157
  160. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/datacite_doi_http.yml +0 -157
  161. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/github.yml +0 -106
  162. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/orcid.yml +0 -106
  163. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/schema_org.yml +0 -106
  164. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_by_ID/unknown_DOI_registration_agency.yml +0 -157
  165. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/bibtex.yml +0 -106
  166. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/citeproc.yml +0 -106
  167. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/codemeta.yml +0 -106
  168. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/crosscite.yml +0 -106
  169. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/crossref.yml +0 -106
  170. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/datacite.yml +0 -106
  171. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/datacite_json.yml +0 -106
  172. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/ris.yml +0 -106
  173. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_file/schema_org.yml +0 -106
  174. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/find_from_format_from_string/crosscite.yml +0 -106
  175. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/hsh_to_fos_for_match.yml +0 -48
  176. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/hsh_to_fos_for_with_schemeUri_in_hash.yml +0 -48
  177. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/hsh_to_fos_match.yml +0 -48
  178. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/hsh_to_fos_no_match.yml +0 -48
  179. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/name_to_fos_for_match.yml +0 -48
  180. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/name_to_fos_match.yml +0 -48
  181. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/fos/name_to_fos_no_match.yml +0 -48
  182. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/from_schema_org/with_id.yml +0 -48
  183. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/from_schema_org_creators/with_affiliation.yml +0 -48
  184. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/from_schema_org_creators/without_affiliation.yml +0 -48
  185. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_codemeta_metadata/maremma.yml +0 -75
  186. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_codemeta_metadata/metadata_reports.yml +0 -75
  187. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/DOI_with_ORCID_ID.yml +0 -103
  188. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/DOI_with_SICI_DOI.yml +0 -102
  189. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/DOI_with_data_citation.yml +0 -106
  190. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/JaLC.yml +0 -137
  191. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/KISTI.yml +0 -158
  192. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/OP.yml +0 -100
  193. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/affiliation_is_space.yml +0 -101
  194. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/another_book.yml +0 -98
  195. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/another_book_chapter.yml +0 -100
  196. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/article_id_as_page_number.yml +0 -101
  197. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/author_literal.yml +0 -108
  198. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/book.yml +0 -99
  199. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/book_chapter.yml +0 -170
  200. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/book_chapter_with_RDF_for_container.yml +0 -99
  201. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/book_oup.yml +0 -98
  202. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/component.yml +0 -120
  203. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/dataset.yml +0 -130
  204. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/dataset_usda.yml +0 -143
  205. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/date_in_future.yml +0 -101
  206. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/dissertation.yml +0 -129
  207. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/empty_given_name.yml +0 -101
  208. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/invalid_date.yml +0 -101
  209. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/journal_article.yml +0 -100
  210. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/journal_article_original_language_title.yml +0 -99
  211. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/journal_article_with.yml +0 -104
  212. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/journal_article_with_RDF_for_container.yml +0 -99
  213. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/journal_article_with_funding.yml +0 -100
  214. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/journal_issue.yml +0 -127
  215. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/mEDRA.yml +0 -98
  216. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/markup.yml +0 -105
  217. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/missing_creator.yml +0 -100
  218. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/multiple_issn.yml +0 -99
  219. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/multiple_titles.yml +0 -98
  220. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/multiple_titles_with_missing.yml +0 -450
  221. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/not_found_error.yml +0 -97
