briard 2.0
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- checksums.yaml +7 -0
- data/.github/workflows/build.yml +37 -0
- data/.github/workflows/changelog.yml +37 -0
- data/.github/workflows/release.yml +47 -0
- data/.gitignore +59 -0
- data/.rubocop.yml +658 -0
- data/CHANGELOG.md +1 -0
- data/CITATION +16 -0
- data/Gemfile +3 -0
- data/Gemfile.lock +226 -0
- data/LICENSE.md +21 -0
- data/README.md +1030 -0
- data/Rakefile +13 -0
- data/bin/briard +9 -0
- data/bolognese.gemspec +59 -0
- data/lib/briard/.env.example +3 -0
- data/lib/briard/array.rb +13 -0
- data/lib/briard/author_utils.rb +166 -0
- data/lib/briard/cli.rb +58 -0
- data/lib/briard/crossref_utils.rb +336 -0
- data/lib/briard/datacite_utils.rb +395 -0
- data/lib/briard/doi_utils.rb +65 -0
- data/lib/briard/metadata.rb +285 -0
- data/lib/briard/metadata_utils.rb +215 -0
- data/lib/briard/pubmed.rb +36 -0
- data/lib/briard/readers/bibtex_reader.rb +100 -0
- data/lib/briard/readers/citeproc_reader.rb +119 -0
- data/lib/briard/readers/codemeta_reader.rb +108 -0
- data/lib/briard/readers/crosscite_reader.rb +14 -0
- data/lib/briard/readers/crossref_reader.rb +368 -0
- data/lib/briard/readers/datacite_json_reader.rb +14 -0
- data/lib/briard/readers/datacite_reader.rb +341 -0
- data/lib/briard/readers/npm_reader.rb +115 -0
- data/lib/briard/readers/ris_reader.rb +114 -0
- data/lib/briard/readers/schema_org_reader.rb +263 -0
- data/lib/briard/string.rb +7 -0
- data/lib/briard/utils.rb +1369 -0
- data/lib/briard/version.rb +3 -0
- data/lib/briard/whitelist_scrubber.rb +47 -0
- data/lib/briard/writers/bibtex_writer.rb +32 -0
- data/lib/briard/writers/citation_writer.rb +14 -0
- data/lib/briard/writers/citeproc_writer.rb +11 -0
- data/lib/briard/writers/codemeta_writer.rb +29 -0
- data/lib/briard/writers/crosscite_writer.rb +11 -0
- data/lib/briard/writers/crossref_writer.rb +11 -0
- data/lib/briard/writers/csv_writer.rb +26 -0
- data/lib/briard/writers/datacite_json_writer.rb +11 -0
- data/lib/briard/writers/datacite_writer.rb +12 -0
- data/lib/briard/writers/jats_writer.rb +134 -0
- data/lib/briard/writers/rdf_xml_writer.rb +11 -0
- data/lib/briard/writers/ris_writer.rb +29 -0
- data/lib/briard/writers/schema_org_writer.rb +51 -0
- data/lib/briard/writers/turtle_writer.rb +11 -0
- data/lib/briard.rb +31 -0
- data/resources/2008/09/xsd.xsl +997 -0
- data/resources/crossref/AccessIndicators.xsd +47 -0
- data/resources/crossref/JATS-journalpublishing1-3d2-mathml3-elements.xsd +10130 -0
- data/resources/crossref/JATS-journalpublishing1-3d2-mathml3.xsd +48 -0
- data/resources/crossref/JATS-journalpublishing1-elements.xsd +8705 -0
- data/resources/crossref/JATS-journalpublishing1-mathml3-elements.xsd +8608 -0
- data/resources/crossref/JATS-journalpublishing1-mathml3.xsd +49 -0
- data/resources/crossref/JATS-journalpublishing1.xsd +6176 -0
- data/resources/crossref/clinicaltrials.xsd +61 -0
- data/resources/crossref/common5.3.1.xsd +1530 -0
- data/resources/crossref/crossref5.3.1.xsd +1949 -0
- data/resources/crossref/crossref_query_output3.0.xsd +1097 -0
- data/resources/crossref/fundref.xsd +49 -0
- data/resources/crossref/module-ali.xsd +39 -0
- data/resources/crossref/relations.xsd +444 -0
- data/resources/datacite-contributorType-v4.xsd +35 -0
- data/resources/datacite-dateType-v4.xsd +25 -0
- data/resources/datacite-descriptionType-v4.xsd +19 -0
- data/resources/datacite-funderIdentifierType-v4.xsd +15 -0
- data/resources/datacite-nameType-v4.xsd +10 -0
- data/resources/datacite-relatedIdentifierType-v4.xsd +34 -0
- data/resources/datacite-relationType-v4.xsd +49 -0
- data/resources/datacite-resourceType-v4.xsd +28 -0
- data/resources/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-2.1/include/datacite-contributorType-v1.1.xsd +22 -0
- data/resources/kernel-2.1/include/datacite-contributorType-v2.xsd +3 -0
- data/resources/kernel-2.1/include/datacite-dateType-v1.1.xsd +31 -0
- data/resources/kernel-2.1/include/datacite-dateType-v2.xsd +3 -0
- data/resources/kernel-2.1/include/datacite-descriptionType-v1.1.xsd +14 -0
- data/resources/kernel-2.1/include/datacite-descriptionType-v2.xsd +3 -0
- data/resources/kernel-2.1/include/datacite-relatedIdentifierType-v1.1.xsd +24 -0
- data/resources/kernel-2.1/include/datacite-relatedIdentifierType-v2.xsd +3 -0
- data/resources/kernel-2.1/include/datacite-relationType-v1.1.xsd +29 -0
- data/resources/kernel-2.1/include/datacite-relationType-v2.xsd +3 -0
- data/resources/kernel-2.1/include/datacite-resourceType-v1.1.xsd +22 -0
- data/resources/kernel-2.1/include/datacite-resourceType-v2.xsd +3 -0
- data/resources/kernel-2.1/include/datacite-titleType-v1.1.xsd +11 -0
- data/resources/kernel-2.1/include/datacite-titleType-v2.xsd +3 -0
- data/resources/kernel-2.1/metadata.xsd +315 -0
- data/resources/kernel-2.2/include/datacite-contributorType-v2.xsd +29 -0
- data/resources/kernel-2.2/include/datacite-dateType-v2.xsd +21 -0
- data/resources/kernel-2.2/include/datacite-descriptionType-v2.xsd +15 -0
- data/resources/kernel-2.2/include/datacite-relatedIdentifierType-v2.xsd +25 -0
- data/resources/kernel-2.2/include/datacite-relationType-v2.xsd +29 -0
- data/resources/kernel-2.2/include/datacite-resourceType-v2.xsd +23 -0
- data/resources/kernel-2.2/include/datacite-titleType-v2.xsd +10 -0
- data/resources/kernel-2.2/metadata.xsd +316 -0
- data/resources/kernel-3/include/datacite-contributorType-v3.1.xsd +35 -0
- data/resources/kernel-3/include/datacite-dateType-v3.xsd +21 -0
- data/resources/kernel-3/include/datacite-descriptionType-v3.xsd +17 -0
- data/resources/kernel-3/include/datacite-relatedIdentifierType-v3.1.xsd +30 -0
- data/resources/kernel-3/include/datacite-relationType-v3.1.xsd +38 -0
- data/resources/kernel-3/include/datacite-resourceType-v3.xsd +26 -0
- data/resources/kernel-3/include/datacite-titleType-v3.xsd +12 -0
- data/resources/kernel-3/include/xml.xsd +286 -0
- data/resources/kernel-3/metadata.xsd +380 -0
- data/resources/kernel-3.0/include/datacite-contributorType-v3.xsd +33 -0
- data/resources/kernel-3.0/include/datacite-dateType-v3.xsd +21 -0
- data/resources/kernel-3.0/include/datacite-descriptionType-v3.xsd +17 -0
- data/resources/kernel-3.0/include/datacite-relatedIdentifierType-v3.xsd +27 -0
- data/resources/kernel-3.0/include/datacite-relationType-v3.xsd +33 -0
- data/resources/kernel-3.0/include/datacite-resourceType-v3.xsd +26 -0
- data/resources/kernel-3.0/include/datacite-titleType-v3.xsd +12 -0
- data/resources/kernel-3.0/include/xml.xsd +286 -0
- data/resources/kernel-3.0/metadata.xsd +377 -0
- data/resources/kernel-3.1/include/datacite-contributorType-v3.1.xsd +35 -0
- data/resources/kernel-3.1/include/datacite-dateType-v3.xsd +21 -0
- data/resources/kernel-3.1/include/datacite-descriptionType-v3.xsd +17 -0
- data/resources/kernel-3.1/include/datacite-relatedIdentifierType-v3.1.xsd +30 -0
- data/resources/kernel-3.1/include/datacite-relationType-v3.1.xsd +38 -0
- data/resources/kernel-3.1/include/datacite-resourceType-v3.xsd +26 -0
- data/resources/kernel-3.1/include/datacite-titleType-v3.xsd +12 -0
- data/resources/kernel-3.1/include/xml.xsd +286 -0
- data/resources/kernel-3.1/metadata.xsd +380 -0
- data/resources/kernel-4/include/datacite-contributorType-v4.xsd +35 -0
- data/resources/kernel-4/include/datacite-dateType-v4.xsd +25 -0
- data/resources/kernel-4/include/datacite-descriptionType-v4.xsd +19 -0
- data/resources/kernel-4/include/datacite-funderIdentifierType-v4.xsd +16 -0
- data/resources/kernel-4/include/datacite-nameType-v4.xsd +10 -0
- data/resources/kernel-4/include/datacite-numberType-v4.xsd +12 -0
- data/resources/kernel-4/include/datacite-relatedIdentifierType-v4.xsd +34 -0
- data/resources/kernel-4/include/datacite-relationType-v4.xsd +51 -0
- data/resources/kernel-4/include/datacite-resourceType-v4.xsd +43 -0
- data/resources/kernel-4/include/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-4/include/xml.xsd +286 -0
- data/resources/kernel-4/metadata.xsd +707 -0
- data/resources/kernel-4.0/include/datacite-contributorType-v4.xsd +35 -0
- data/resources/kernel-4.0/include/datacite-dateType-v4.xsd +21 -0
- data/resources/kernel-4.0/include/datacite-descriptionType-v4.xsd +19 -0
- data/resources/kernel-4.0/include/datacite-funderIdentifierType-v4.xsd +15 -0
- data/resources/kernel-4.0/include/datacite-relatedIdentifierType-v4.xsd +32 -0
- data/resources/kernel-4.0/include/datacite-relationType-v4.xsd +39 -0
- data/resources/kernel-4.0/include/datacite-resourceType-v4.xsd +26 -0
- data/resources/kernel-4.0/include/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-4.0/include/xml.xsd +286 -0
- data/resources/kernel-4.0/metadata.xsd +470 -0
- data/resources/kernel-4.1/include/datacite-contributorType-v4.xsd +35 -0
- data/resources/kernel-4.1/include/datacite-dateType-v4.1.xsd +23 -0
- data/resources/kernel-4.1/include/datacite-descriptionType-v4.xsd +19 -0
- data/resources/kernel-4.1/include/datacite-funderIdentifierType-v4.xsd +15 -0
- data/resources/kernel-4.1/include/datacite-nameType-v4.1.xsd +10 -0
- data/resources/kernel-4.1/include/datacite-relatedIdentifierType-v4.xsd +32 -0
- data/resources/kernel-4.1/include/datacite-relationType-v4.1.xsd +46 -0
- data/resources/kernel-4.1/include/datacite-resourceType-v4.1.xsd +28 -0
- data/resources/kernel-4.1/include/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-4.1/include/xml.xsd +286 -0
- data/resources/kernel-4.1/metadata.xsd +483 -0
- data/resources/kernel-4.2/include/datacite-contributorType-v4.xsd +35 -0
- data/resources/kernel-4.2/include/datacite-dateType-v4.xsd +25 -0
- data/resources/kernel-4.2/include/datacite-descriptionType-v4.xsd +19 -0
- data/resources/kernel-4.2/include/datacite-funderIdentifierType-v4.xsd +15 -0
- data/resources/kernel-4.2/include/datacite-nameType-v4.xsd +10 -0
- data/resources/kernel-4.2/include/datacite-relatedIdentifierType-v4.xsd +34 -0
- data/resources/kernel-4.2/include/datacite-relationType-v4.xsd +49 -0
- data/resources/kernel-4.2/include/datacite-resourceType-v4.xsd +28 -0
- data/resources/kernel-4.2/include/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-4.2/include/xml.xsd +286 -0
- data/resources/kernel-4.2/metadata.xsd +479 -0
- data/resources/kernel-4.3/include/datacite-contributorType-v4.xsd +35 -0
- data/resources/kernel-4.3/include/datacite-dateType-v4.xsd +25 -0
- data/resources/kernel-4.3/include/datacite-descriptionType-v4.xsd +19 -0
- data/resources/kernel-4.3/include/datacite-funderIdentifierType-v4.xsd +16 -0
- data/resources/kernel-4.3/include/datacite-nameType-v4.xsd +10 -0
- data/resources/kernel-4.3/include/datacite-relatedIdentifierType-v4.xsd +34 -0
- data/resources/kernel-4.3/include/datacite-relationType-v4.xsd +49 -0
- data/resources/kernel-4.3/include/datacite-resourceType-v4.xsd +28 -0
- data/resources/kernel-4.3/include/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-4.3/include/xml.xsd +286 -0
- data/resources/kernel-4.3/metadata.xsd +515 -0
- data/resources/kernel-4.4/include/datacite-contributorType-v4.xsd +35 -0
- data/resources/kernel-4.4/include/datacite-dateType-v4.xsd +25 -0
- data/resources/kernel-4.4/include/datacite-descriptionType-v4.xsd +19 -0
- data/resources/kernel-4.4/include/datacite-funderIdentifierType-v4.xsd +16 -0
- data/resources/kernel-4.4/include/datacite-nameType-v4.xsd +10 -0
- data/resources/kernel-4.4/include/datacite-numberType-v4.xsd +12 -0
- data/resources/kernel-4.4/include/datacite-relatedIdentifierType-v4.xsd +34 -0
- data/resources/kernel-4.4/include/datacite-relationType-v4.xsd +51 -0
- data/resources/kernel-4.4/include/datacite-resourceType-v4.xsd +43 -0
- data/resources/kernel-4.4/include/datacite-titleType-v4.xsd +14 -0
- data/resources/kernel-4.4/include/xml.xsd +286 -0
- data/resources/kernel-4.4/metadata.xsd +707 -0
- data/resources/oecd/dfg-mappings.json +1866 -0
- data/resources/oecd/for-mappings.json +1099 -0
- data/resources/oecd/fos-mappings.json +198 -0
- data/resources/schema_org/jsonldcontext.json +7477 -0
- data/resources/spdx/licenses.json +5297 -0
- data/resources/xml.xsd +286 -0
- data/spec/array_spec.rb +22 -0
- data/spec/author_utils_spec.rb +193 -0
- data/spec/cli_spec.rb +226 -0
- data/spec/datacite_utils_spec.rb +178 -0
- data/spec/doi_utils_spec.rb +314 -0
- data/spec/find_from_format_spec.rb +114 -0
- data/spec/fixtures/aida.json +82 -0
- data/spec/fixtures/cgimp_package.json +18 -0
- data/spec/fixtures/cit_package.json +19 -0
- data/spec/fixtures/citeproc-no-author.json +26 -0
- data/spec/fixtures/citeproc-no-categories.json +21 -0
- data/spec/fixtures/citeproc.json +30 -0
- data/spec/fixtures/codemeta.json +86 -0
- data/spec/fixtures/codemeta_v2.json +86 -0
- data/spec/fixtures/crosscite.json +63 -0
- data/spec/fixtures/crossref.bib +14 -0
- data/spec/fixtures/crossref.ris +15 -0
- data/spec/fixtures/crossref.xml +606 -0
- data/spec/fixtures/datacite-empty-sizes.xml +57 -0
- data/spec/fixtures/datacite-example-affiliation.xml +114 -0
- data/spec/fixtures/datacite-example-ancientdates-v4.3.xml +29 -0
- data/spec/fixtures/datacite-example-complicated-tba.xml +56 -0
- data/spec/fixtures/datacite-example-complicated-v3.0.xml +48 -0
- data/spec/fixtures/datacite-example-complicated-v4.0.xml +54 -0