  222. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/peer_review.yml +0 -103
  223. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/posted_content.yml +0 -99
  224. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/get_crossref_metadata/posted_content_copernicus.yml +0 -102
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  411. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_orcid_scheme/validate_orcid_scheme.yml +0 -48
  412. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_orcid_scheme/validate_orcid_scheme_https.yml +0 -48
  413. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_orcid_scheme/validate_orcid_scheme_trailing_slash.yml +0 -48
  414. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_orcid_scheme/validate_orcid_scheme_www.yml +0 -48
  415. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_prefix/doi.yml +0 -48
  416. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_prefix/doi_as_url.yml +0 -48
  417. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_prefix/doi_with_protocol.yml +0 -48
  418. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_prefix/only_prefix.yml +0 -48
  419. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_url/DOI.yml +0 -48
  420. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_url/ISSN.yml +0 -48
  421. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_url/URL.yml +0 -48
  422. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/validate_url/string.yml +0 -48
  423. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/BlogPosting.yml +0 -55
  424. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/Dataset.yml +0 -55
  425. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/authors_with_affiliations.yml +0 -114
  426. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/climate_data.yml +0 -55
  427. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/from_schema_org.yml +0 -115
  428. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/keywords_subject_scheme.yml +0 -55
  429. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/maremma.yml +0 -75
  430. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/text.yml +0 -55
  431. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/with_data_citation.yml +0 -55
  432. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_bibtex/with_pages.yml +0 -52
  433. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citation/Dataset.yml +0 -55
  434. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citation/Journal_article.yml +0 -55
  435. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citation/Journal_article_vancouver_style.yml +0 -55
  436. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citation/Missing_author.yml +0 -49
  437. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citation/interactive_resource_without_dates.yml +0 -55
  438. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citation/software_w/version.yml +0 -55
  439. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/Another_dataset.yml +0 -55
  440. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/BlogPosting.yml +0 -55
  441. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/BlogPosting_schema_org.yml +0 -115
  442. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/Dataset.yml +0 -55
  443. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/container_title.yml +0 -55
  444. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/interactive_resource_without_dates.yml +0 -55
  445. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/journal_article.yml +0 -55
  446. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/keywords_subject_scheme.yml +0 -55
  447. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/maremma.yml +0 -75
  448. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/missing_creator.yml +0 -49
  449. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/multiple_abstracts.yml +0 -55
  450. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/organization_author.yml +0 -52
  451. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/software.yml +0 -55
  452. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/software_w/version.yml +0 -55
  453. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/with_only_first_page.yml +0 -50
  454. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_citeproc/with_pages.yml +0 -52
  455. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_codemeta/SoftwareSourceCode_DataCite.yml +0 -55
  456. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_codemeta/SoftwareSourceCode_DataCite_check_codemeta_v2.yml +0 -55
  457. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_crosscite/datacite_database_attributes.yml +0 -55
  458. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_crosscite/maremma.yml +0 -75
  459. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_crosscite/with_ORCID_ID.yml +0 -52
  460. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_crosscite/with_data_citation.yml +0 -55
  461. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_crosscite/with_data_citation_schema_org.yml +0 -117
  462. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_crossref/from_DataCite.yml +0 -55
  463. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_csv/climate_data.yml +0 -55
  464. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_csv/maremma.yml +0 -75
  465. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_csv/text.yml +0 -55
  466. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_csv/with_data_citation.yml +0 -55
  467. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_csv/with_pages.yml +0 -52