- data/spec/fixtures/datacite-example-complicated-v4.1.xml +57 -0
- data/spec/fixtures/datacite-example-dissertation-v4.4.xml +56 -0
- data/spec/fixtures/datacite-example-escaped-text.xml +56 -0
- data/spec/fixtures/datacite-example-full-v4.4.xml +114 -0
- data/spec/fixtures/datacite-example-geolocation-2.xml +141 -0
- data/spec/fixtures/datacite-example-geolocation.xml +66 -0
- data/spec/fixtures/datacite-example-polygon-v4.1.xml +163 -0
- data/spec/fixtures/datacite-example-relateditems.xml +61 -0
- data/spec/fixtures/datacite-example-xs-string.xml +28 -0
- data/spec/fixtures/datacite-formats-with-xs.xml +22 -0
- data/spec/fixtures/datacite-funderIdentifier.xml +78 -0
- data/spec/fixtures/datacite-geolocation-empty.xml +159 -0
- data/spec/fixtures/datacite-geolocationpolygons-multiple.xml +76 -0
- data/spec/fixtures/datacite-metadata-sample-complicated-v2.2.xml +52 -0
- data/spec/fixtures/datacite-multiple-language.xml +38 -0
- data/spec/fixtures/datacite-multiple-rights.xml +59 -0
- data/spec/fixtures/datacite-schema-2.2.xml +80 -0
- data/spec/fixtures/datacite-seriesinformation.xml +41 -0
- data/spec/fixtures/datacite-space-in-sizes.xml +52 -0
- data/spec/fixtures/datacite-xml-lang.xml +51 -0
- data/spec/fixtures/datacite.json +83 -0
- data/spec/fixtures/datacite.xml +40 -0
- data/spec/fixtures/datacite_dataset.xml +58 -0
- data/spec/fixtures/datacite_malformed_creator.xml +52 -0
- data/spec/fixtures/datacite_missing_creator.xml +33 -0
- data/spec/fixtures/datacite_schema_3.xml +58 -0
- data/spec/fixtures/datacite_software.json +21 -0
- data/spec/fixtures/datacite_software_missing_comma.json +18 -0
- data/spec/fixtures/datacite_software_overlapping_keys.json +18 -0
- data/spec/fixtures/datacite_software_version.json +74 -0
- data/spec/fixtures/edam_package.json +12 -0
- data/spec/fixtures/funding_reference.xml +53 -0
- data/spec/fixtures/gtex.xml +71 -0
- data/spec/fixtures/maremma/codemeta.json +36 -0
- data/spec/fixtures/nist.xml +35 -0
- data/spec/fixtures/ns0.xml +2 -0
- data/spec/fixtures/pure.bib +14 -0
- data/spec/fixtures/pure.ris +15 -0
- data/spec/fixtures/pure.xml +188 -0
- data/spec/fixtures/ris_bug.ris +9 -0
- data/spec/fixtures/schema_4.0.xml +140 -0
- data/spec/fixtures/schema_org.json +49 -0
- data/spec/fixtures/schema_org_front-matter.json +32 -0
- data/spec/fixtures/schema_org_geolocation.json +82 -0
- data/spec/fixtures/schema_org_geoshape.json +550 -0
- data/spec/fixtures/schema_org_gtex.json +75 -0
- data/spec/fixtures/schema_org_list.json +12623 -0
- data/spec/fixtures/schema_org_tdl_iodp_invalid_authors.json +25 -0
- data/spec/fixtures/schema_org_topmed.json +53 -0
- data/spec/fixtures/schema_org_type_as_array.json +41 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/default.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_bibtex.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_citation.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_crossref.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_datacite.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_jats.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/crossref/to_schema_org.yml +121 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/default.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_bibtex.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_citation.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_datacite.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_datacite_json.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_jats.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/datacite/to_schema_org.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/default.yml +117 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/to_datacite.yml +117 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/convert_from_id/schema_org/to_schema_org.yml +117 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/crossref.yml +52 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/datacite.yml +52 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/jalc.yml +52 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/kisti.yml +52 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/medra.yml +52 -0
- data/spec/fixtures/vcr_cassettes/Briard_CLI/find_from_format_by_id/op.yml +52 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/author.yml +65 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/no_author.yml +65 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/single_author.yml +65 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/authors_as_string/with_organization.yml +65 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/change_datacite_metadata/change_state.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/change_datacite_metadata/change_title.yml +110 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/change_metadata_as_datacite_xml/change_description.yml +72 -0
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- data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/BlogPosting_schema_org.yml +117 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/Dataset.yml +61 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/journal_article.yml +72 -0
- data/spec/fixtures/vcr_cassettes/Briard_Metadata/write_metadata_as_turtle/with_pages.yml +69 -0
- data/spec/fixtures/vivli.xml +1 -0
- data/spec/metadata_spec.rb +165 -0
- data/spec/readers/bibtex_reader_spec.rb +63 -0
- data/spec/readers/citeproc_reader_spec.rb +61 -0
- data/spec/readers/codemeta_reader_spec.rb +138 -0
- data/spec/readers/crosscite_reader_spec.rb +41 -0
- data/spec/readers/crossref_reader_spec.rb +1117 -0
- data/spec/readers/datacite_json_reader_spec.rb +80 -0
- data/spec/readers/datacite_reader_spec.rb +1655 -0
- data/spec/readers/npm_reader_spec.rb +66 -0
- data/spec/readers/ris_reader_spec.rb +75 -0
- data/spec/readers/schema_org_reader_spec.rb +376 -0
- data/spec/spec_helper.rb +94 -0
- data/spec/utils_spec.rb +617 -0
- data/spec/writers/bibtex_writer_spec.rb +195 -0
- data/spec/writers/citation_writer_spec.rb +52 -0
- data/spec/writers/citeproc_writer_spec.rb +296 -0
- data/spec/writers/codemeta_writer_spec.rb +45 -0
- data/spec/writers/crosscite_writer_spec.rb +122 -0
- data/spec/writers/crossref_writer_spec.rb +88 -0
- data/spec/writers/csv_writer_spec.rb +94 -0
- data/spec/writers/datacite_json_writer_spec.rb +90 -0
- data/spec/writers/datacite_writer_spec.rb +428 -0
- data/spec/writers/jats_writer_spec.rb +193 -0
- data/spec/writers/rdf_xml_writer_spec.rb +86 -0
- data/spec/writers/ris_writer_spec.rb +208 -0
- data/spec/writers/schema_org_writer_spec.rb +369 -0
- data/spec/writers/turtle_writer_spec.rb +84 -0
- metadata +1347 -0
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# frozen_string_literal: true
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require 'spec_helper'
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describe Briard::Metadata, vcr: true do
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context "write metadata as schema_org" do
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it "journal article" do
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input = "10.7554/eLife.01567"
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subject = Briard::Metadata.new(input: input, from: "crossref")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.7554/elife.01567")
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expect(json["@type"]).to eq("ScholarlyArticle")
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expect(json["isPartOf"]).to eq("@type"=>"Periodical", "issn"=>"2050-084X")
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expect(json["periodical"]).to eq("@type"=>"Journal", "firstPage" => "e01567", "identifier"=>"2050-084X", "identifierType"=>"ISSN", "name"=>"eLife", "volume"=>"3")
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expect(json["citation"].length).to eq(26)
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expect(json["citation"].first).to eq("@id"=>"https://doi.org/10.1038/nature02100", "@type"=>"CreativeWork")
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expect(json["funder"]).to eq([{"name"=>"SystemsX", "@type"=>"Organization"},
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{"name"=>"EMBO",
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"@type"=>"Organization",
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"@id"=>"https://doi.org/10.13039/501100003043"},
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{"name"=>"Swiss National Science Foundation",
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"@type"=>"Organization",
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"@id"=>"https://doi.org/10.13039/501100001711"},
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{"name"=>"University of Lausanne",
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"@type"=>"Organization",
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"@id"=>"https://doi.org/10.13039/501100006390"}])
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expect(json["license"]).to eq("https://creativecommons.org/licenses/by/3.0/legalcode")
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end
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it "maremma schema.org JSON" do
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input = "https://github.com/datacite/maremma"
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subject = Briard::Metadata.new(input: input, from: "codemeta")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5438/qeg0-3gm3")
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expect(json["@type"]).to eq("SoftwareSourceCode")
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expect(json["name"]).to eq("Maremma: a Ruby library for simplified network calls")
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expect(json["author"]).to eq("name"=>"Martin Fenner", "givenName"=>"Martin", "familyName"=>"Fenner", "@type"=>"Person", "@id"=>"https://orcid.org/0000-0003-0077-4738", "affiliation" => {"@type"=>"Organization", "name"=>"DataCite"})
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end
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it "Schema.org JSON" do
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input = "https://doi.org/10.5281/ZENODO.48440"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5281/zenodo.48440")
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expect(json["@type"]).to eq("SoftwareSourceCode")
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expect(json["name"]).to eq("Analysis Tools For Crossover Experiment Of Ui Using Choice Architecture")
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expect(json["license"]).to eq(["https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode", "info:eu-repo/semantics/openAccess"])
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end
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it "Schema.org JSON isReferencedBy" do
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input = "https://doi.org/10.5061/DRYAD.8515"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5061/dryad.8515")
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expect(json["@type"]).to eq("Dataset")
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expect(json["citation"]).to eq("@id"=>"https://doi.org/10.1371/journal.ppat.1000446", "@type"=>"CreativeWork")
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expect(json["license"]).to eq("https://creativecommons.org/publicdomain/zero/1.0/legalcode")
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expect(json["keywords"]).to eq("Plasmodium, malaria, mitochondrial genome, Parasites")
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end
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it "Schema.org JSON IsSupplementTo" do
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input = "https://doi.org/10.5517/CC8H01S"
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subject = Briard::Metadata.new(input: input)
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5517/cc8h01s")
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expect(json["@type"]).to eq("Dataset")
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expect(json["@reverse"]).to eq("isBasedOn"=>{"@id"=>"https://doi.org/10.1107/s1600536804021154", "@type"=>"ScholarlyArticle"})
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end
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it "Schema.org JSON Cyark" do
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input = "https://doi.org/10.26301/jgf3-jm06"
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subject = Briard::Metadata.new(input: input)
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.26301/jgf3-jm06")
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expect(json["@type"]).to eq("Dataset")
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end
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it "rdataone" do
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input = fixture_path + 'codemeta.json'