  468. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_json/maremma.yml +0 -75
  469. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_json/with_ORCID_ID.yml +0 -52
  470. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_json/with_data_citation.yml +0 -55
  471. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_json/with_data_citation_schema_org.yml +0 -117
  472. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/DOI_not_found.yml +0 -51
  473. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/Dataset_in_schema_4_0.yml +0 -55
  474. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/Text_pass-thru.yml +0 -55
  475. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/Text_pass-thru_with_doi_in_options.yml +0 -55
  476. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/maremma.yml +0 -75
  477. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/with_ORCID_ID.yml +0 -52
  478. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/with_data_citation.yml +0 -55
  479. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/with_data_citation_schema_org.yml +0 -115
  480. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_datacite_xml/with_editor.yml +0 -49
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  482. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/Dataset_in_schema_4_0.yml +0 -55
  483. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/Text_pass-thru.yml +0 -55
  484. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/book_chapter.yml +0 -88
  485. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/interactive_resource_without_dates.yml +0 -55
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  487. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/with_ORCID_ID.yml +0 -52
  488. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/with_data_citation.yml +0 -55
  489. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/with_data_citation_schema_org.yml +0 -117
  490. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_jats_xml/with_editor.yml +0 -49
  491. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_rdf_xml/BlogPosting.yml +0 -55
  492. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_rdf_xml/BlogPosting_schema_org.yml +0 -117
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  496. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_ris/BlogPosting.yml +0 -55
  497. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_ris/BlogPosting_schema_org.yml +0 -117
  498. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_ris/Dataset.yml +0 -55
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  501. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_ris/keywords_with_subject_scheme.yml +0 -55
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  504. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/Funding.yml +0 -106
  505. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/Funding_OpenAIRE.yml +0 -106
  506. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/Schema_org_JSON.yml +0 -55
  507. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/Schema_org_JSON_Cyark.yml +0 -106
  508. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/Schema_org_JSON_IsSupplementTo.yml +0 -106
  509. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/Schema_org_JSON_isReferencedBy.yml +0 -55
  510. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/alternate_identifiers.yml +0 -55
  511. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/data_catalog.yml +0 -55
  512. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/geo_location_box.yml +0 -55
  513. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/interactive_resource_without_dates.yml +0 -55
  514. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/journal_article.yml +0 -55
  515. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/maremma_schema_org_JSON.yml +0 -75
  516. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/series_information.yml +0 -55
  517. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/subject_scheme.yml +0 -55
  518. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_schema_org/subject_scheme_multiple_keywords.yml +0 -55
  519. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_turtle/BlogPosting.yml +0 -55
  520. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_turtle/BlogPosting_schema_org.yml +0 -117
  521. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_turtle/Dataset.yml +0 -55
  522. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_turtle/journal_article.yml +0 -55
  523. data/spec/fixtures/vcr_cassettes/Bolognese_Metadata/write_metadata_as_turtle/with_pages.yml +0 -52
  524. data/spec/fixtures/vivli.xml +0 -1
  525. data/spec/metadata_spec.rb +0 -165
  526. data/spec/readers/bibtex_reader_spec.rb +0 -65
  527. data/spec/readers/citeproc_reader_spec.rb +0 -65
  528. data/spec/readers/codemeta_reader_spec.rb +0 -138
  529. data/spec/readers/crosscite_reader_spec.rb +0 -43
  530. data/spec/readers/crossref_reader_spec.rb +0 -1133
  531. data/spec/readers/datacite_json_reader_spec.rb +0 -82
  532. data/spec/readers/datacite_reader_spec.rb +0 -1853
  533. data/spec/readers/npm_reader_spec.rb +0 -68
  534. data/spec/readers/ris_reader_spec.rb +0 -78
  535. data/spec/readers/schema_org_reader_spec.rb +0 -371
  536. data/spec/spec_helper.rb +0 -95
  537. data/spec/utils_spec.rb +0 -666
  538. data/spec/writers/bibtex_writer_spec.rb +0 -195
  539. data/spec/writers/citation_writer_spec.rb +0 -61
  540. data/spec/writers/citeproc_writer_spec.rb +0 -299
  541. data/spec/writers/codemeta_writer_spec.rb +0 -45
  542. data/spec/writers/crosscite_writer_spec.rb +0 -129