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subject = Briard::Metadata.new(input: input, from: "codemeta")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5063/f1m61h5x")
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expect(json["@type"]).to eq("SoftwareSourceCode")
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expect(json["name"]).to eq("R Interface to the DataONE REST API")
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expect(json["author"]).to eq([{"name"=>"Matt Jones",
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"givenName"=>"Matt",
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"familyName"=>"Jones",
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"@type"=>"Person",
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"@id"=>"https://orcid.org/0000-0003-0077-4738",
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"affiliation"=>{"@type"=>"Organization", "name"=>"NCEAS"}},
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{"name"=>"Peter Slaughter",
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"givenName"=>"Peter",
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"familyName"=>"Slaughter",
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"@type"=>"Person",
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"@id"=>"https://orcid.org/0000-0002-2192-403X",
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"affiliation"=>{"@type"=>"Organization", "name"=>"NCEAS"}},
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{"name"=>"University Of California, Santa Barbara", "@type"=>"Organization"}])
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expect(json["version"]).to eq("2.0.0")
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expect(json["keywords"]).to eq("data sharing, data repository, DataONE")
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end
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it "Funding" do
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input = "https://doi.org/10.5438/6423"
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subject = Briard::Metadata.new(input: input)
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5438/6423")
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expect(json["@type"]).to eq("Collection")
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expect(json["hasPart"].length).to eq(25)
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expect(json["hasPart"].first).to eq("@type"=>"CreativeWork", "@id"=>"https://doi.org/10.5281/zenodo.30799")
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expect(json["funder"]).to eq("@id"=>"https://doi.org/10.13039/501100000780", "@type"=>"Organization", "name"=>"European Commission")
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expect(json["license"]).to eq("https://creativecommons.org/licenses/by/4.0/legalcode")
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end
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it "Funding OpenAIRE" do
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input = "https://doi.org/10.5281/ZENODO.1239"
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subject = Briard::Metadata.new(input: input)
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5281/zenodo.1239")
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expect(json["@type"]).to eq("Dataset")
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expect(json["funder"]).to eq("@id"=>"https://doi.org/10.13039/501100000780", "@type"=>"Organization", "name"=>"European Commission")
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expect(json["license"]).to eq(["https://creativecommons.org/publicdomain/zero/1.0/legalcode", "info:eu-repo/semantics/openAccess"])
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end
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it "subject scheme" do
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input = "https://doi.org/10.4232/1.2745"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.4232/1.2745")
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expect(json["@type"]).to eq("Dataset")
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expect(json["name"]).to eq("Flash Eurobarometer 54 (Madrid Summit)")
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expect(json["keywords"]).to eq("KAT12 International Institutions, Relations, Conditions, Internationale Politik und Institutionen, Regierung, politische Systeme, Parteien und Verbände, Wirtschaftssysteme und wirtschaftliche Entwicklung, International politics and organisation, Government, political systems and organisation, Economic systems and development")
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end
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it "subject scheme multiple keywords" do
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input = "https://doi.org/10.1594/pangaea.721193"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.1594/pangaea.721193")
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expect(json["@type"]).to eq("Dataset")
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expect(json["name"]).to eq("Seawater carbonate chemistry and processes during experiments with Crassostrea gigas, 2007, supplement to: Kurihara, Haruko; Kato, Shoji; Ishimatsu, Atsushi (2007): Effects of increased seawater pCO2 on early development of the oyster Crassostrea gigas. Aquatic Biology, 1(1), 91-98")
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expect(json["keywords"]).to include("Animalia, Bottles or small containers/Aquaria (<20 L)")
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expect(json["license"]).to eq("https://creativecommons.org/licenses/by/3.0/legalcode")
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end
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it "author is organization" do
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input = fixture_path + 'gtex.xml'
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url = "https://ors.datacite.org/doi:/10.25491/9hx8-ke93"
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content_url = "https://storage.googleapis.com/gtex_analysis_v7/single_tissue_eqtl_data/GTEx_Analysis_v7_eQTL_expression_matrices.tar.gz"
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subject = Briard::Metadata.new(input: input, url: url, content_url: content_url, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.25491/9hx8-ke93")
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expect(json["@type"]).to eq("Dataset")
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expect(json["author"]).to eq("@type"=>"Organization", "name"=>"The GTEx Consortium")
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expect(json["url"]).to eq("https://ors.datacite.org/doi:/10.25491/9hx8-ke93")
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expect(json["encodingFormat"]).to eq("application/tar")
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expect(json["contentSize"]).to eq("15.7M")
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expect(json["contentUrl"]).to eq("https://storage.googleapis.com/gtex_analysis_v7/single_tissue_eqtl_data/GTEx_Analysis_v7_eQTL_expression_matrices.tar.gz")
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expect(json["includedInDataCatalog"]).to eq("@id"=>"https://www.ebi.ac.uk/miriam/main/datatypes/MIR:00000663", "@type"=>"DataCatalog", "name"=>"GTEx")
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expect(json["@reverse"]).to eq("isBasedOn"=>{"@id"=>"https://doi.org/10.1038/nmeth.4407", "@type"=>"ScholarlyArticle"})
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end
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it "series information" do
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input = "10.4229/23RDEUPVSEC2008-5CO.8.3"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.4229/23rdeupvsec2008-5co.8.3")
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expect(json["@type"]).to eq("ScholarlyArticle")
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expect(json["name"]).to eq("Rural Electrification With Hybrid Power Systems Based on Renewables - Technical System Configurations From the Point of View of the European Industry")
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expect(json["author"].count).to eq(3)
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expect(json["author"].first).to eq("@type"=>"Person", "name"=>"P. Llamas", "givenName"=>"P.", "familyName"=>"Llamas")
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expect(json["periodical"]).to eq("@type"=>"Series", "firstPage"=>"Spain; 3353", "lastPage"=>"3356", "name"=>"23rd European Photovoltaic Solar Energy Conference and Exhibition", "volume"=>"1-5 September 2008")
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end
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it "data catalog" do
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input = "10.25491/8KMC-G314"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.25491/8kmc-g314")
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expect(json["@type"]).to eq("Dataset")
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expect(json["name"]).to eq("Covariates used in eQTL analysis. Includes genotyping principal components and PEER factors")
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expect(json["author"]).to eq("@type"=>"Organization", "name"=>"The GTEx Consortium")
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expect(json["includedInDataCatalog"]).to eq("@type"=>"DataCatalog", "name"=>"GTEx")
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expect(json["identifier"]).to eq("@type"=>"PropertyValue", "propertyID"=>"md5", "value"=>"c7c89fe7366d50cd75448aa603c9de58")
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expect(json["contentUrl"]).to eq("https://storage.googleapis.com/gtex_analysis_v7/single_tissue_eqtl_data/GTEx_Analysis_v7_eQTL_covariates.tar.gz")
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end
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it "alternate identifiers" do
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input = "10.23725/8na3-9s47"
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subject = Briard::Metadata.new(input: input, from: "datacite")
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.23725/8na3-9s47")
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expect(json["@type"]).to eq("Dataset")
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expect(json["name"]).to eq("NWD165827.recab.cram")
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expect(json["author"]).to eq("name"=>"TOPMed")
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expect(json["includedInDataCatalog"]).to be_nil
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expect(json["identifier"]).to eq(
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[{"@type"=>"PropertyValue",
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"propertyID"=>"minid",
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"value"=>"ark:/99999/fk41CrU4eszeLUDe"},
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{"@type"=>"PropertyValue",
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"propertyID"=>"dataguid",
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"value"=>"dg.4503/c3d66dc9-58da-411c-83c4-dd656aa3c4b7"},
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{"@type"=>"PropertyValue",
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"propertyID"=>"md5",
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"value"=>"3b33f6b9338fccab0901b7d317577ea3"}]
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)
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expect(json["contentUrl"]).to include("s3://cgp-commons-public/topmed_open_access/197bc047-e917-55ed-852d-d563cdbc50e4/NWD165827.recab.cram", "gs://topmed-irc-share/public/NWD165827.recab.cram")
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end
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it "affiliation identifier" do
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input = fixture_path + 'datacite-example-affiliation.xml'
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subject = Briard::Metadata.new(input: input)
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json = JSON.parse(subject.schema_org)
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expect(json["@id"]).to eq("https://doi.org/10.5072/example-full")
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expect(json["@type"]).to eq("SoftwareSourceCode")
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expect(json["name"]).to eq("Full DataCite XML Example")
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expect(json["author"].length).to eq(3)
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expect(json["author"].first).to eq("@id" => "https://orcid.org/0000-0001-5000-0007",
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"@type" => "Person",
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"affiliation" => {"@id"=>"https://ror.org/04wxnsj81", "@type"=>"Organization", "name"=>"DataCite"},
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"familyName" => "Miller",