  543. data/spec/writers/crossref_writer_spec.rb +0 -21
  544. data/spec/writers/csv_writer_spec.rb +0 -94
  545. data/spec/writers/datacite_json_writer_spec.rb +0 -112
  546. data/spec/writers/datacite_writer_spec.rb +0 -578
  547. data/spec/writers/jats_writer_spec.rb +0 -208
  548. data/spec/writers/rdf_xml_writer_spec.rb +0 -93
  549. data/spec/writers/ris_writer_spec.rb +0 -207
  550. data/spec/writers/schema_org_writer_spec.rb +0 -426
  551. data/spec/writers/turtle_writer_spec.rb +0 -102
data/spec/fixtures/datacite-example-complicated-v4.0.xml DELETED
@@ -1,54 +0,0 @@
1
- <?xml version="1.0" encoding="UTF-8"?>
2
- <resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://datacite.org/schema/kernel-4.0" xsi:schemaLocation="http://datacite.org/schema/kernel-4.0 http://schema.datacite.org/meta/kernel-4.0/metadata.xsd">
3
- <identifier identifierType="DOI">10.5072/testpub</identifier>
4
- <creators>
5
- <creator>
6
- <creatorName>Smith, John</creatorName>
7
- </creator>
8
- <creator>
9
- <creatorName>つまらないものですが</creatorName>
10
- <nameIdentifier nameIdentifierScheme="ISNI" schemeURI="http://isni.org/isni/">0000000134596520</nameIdentifier>
11
- </creator>
12
- </creators>
13
- <titles>
14
- <title>Właściwości rzutowań podprzestrzeniowych</title>
15
- <title titleType="TranslatedTitle">Translation of Polish titles</title>
16
- </titles>
17
- <publisher>Springer</publisher>
18
- <publicationYear>2010</publicationYear>
19
- <subjects>
20
- <subject subjectScheme="DDC">830 German &amp; related literatures</subject>
21
- <subject>Polish Literature</subject>
22
- </subjects>
23
- <contributors>
24
- <contributor contributorType="DataCollector">
25
- <contributorName>Doe, John</contributorName>
26
- <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0001-5393-1421</nameIdentifier>
27
- </contributor>
28
- </contributors>
29
- <language>GER</language>
30
- <resourceType resourceTypeGeneral="Text">Monograph</resourceType>
31
- <alternateIdentifiers>
32
- <alternateIdentifier alternateIdentifierType="ISBN">937-0-4523-12357-6</alternateIdentifier>
33
- </alternateIdentifiers>
34
- <relatedIdentifiers>
35
- <relatedIdentifier relatedIdentifierType="DOI" relationType="IsPartOf">10.5272/oldertestpub</relatedIdentifier>
36
- </relatedIdentifiers>
37
- <sizes>
38
- <size>256 pages</size>
39
- </sizes>
40
- <formats>
41
- <format>pdf</format>
42
- </formats>
43
- <version>2</version>
44
- <rightsList>
45
- <rights rightsURI="http://creativecommons.org/licenses/by-nd/2.0/">Creative Commons Attribution-NoDerivs 2.0 Generic</rights>
46
- </rightsList>
47
- <descriptions>
48
- <description descriptionType="Abstract">
49
- Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores et ea rebum. Stet clita kasd gubergren, no sea
50
- takimata sanctus est Lorem ipsum dolor sit amet. Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores
51
- et ea rebum. Stet clita kasd gubergren, no sea takimata sanctus est Lorem ipsum dolor sit amet.
52
- </description>
53
- </descriptions>
54
- </resource>
data/spec/fixtures/datacite-example-complicated-v4.1.xml DELETED
@@ -1,57 +0,0 @@
1
- <?xml version="1.0" encoding="UTF-8"?>
2
- <resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4/metadata.xsd">
3
- <identifier identifierType="DOI">10.5072/testpub</identifier>
4
- <creators>
5
- <creator>
6
- <creatorName nameType="Personal">Smith, John</creatorName>
7
- </creator>
8
- <creator>
9
- <creatorName>つまらないものですが</creatorName>
10
- <nameIdentifier nameIdentifierScheme="ISNI" schemeURI="http://isni.org/isni/">0000000134596520</nameIdentifier>
11
- </creator>
12
- </creators>
13
- <titles>
14
- <title>Właściwości rzutowań podprzestrzeniowych</title>
15
- <title titleType="TranslatedTitle">Translation of Polish titles</title>
16
- </titles>
17
- <publisher>Springer</publisher>
18
- <publicationYear>2010</publicationYear>
19
- <subjects>
20
- <subject subjectScheme="DDC">830 German &amp; related literatures</subject>
21
- <subject>Polish Literature</subject>
22
- </subjects>
23
- <dates>
24
- <date dateType="Other" dateInformation="Correction">2012-12-13</date>
25
- </dates>
26
- <contributors>
27
- <contributor contributorType="DataCollector">
28
- <contributorName>Doe, John</contributorName>
29
- <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0001-5393-1421</nameIdentifier>
30
- </contributor>
31
- </contributors>
32
- <language>GER</language>
33
- <resourceType resourceTypeGeneral="Text">Monograph</resourceType>
34
- <alternateIdentifiers>
35
- <alternateIdentifier alternateIdentifierType="ISBN">937-0-4523-12357-6</alternateIdentifier>
36
- </alternateIdentifiers>
37
- <relatedIdentifiers>
38
- <relatedIdentifier resourceTypeGeneral="Text" relatedIdentifierType="DOI" relationType="IsPartOf">10.5272/oldertestpub</relatedIdentifier>
39
- </relatedIdentifiers>
40
- <sizes>
41
- <size>256 pages</size>
42
- </sizes>
43
- <formats>
44
- <format>pdf</format>
45
- </formats>
46
- <version>2</version>
47
- <rightsList>
48
- <rights xml:lang="eng" rightsURI="http://creativecommons.org/licenses/by-nd/2.0/">Creative Commons Attribution-NoDerivs 2.0 Generic</rights>
49
- </rightsList>
50
- <descriptions>
51
- <description descriptionType="Abstract">
52
- Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores et ea rebum. Stet clita kasd gubergren, no sea
53
- takimata sanctus est Lorem ipsum dolor sit amet. Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores
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- et ea rebum. Stet clita kasd gubergren, no sea takimata sanctus est Lorem ipsum dolor sit amet.