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"givenName" => "Elizabeth",
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"name" => "Elizabeth Miller")
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expect(json["identifier"]).to eq(
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{"@type"=>"PropertyValue",
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"propertyID"=>"URL",
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"value"=>"https://schema.datacite.org/meta/kernel-4.2/example/datacite-example-full-v4.2.xml"}
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)
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expect(json["license"]).to eq("https://creativecommons.org/publicdomain/zero/1.0/legalcode")
|
230
|
+
end
|
231
|
+
|
232
|
+
it "geo_location_point" do
|
233
|
+
input = fixture_path + 'datacite-example-geolocation-2.xml'
|
234
|
+
doi = "10.6071/Z7WC73"
|
235
|
+
subject = Briard::Metadata.new(input: input, doi: doi)
|
236
|
+
json = JSON.parse(subject.schema_org)
|
237
|
+
expect(json["@id"]).to eq("https://doi.org/10.6071/z7wc73")
|
238
|
+
expect(json["@type"]).to eq("Dataset")
|
239
|
+
expect(json["name"]).to eq("Southern Sierra Critical Zone Observatory (SSCZO), Providence Creek meteorological data, soil moisture and temperature, snow depth and air temperature")
|
240
|
+
expect(json["author"].length).to eq(6)
|
241
|
+
expect(json["author"][2]).to eq("@id"=>"https://orcid.org/0000-0002-8862-1404", "@type"=>"Person", "familyName"=>"Stacy", "givenName"=>"Erin", "name"=>"Erin Stacy", "affiliation" => {"@type"=>"Organization", "name"=>"UC Merced"})
|
242
|
+
expect(json["includedInDataCatalog"]).to be_nil
|
243
|
+
expect(json["spatialCoverage"]).to eq([{"@type"=>"Place",
|
244
|
+
"geo"=>
|
245
|
+
{"@type"=>"GeoCoordinates",
|
246
|
+
"address"=>"Providence Creek (Lower, Upper and P301)",
|
247
|
+
"latitude"=>"37.047756",
|
248
|
+
"longitude"=>"-119.221094"}},
|
249
|
+
{"@type"=>"Place",
|
250
|
+
"geo"=>
|
251
|
+
{"@type"=>"GeoShape",
|
252
|
+
"address"=>"Providence Creek (Lower, Upper and P301)",
|
253
|
+
"box"=>"37.046 -119.211 37.075 -119.182"}}])
|
254
|
+
expect(json["license"]).to eq("https://creativecommons.org/licenses/by/4.0/legalcode")
|
255
|
+
end
|
256
|
+
|
257
|
+
it "geo_location_box" do
|
258
|
+
input = "10.1594/PANGAEA.842237"
|
259
|
+
subject = Briard::Metadata.new(input: input, from: "datacite")
|
260
|
+
json = JSON.parse(subject.schema_org)
|
261
|
+
expect(json["@id"]).to eq("https://doi.org/10.1594/pangaea.842237")
|
262
|
+
expect(json["@type"]).to eq("Dataset")
|
263
|
+
expect(json["name"]).to eq("Registry of all stations from the Tara Oceans Expedition (2009-2013)")
|
264
|
+
expect(json["author"]).to eq([{"familyName"=>"Tara Oceans Consortium",
|
265
|
+
"givenName"=>"Coordinators",
|
266
|
+
"name"=>"Coordinators Tara Oceans Consortium"},
|
267
|
+
{"familyName"=>"Tara Oceans Expedition",
|
268
|
+
"givenName"=>"Participants",
|
269
|
+
"name"=>"Participants Tara Oceans Expedition"}])
|
270
|
+
expect(json["includedInDataCatalog"]).to be_nil
|
271
|
+
expect(json["spatialCoverage"]).to eq("@type"=>"Place", "geo"=>{"@type"=>"GeoShape", "box"=>"-64.3088 -168.5182 79.6753 174.9006"})
|
272
|
+
expect(json["license"]).to eq("https://creativecommons.org/licenses/by/3.0/legalcode")
|
273
|
+
end
|
274
|
+
|
275
|
+
it "geo_location_polygon" do
|
276
|
+
input = fixture_path + 'datacite-example-polygon-v4.1.xml'
|
277
|
+
subject = Briard::Metadata.new(input: input)
|
278
|
+
json = JSON.parse(subject.schema_org)
|
279
|
+
expect(json["@id"]).to eq("https://doi.org/10.5072/example-polygon")
|
280
|
+
expect(json["@type"]).to eq("Dataset")
|
281
|
+
expect(json["name"]).to eq("Meteo measurements at the Sand Motor")
|
282
|
+
expect(json["author"]).to eq("@type"=>"Person", "familyName"=>"Den Heijer", "givenName"=>"C", "name"=>"C Den Heijer")
|
283
|
+
expect(json["includedInDataCatalog"]).to be_nil
|
284
|
+
expect(json["spatialCoverage"].dig("geo", "polygon").length).to eq(34)
|
285
|
+
expect(json["spatialCoverage"].dig("geo", "polygon")[0].first).to eq(["4.1738852605822", "52.03913926329928"])
|
286
|
+
end
|
287
|
+
|
288
|
+
it "from schema_org gtex" do
|
289
|
+
input = fixture_path + 'schema_org_gtex.json'
|
290
|
+
subject = Briard::Metadata.new(input: input, from: "schema_org")
|
291
|
+
json = JSON.parse(subject.schema_org)
|
292
|
+
expect(json["@id"]).to eq("https://doi.org/10.25491/d50j-3083")
|
293
|
+
expect(json["@type"]).to eq("Dataset")
|
294
|
+
expect(json["identifier"]).to eq("@type"=>"PropertyValue", "propertyID"=>"md5", "value"=>"687610993")
|
295
|
+
expect(json["url"]).to eq("https://ors.datacite.org/doi:/10.25491/d50j-3083")
|
296
|
+
expect(json["additionalType"]).to eq("Gene expression matrices")
|
297
|
+
expect(json["name"]).to eq("Fully processed, filtered and normalized gene expression matrices (in BED format) for each tissue, which were used as input into FastQTL for eQTL discovery")
|
298
|
+
expect(json["version"]).to eq("v7")
|
299
|
+
expect(json["author"]).to eq("@type"=>"Organization", "name"=>"The GTEx Consortium")
|
300
|
+
expect(json["keywords"]).to eq("gtex, annotation, phenotype, gene regulation, transcriptomics")
|
301
|
+
expect(json["datePublished"]).to eq("2017")
|
302
|
+
expect(json["contentUrl"]).to eq("https://storage.googleapis.com/gtex_analysis_v7/single_tissue_eqtl_data/GTEx_Analysis_v7_eQTL_expression_matrices.tar.gz")
|
303
|
+
expect(json["schemaVersion"]).to eq("http://datacite.org/schema/kernel-4")
|
304
|
+
expect(json["includedInDataCatalog"]).to eq("@type"=>"DataCatalog", "name"=>"GTEx")
|
305
|
+
expect(json["publisher"]).to eq("@type"=>"Organization", "name"=>"GTEx")
|
306
|
+
expect(json["funder"]).to eq([{"@id"=>"https://doi.org/10.13039/100000052",
|
307
|
+
"name"=>"Common Fund of the Office of the Director of the NIH",
|
308
|
+
"@type"=>"Organization"},
|
309
|
+
{"@id"=>"https://doi.org/10.13039/100000054",
|
310
|
+
"name"=>"National Cancer Institute (NCI)",
|
311
|
+
"@type"=>"Organization"},
|
312
|
+
{"@id"=>"https://doi.org/10.13039/100000051",
|
313
|
+
"name"=>"National Human Genome Research Institute (NHGRI)",
|
314
|
+
"@type"=>"Organization"},
|
315
|
+
{"@id"=>"https://doi.org/10.13039/100000050",
|
316
|
+
"name"=>"National Heart, Lung, and Blood Institute (NHLBI)",
|
317
|
+
"@type"=>"Organization"},
|
318
|
+
{"@id"=>"https://doi.org/10.13039/100000026",
|
319
|
+
"name"=>"National Institute on Drug Abuse (NIDA)",
|
320
|
+
"@type"=>"Organization"},
|
321
|
+
{"@id"=>"https://doi.org/10.13039/100000025",
|
322