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- </description>
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- </descriptions>
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- </resource>
data/spec/fixtures/datacite-example-dissertation-v4.4.xml DELETED
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- <?xml version="1.0" encoding="UTF-8"?>
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- <resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
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- xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4.4/metadata.xsd">
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- <identifier identifierType="DOI">10.5072/100044</identifier>
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- <creators>
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- <creator>
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- <creatorName nameType="Personal">Luo, R</creatorName>
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- </creator>
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- <creator>
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- <creatorName nameType="Personal">Liu, B</creatorName>
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- </creator>
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- <creator>
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- <creatorName nameType="Personal">Xie, Y</creatorName>
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- </creator>
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- <creator>
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- <creatorName nameType="Personal">Li, Z</creatorName>
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- </creator>
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- </creators>
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- <titles>
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- <title xml:lang="en">
21
- Software and supporting material for "SOAPdenovo2: An empirically improved memory-efficient short read de novo assembly"
22
- </title>
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- </titles>
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- <publisher xml:lang="en">GigaScience Database</publisher>
25
- <publicationYear>2012</publicationYear>
26
- <subjects>
27
- <subject xml:lang="en">DNA (Genetics)</subject>
28
- <subject xml:lang="en">Computer Program</subject>
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- </subjects>
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- <dates>
31
- <date dateType="Available">2012-12-13</date>
32
- </dates>
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- <language>en</language>
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- <resourceType resourceTypeGeneral="Dissertation"></resourceType>
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- <relatedIdentifiers>
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- <relatedIdentifier relatedIdentifierType="DOI" relationType="IsReferencedBy">10.5072/2047-217X-1-1</relatedIdentifier>
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- <relatedIdentifier relatedIdentifierType="DOI" relationType="Compiles">10.5072/100038</relatedIdentifier>
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- <sizes>
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- <size>31 MB</size>
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- <rightsList>
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- <rights xml:lang="en-US" schemeURI="https://spdx.org/licenses/" rightsIdentifierScheme="SPDX" rightsIdentifier="CC0 1.0" rightsURI="http://creativecommons.org/publicdomain/zero/1.0/"/>
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- </rightsList>
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- <descriptions>
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- <description xml:lang="en" descriptionType="Abstract">
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- SOAPdenovo2 is the latest de novo genome assembly package from BGI's SOAP (short oligonucleotide analysis package) suite of tools (homepage here: http://soap.genomics.org.cn/). Compared to SOAPdenovo1, this new version has the advantage of a new
48
- algorithm design that reduces memory consumption in graph construction, resolves more repeat regions in contig assembly, increases coverage and length in scaffold construction, improves gap closure, and is optimized for large genomes. Using new
49
- sequencing data from the YH (Homo sapiens) diploid genome - the first sequenced Han Chinese individual, an updated assembly was produced (see dataset here: doi:10.5524/100038), with the N50 scores for the contig and scaffold being 3-fold and 50-fold
50
- longer, respectively, than the first published version. The genome coverage increased from 81.16% to 93.91%, and memory consumption was ~2/3 times lower during the point of largest memory consumption. Benchmarking with Assemblathon1 and GAGE datasets
51
- shows that SOAPdenovo2 greatly surpasses its predecessor SOAPdenovo1 and is competitive to other assemblers on both assembly length and accuracy. In order to facilitate readers to repeat and recreate these findings, configured packages with the
52
- compressed pipelines containing all of the necessary shell scripts and tools are available from the BGI FTP server (ftp://public.genomics.org.cn/BGI/SOAPdenovo2). The latest version of SOAPdenovo2 is available from Sourceforge:
53
- http://soapdenovo2.sourceforge.net/ These pipelines will also soon be made available from our data platform as Galaxy workflows: http://galaxy.cbiit.cuhk.edu.hk/
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- </description>
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- </descriptions>
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- </resource>
data/spec/fixtures/datacite-example-escaped-text.xml DELETED
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- <?xml version="1.0" encoding="UTF-8"?>
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- <identifier identifierType="DOI">10.5072/testpub</identifier>
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- <creators>
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- <creator>
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- <creatorName nameType="Personal">Smith, John</creatorName>
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- </creator>
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- <creator>
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- <creatorName>つまらないものですが</creatorName>
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- <nameIdentifier nameIdentifierScheme="ISNI" schemeURI="http://isni.org/isni/">0000000134596520</nameIdentifier>
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- </creators>
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- <titles>
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- <title>Some initial text&lt;the rest of the text won't display.</title>
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- </titles>
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- <publisher>Springer</publisher>
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- <publicationYear>2010</publicationYear>
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- <subjects>
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- <subject subjectScheme="DDC">830 German &amp; related literatures</subject>
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- <subject>Polish Literature</subject>
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- </subjects>
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- <dates>
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- <date dateType="Other" dateInformation="Correction">2012-12-13</date>
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- </dates>
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- <contributors>
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- <contributor contributorType="DataCollector">
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- <contributorName>Doe, John</contributorName>
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- <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="http://orcid.org/">0000-0001-5393-1421</nameIdentifier>
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- <language>GER</language>
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- <resourceType resourceTypeGeneral="Text">Monograph</resourceType>
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- <alternateIdentifiers>
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- <alternateIdentifier alternateIdentifierType="ISBN">937-0-4523-12357-6</alternateIdentifier>
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- <relatedIdentifiers>
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- <relatedIdentifier resourceTypeGeneral="Text" relatedIdentifierType="DOI" relationType="IsPartOf">10.5272/oldertestpub</relatedIdentifier>
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- </relatedIdentifiers>
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- <sizes>
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- <size>256 pages</size>
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- </sizes>
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- <formats>
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- <format>pdf</format>
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- </formats>
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- <version>2</version>
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- <rightsList>
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- <rights xml:lang="eng" rightsURI="http://creativecommons.org/licenses/by-nd/2.0/">Creative Commons Attribution-NoDerivs 2.0 Generic</rights>
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- </rightsList>
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- <descriptions>
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- <description descriptionType="Abstract">
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- Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores et ea rebum. Stet clita kasd gubergren, no sea
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- takimata sanctus est Lorem ipsum dolor sit amet. Lorem ipsum dolor sit amet, consetetur sadipscing elitr, sed diam nonumy eirmod tempor invidunt ut labore et dolore magna aliquyam erat, sed diam voluptua. At vero eos et accusam et justo duo dolores
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- et ea rebum. Stet clita kasd gubergren, no sea takimata sanctus est Lorem ipsum dolor sit amet.
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- </description>
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- </descriptions>
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- </resource>
data/spec/fixtures/datacite-example-full-v4.4.xml DELETED
@@ -1,114 +0,0 @@
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- <?xml version="1.0" encoding="UTF-8"?>
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- <resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
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- xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4.4/metadata.xsd">
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- <identifier identifierType="DOI">10.5072/example-full</identifier>
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- <creators>
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- <creator>
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- <creatorName nameType="Personal">Miller, Elizabeth</creatorName>
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- <givenName>Elizabeth</givenName>
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- <familyName>Miller</familyName>
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- <nameIdentifier schemeURI="https://orcid.org/" nameIdentifierScheme="ORCID">0000-0001-5000-0007</nameIdentifier>
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- <affiliation>DataCite</affiliation>
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- </creator>
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- </creators>
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- <titles>
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- <title xml:lang="en-US">Full DataCite XML Example</title>
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- <title xml:lang="en-US" titleType="Subtitle">Demonstration of DataCite Properties.</title>
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- </titles>
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- <publisher xml:lang="en">DataCite</publisher>
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- <publicationYear>2014</publicationYear>
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- <subjects>
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- <subject xml:lang="en-US" schemeURI="http://dewey.info/" subjectScheme="dewey" classificationCode="000">computer science</subject>
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- </subjects>
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- <contributors>
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- <contributor contributorType="ProjectLeader">
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- <contributorName>Starr, Joan</contributorName>
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- <givenName>Joan</givenName>
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- <familyName>Starr</familyName>
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- <nameIdentifier schemeURI="https://orcid.org/" nameIdentifierScheme="ORCID">0000-0002-7285-027X</nameIdentifier>
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- <affiliation>California Digital Library</affiliation>
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- </contributor>
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- </contributors>
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- <dates>
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- <date dateType="Updated" dateInformation="Updated with 4.4 properties">2021-01-26</date>
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- </dates>
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- <language>en-US</language>