|
+
"name"=>"National Institute of Mental Health (NIMH)",
|
323
|
+
"@type"=>"Organization"},
|
324
|
+
{"@id"=>"https://doi.org/10.13039/100000065",
|
325
|
+
"name"=>"National Institute of Neurological Disorders and Stroke (NINDS)",
|
326
|
+
"@type"=>"Organization"}])
|
327
|
+
expect(json["provider"]).to eq("@type"=>"Organization", "name"=>"DataCite")
|
328
|
+
end
|
329
|
+
|
330
|
+
it "from schema_org topmed" do
|
331
|
+
input = fixture_path + 'schema_org_topmed.json'
|
332
|
+
subject = Briard::Metadata.new(input: input, from: "schema_org")
|
333
|
+
json = JSON.parse(subject.schema_org)
|
334
|
+
expect(json["@id"]).to eq("https://doi.org/10.23725/8na3-9s47")
|
335
|
+
expect(json["@type"]).to eq("Dataset")
|
336
|
+
expect(json["identifier"]).to eq(
|
337
|
+
[{"@type"=>"PropertyValue",
|
338
|
+
"propertyID"=>"md5",
|
339
|
+
"value"=>"3b33f6b9338fccab0901b7d317577ea3"},
|
340
|
+
{"@type"=>"PropertyValue",
|
341
|
+
"propertyID"=>"minid",
|
342
|
+
"value"=>"ark:/99999/fk41CrU4eszeLUDe"},
|
343
|
+
{"@type"=>"PropertyValue",
|
344
|
+
"propertyID"=>"dataguid",
|
345
|
+
"value"=>"dg.4503/c3d66dc9-58da-411c-83c4-dd656aa3c4b7"}])
|
346
|
+
expect(json["url"]).to eq("https://ors.datacite.org/doi:/10.23725/8na3-9s47")
|
347
|
+
expect(json["additionalType"]).to eq("CRAM file")
|
348
|
+
expect(json["name"]).to eq("NWD165827.recab.cram")
|
349
|
+
expect(json["author"]).to eq("@type"=>"Organization", "name"=>"TOPMed IRC")
|
350
|
+
expect(json["keywords"]).to eq("topmed, whole genome sequencing")
|
351
|
+
expect(json["datePublished"]).to eq("2017-11-30")
|
352
|
+
expect(json["contentUrl"]).to eq(["s3://cgp-commons-public/topmed_open_access/197bc047-e917-55ed-852d-d563cdbc50e4/NWD165827.recab.cram", "gs://topmed-irc-share/public/NWD165827.recab.cram"])
|
353
|
+
expect(json["schemaVersion"]).to eq("http://datacite.org/schema/kernel-4")
|
354
|
+
expect(json["publisher"]).to eq("@type"=>"Organization", "name"=>"TOPMed")
|
355
|
+
expect(json["citation"]).to eq("@id"=>"https://doi.org/10.23725/2g4s-qv04", "@type"=>"Dataset")
|
356
|
+
expect(json["funder"]).to eq("@id"=>"https://doi.org/10.13039/100000050", "@type"=>"Organization", "name"=>"National Heart, Lung, and Blood Institute (NHLBI)")
|
357
|
+
expect(json["provider"]).to eq("@type"=>"Organization", "name"=>"DataCite")
|
358
|
+
end
|
359
|
+
|
360
|
+
it "interactive resource without dates" do
|
361
|
+
input = "https://doi.org/10.34747/g6yb-3412"
|
362
|
+
subject = Briard::Metadata.new(input: input, from: "datacite")
|
363
|
+
json = JSON.parse(subject.schema_org)
|
364
|
+
expect(json["@id"]).to eq("https://doi.org/10.34747/g6yb-3412")
|
365
|
+
expect(json["@type"]).to eq("CreativeWork")
|
366
|
+
expect(json["datePublished"]).to eq("2019")
|
367
|
+
end
|
368
|
+
end
|
369
|
+
end
|
@@ -0,0 +1,84 @@
|
|
1
|
+
# frozen_string_literal: true
|
2
|
+
|
3
|
+
require 'spec_helper'
|
4
|
+
|
5
|
+
describe Briard::Metadata, vcr: true do
|
6
|
+
context "write metadata as turtle" do
|
7
|
+
it "Crossref DOI" do
|
8
|
+
input = fixture_path + "crossref.bib"
|
9
|
+
subject = Briard::Metadata.new(input: input, from: "bibtex")
|
10
|
+
ttl = subject.turtle.split("\n")
|
11
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
12
|
+
expect(ttl[2]).to eq("<https://doi.org/10.7554/elife.01567> a schema:ScholarlyArticle;")
|
13
|
+
end
|
14
|
+
|
15
|
+
it "Dataset" do
|
16
|
+
input = "https://doi.org/10.5061/DRYAD.8515"
|
17
|
+
subject = Briard::Metadata.new(input: input, from: "datacite")
|
18
|
+
expect(subject.valid?).to be true
|
19
|
+
ttl = subject.turtle.split("\n")
|
20
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
21
|
+
expect(ttl[2]).to eq("<https://doi.org/10.5061/dryad.8515> a schema:Dataset;")
|
22
|
+
end
|
23
|
+
|
24
|
+
it "BlogPosting" do
|
25
|
+
input= "https://doi.org/10.5438/4K3M-NYVG"
|
26
|
+
subject = Briard::Metadata.new(input: input, from: "datacite")
|
27
|
+
expect(subject.valid?).to be true
|
28
|
+
ttl = subject.turtle.split("\n")
|
29
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
30
|
+
expect(ttl[2]).to eq("<https://doi.org/10.5438/4k3m-nyvg> a schema:ScholarlyArticle;")
|
31
|
+
end
|
32
|
+
|
33
|
+
it "BlogPosting Citeproc JSON" do
|
34
|
+
input = fixture_path + "citeproc.json"
|
35
|
+
subject = Briard::Metadata.new(input: input, from: "citeproc")
|
36
|
+
ttl = subject.turtle.split("\n")
|
37
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
38
|
+
expect(ttl[2]).to eq("<https://doi.org/10.5438/4k3m-nyvg> a schema:BlogPosting;")
|
39
|
+
end
|
40
|
+
|
41
|
+
it "BlogPosting DataCite JSON" do
|
42
|
+
input = fixture_path + "datacite.json"
|
43
|
+
subject = Briard::Metadata.new(input: input, from: "datacite_json")
|
44
|
+
ttl = subject.turtle.split("\n")
|
45
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
46
|
+
expect(ttl[2]).to eq("<https://doi.org/10.5438/4k3m-nyvg> a schema:ScholarlyArticle;")
|
47
|
+
end
|
48
|
+
|
49
|
+
it "BlogPosting schema.org" do
|
50
|
+
input = "https://blog.datacite.org/eating-your-own-dog-food/"
|
51
|
+
subject = Briard::Metadata.new(input: input, from: "schema_org")
|
52
|
+
expect(subject.valid?).to be true
|
53
|
+
ttl = subject.turtle.split("\n")
|
54
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
55
|
+
expect(ttl[2]).to eq("<https://doi.org/10.5438/4k3m-nyvg> a schema:BlogPosting;")
|
56
|
+
end
|
57
|
+
|
58
|
+
it "DataONE" do
|
59
|
+
input = fixture_path + 'codemeta.json'
|
60
|
+
subject = Briard::Metadata.new(input: input, from: "codemeta")
|
61
|
+
ttl = subject.turtle.split("\n")
|
62
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
63
|
+
expect(ttl[2]).to eq("<https://doi.org/10.5063/f1m61h5x> a schema:SoftwareSourceCode;")
|
64
|
+
end
|
65
|
+
|
66
|
+
it "journal article" do
|
67
|
+
input = "10.7554/eLife.01567"
|
68
|
+
subject = Briard::Metadata.new(input: input, from: "crossref")
|
69
|
+
expect(subject.valid?).to be true
|
70
|
+
ttl = subject.turtle.split("\n")
|
71
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
72
|
+
expect(ttl[2]).to eq("<https://doi.org/10.7554/elife.01567> a schema:ScholarlyArticle;")
|
73
|
+
end
|
74
|
+
|
75
|
+
it "with pages" do
|
76
|
+
input = "https://doi.org/10.1155/2012/291294"
|
77
|
+
subject = Briard::Metadata.new(input: input, from: "crossref")
|
78
|
+
expect(subject.valid?).to be true
|
79
|
+
ttl = subject.turtle.split("\n")
|
80
|
+
expect(ttl[0]).to eq("@prefix schema: <http://schema.org/> .")
|
81
|
+
expect(ttl[2]).to eq("<https://doi.org/10.1155/2012/291294> a schema:ScholarlyArticle;")
|
82
|
+
end
|
83
|
+
end
|
84
|
+
end
|