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- <resourceType resourceTypeGeneral="Software">XML</resourceType>
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- <alternateIdentifiers>
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- <alternateIdentifier alternateIdentifierType="URL">https://schema.datacite.org/meta/kernel-4.4/example/datacite-example-full-v4.4.xml</alternateIdentifier>
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- </alternateIdentifiers>
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- <relatedIdentifiers>
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- <relatedIdentifier relatedIdentifierType="URL" relationType="HasMetadata" relatedMetadataScheme="citeproc+json" schemeURI="https://github.com/citation-style-language/schema/raw/master/csl-data.json">https://data.datacite.org/application/citeproc+json/10.5072/example-full</relatedIdentifier>
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- <relatedIdentifier relatedIdentifierType="arXiv" relationType="IsReviewedBy" resourceTypeGeneral="Text">arXiv:0706.0001</relatedIdentifier>
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- <sizes>
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- <size>4 kB</size>
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- </sizes>
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- <formats>
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- <format>application/xml</format>
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- </formats>
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- <version>4.2</version>
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- <rightsList>
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- <rights xml:lang="en-US" schemeURI="https://spdx.org/licenses/" rightsIdentifierScheme="SPDX" rightsIdentifier="CC0 1.0" rightsURI="https://creativecommons.org/publicdomain/zero/1.0/"/>
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- </rightsList>
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- <descriptions>
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- <description xml:lang="en-US" descriptionType="Abstract">XML example of all DataCite Metadata Schema v4.4 properties.</description>
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- </descriptions>
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- <geoLocations>
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- <geoLocation>
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- <geoLocationPlace>Atlantic Ocean</geoLocationPlace>
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- <geoLocationPoint>
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- <pointLongitude>-67.302</pointLongitude>
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- <geoLocationBox>
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- <westBoundLongitude>-71.032</westBoundLongitude>
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- <eastBoundLongitude>-68.211</eastBoundLongitude>
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- <southBoundLatitude>41.090</southBoundLatitude>
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- <northBoundLatitude>42.893</northBoundLatitude>
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- </geoLocationBox>
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- <geoLocationPolygon>
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- <polygonPoint>
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- <pointLatitude>41.991</pointLatitude>
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- <pointLongitude>-71.032</pointLongitude>
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- <polygonPoint>
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- <pointLatitude>42.893</pointLatitude>
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- <pointLongitude>-69.622</pointLongitude>
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- </polygonPoint>
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- <polygonPoint>
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- <pointLatitude>41.991</pointLatitude>
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- <pointLongitude>-68.211</pointLongitude>
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- </polygonPoint>
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- <polygonPoint>
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- <pointLatitude>41.090</pointLatitude>
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- <pointLongitude>-69.622</pointLongitude>
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- </polygonPoint>
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- <polygonPoint>
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- <pointLatitude>41.991</pointLatitude>
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- <pointLongitude>-71.032</pointLongitude>
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- </polygonPoint>
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- </geoLocationPolygon>
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- </geoLocation>
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- </geoLocations>
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- <fundingReferences>
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- <fundingReference>
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- <funderName>National Science Foundation</funderName>
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- <funderIdentifier funderIdentifierType="Crossref Funder ID">https://doi.org/10.13039/100000001</funderIdentifier>
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- <awardNumber>CBET-106</awardNumber>
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- <awardTitle>Full DataCite XML Example</awardTitle>
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- </fundingReference>
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- </fundingReferences>
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- <relatedItems>
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- <relatedItem relationType="IsPublishedIn" relatedItemType="Journal">
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- <relatedItemIdentifier relatedItemIdentifierType="DOI">10.1016/j.physletb.2017.11.044</relatedItemIdentifier>
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- <titles>
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- <title>Physics letters / B</title>
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- </titles>
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- <publicationYear>2018</publicationYear>
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- <volume>776</volume>
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- <firstPage>249</firstPage>
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- <lastPage>264</lastPage>
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data/spec/fixtures/datacite-example-full-v4.5.xml DELETED
@@ -1,255 +0,0 @@
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- <?xml version="1.0" encoding="UTF-8"?>
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- <!-- Example with all properties -->
3
- <resource
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- xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
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- xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 ../metadata.xsd">
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- <identifier identifierType="DOI">10.82433/B09Z-4K37</identifier>
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- <creators>
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- <creator>
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- <creatorName nameType="Personal">ExampleFamilyName, ExampleGivenName</creatorName>
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- <givenName>ExampleGivenName</givenName>
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- <familyName>ExampleFamilyName</familyName>
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- <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="https://orcid.org">https://orcid.org/0000-0001-5727-2427</nameIdentifier>
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- <affiliation affiliationIdentifier="https://ror.org/04wxnsj81" affiliationIdentifierScheme="ROR" schemeURI="https://ror.org">ExampleAffiliation</affiliation>
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- </creator>
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- <creator>
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- <creatorName xml:lang="en" nameType="Organizational">ExampleOrganization</creatorName>
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- <nameIdentifier nameIdentifierScheme="ROR" schemeURI="https://ror.org">https://ror.org/04wxnsj81</nameIdentifier>
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- </creator>
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- </creators>
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- <titles>
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- <title xml:lang="en">Example Title</title>
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- <title titleType="Subtitle" xml:lang="en">Example Subtitle</title>
23
- <title titleType="TranslatedTitle" xml:lang="fr">Example TranslatedTitle</title>
24
- <title titleType="AlternativeTitle" xml:lang="en">Example AlternativeTitle</title>
25
- </titles>
26
- <publisher xml:lang="en" publisherIdentifier="https://ror.org/04z8jg394" publisherIdentifierScheme="ROR" schemeURI="https://ror.org/">Example Publisher</publisher>
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- <publicationYear>2023</publicationYear>
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- <resourceType resourceTypeGeneral="Dataset">Example ResourceType</resourceType>
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- <subjects>
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- <subject subjectScheme="Fields of Science and Technology (FOS)" schemeURI="http://www.oecd.org/science/inno" valueURI="http://www.oecd.org/science/inno/38235147.pdf">FOS: Computer and information sciences</subject>
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- <subject subjectScheme="Australian and New Zealand Standard Research Classification (ANZSRC), 2020" schemeURI="https://www.abs.gov.au/statistics/classifications/australian-and-new-zealand-standard-research-classification-anzsrc" classificationCode="461001">Digital curation and preservation</subject>
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- <subject>Example Subject</subject>
33
- </subjects>
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- <contributors>
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- <contributor contributorType="ContactPerson">
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- <givenName>ExampleGivenName</givenName>
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- <familyName>ExampleFamilyName</familyName>
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- <nameIdentifier nameIdentifierScheme="ORCID" schemeURI="https://orcid.org">https://orcid.org/0000-0001-5727-2427/</nameIdentifier>
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- <affiliation affiliationIdentifier="https://ror.org/04wxnsj81" affiliationIdentifierScheme="ROR" schemeURI="https://ror.org">ExampleAffiliation</affiliation>
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- </contributor>
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- <contributor contributorType="DataCollector">
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- </contributor>
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- <contributor contributorType="DataCurator">
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- </contributor>
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- <contributor contributorType="DataManager">
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- </contributor>
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- <contributor contributorType="Distributor">
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- <contributorName nameType="Organizational">ExampleOrganization</contributorName>
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- </contributor>
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- <contributor contributorType="Editor">
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- </contributor>
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- <contributor contributorType="HostingInstitution">
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- <contributorName nameType="Organizational">ExampleOrganization</contributorName>
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- <contributor contributorType="Producer">
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- <contributor contributorType="RegistrationAgency">
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- <contributorName nameType="Organizational">DataCite</contributorName>
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- <contributor contributorType="RegistrationAuthority">
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- <contributorName nameType="Organizational">International DOI Foundation</contributorName>
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- <contributorName nameType="Personal">ExampleFamilyName, ExampleGivenName</contributorName>
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- <contributor contributorType="RightsHolder">
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- <contributor contributorType="Other">
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- <date dateType="Valid">2023-01-01</date>
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- <date dateType="Withdrawn">2023-01-01</date>
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- <date dateType="Other" dateInformation="ExampleDateInformation">2023-01-01</date>
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- <language>en</language>
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- <alternateIdentifiers>
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- <alternateIdentifier alternateIdentifierType="Local accession number">12345</alternateIdentifier>
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