From 797022767d0759376134f6498270939ebb9e1a55 Mon Sep 17 00:00:00 2001 From: ialarmedalien Date: Mon, 11 Mar 2024 09:10:25 -0700 Subject: [PATCH] A few fixes to the credit metadata schema and the example data --- README.md | 13 + .../10.25982_105874.55_1844990_kbcms.json | 398 +++++++++--------- .../10.25982_116951.133_1878567_kbcms.json | 247 ++++++----- .../10.25982_1722943_kbcms.json | 244 ++++++----- .../10.25982_86723.65_1778009_kbcms.json | 218 +++++----- ...6084_m9.figshare.12644048.v1_datacite.json | 0 ...10.6084_m9.figshare.12644048.v1_kbcms.json | 144 +++++++ .../10.6084_m9.figshare.12644081.v1.yaml | 75 ---- ...10.6084_m9.figshare.12644081.v1_kbcms.json | 145 ------- .../JDP_5fa4fb4647675a20c852c60b_kbcms.json | 354 ++++++++-------- schema/commonmeta/commonmeta.schema.json | 91 +++- .../jsonschema/credit_metadata.schema.json | 44 +- schema/kbase/linkml/credit_metadata.yaml | 56 +-- 13 files changed, 997 insertions(+), 1032 deletions(-) rename sample_data/kbase/{10.6084_m9.figshare.12644081.v1 => 10.6084_m9.figshare.12644048.v1}/10.6084_m9.figshare.12644048.v1_datacite.json (100%) create mode 100644 sample_data/kbase/10.6084_m9.figshare.12644048.v1/10.6084_m9.figshare.12644048.v1_kbcms.json delete mode 100644 sample_data/kbase/10.6084_m9.figshare.12644081.v1/10.6084_m9.figshare.12644081.v1.yaml delete mode 100644 sample_data/kbase/10.6084_m9.figshare.12644081.v1/10.6084_m9.figshare.12644081.v1_kbcms.json diff --git a/README.md b/README.md index cf354dc..c44765c 100644 --- a/README.md +++ b/README.md @@ -81,3 +81,16 @@ generate a schema diagram (can be visualised at yuml.me): ```sh gen-yuml schema/kbase/linkml/credit_metadata.yaml ``` + +#### JSONschema data validation + +install the JSONschema check script: + +```sh +brew install check-jsonschema +``` + +To test a file against the schema, use the command: +```sh +check-jsonschema --schemafile schema.json instance.json +``` diff --git a/sample_data/kbase/10.25982_105874.55_1844990/10.25982_105874.55_1844990_kbcms.json b/sample_data/kbase/10.25982_105874.55_1844990/10.25982_105874.55_1844990_kbcms.json index 310f20b..d3a6e0c 100644 --- a/sample_data/kbase/10.25982_105874.55_1844990/10.25982_105874.55_1844990_kbcms.json +++ b/sample_data/kbase/10.25982_105874.55_1844990/10.25982_105874.55_1844990_kbcms.json @@ -1,205 +1,205 @@ { - 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Strain CPTF has 100% 16S rRNA gene identity to the most abundant metagenome 16S v4 region amplicon sequence variant (ASV) in the soils of the highly contaminated Area 3, the site immediately adjacent to the contamination source: the former S-3 ponds.", + "description_type": "abstract", + "language": "en-US" + } + ], + "titles": [ + { + "title": "Complete Genome of ORR Isolate Bacillus cereus CPT56D-587-MTF", + "language": "en-US" + } + ], + "identifier": "DOI:10.25982/105874.55/1844990", + "resource_type": "dataset", + "license": { "url": "https://spdx.org/licenses/CC-BY-4.0.html", "id": "CC-BY-4.0" } - ] + } } } diff --git a/sample_data/kbase/10.25982_116951.133_1878567/10.25982_116951.133_1878567_kbcms.json b/sample_data/kbase/10.25982_116951.133_1878567/10.25982_116951.133_1878567_kbcms.json index b126cef..9ee6702 100644 --- a/sample_data/kbase/10.25982_116951.133_1878567/10.25982_116951.133_1878567_kbcms.json +++ b/sample_data/kbase/10.25982_116951.133_1878567/10.25982_116951.133_1878567_kbcms.json @@ -1,130 +1,129 @@ { - "credit_metadata_schema_version": "0.0.1-commonmeta", - "saved_by": "ialarmedalien", - "timestamp": 1234567890, - "credit_metadata": { - "identifier": "DOI:10.25982/116951.133/1878567", - "resource_type": "dataset", - "language": "en-US", - "license": [ - { + "credit_metadata_entry": { + "credit_metadata_schema_version": "0.0.1-commonmeta", + "saved_by": "ialarmedalien", + "timestamp": 1234567890, + "credit_metadata": { + "identifier": "DOI:10.25982/116951.133/1878567", + "resource_type": "dataset", + "license": { "url": "https://spdx.org/licenses/CC-BY-4.0.html", "id": "CC-BY-4.0" - } - ], - "titles": [ - { - "title": "KBase Narrative - Metagenome-assembled genomes from Amazonian soil microbial consortia", - "title_type": "title" - } - ], - "contributors": [ - { - "name": "Jessica Mandro", - "given_name": "Jessica", - "family_name": "Mandro", - "contributor_type": "Person", - "affiliations": [ - { - "organization_name": "University of São Paulo", - "organization_id": "ROR:036rp1748" - } - ] - } - ], - "dates": [ - { - "date": "2022-07-29", - "event": "issued" - } - ], - "descriptions": [ - { - "description_text": "We report 17 metagenome-assembled genomes (MAGs) recovered from microbial consortia of forest and pasture soils, in the Brazilian Eastern Amazon. Recovered MAGs constitute novel genomes with the potential to act in important ecological processes, including the degradation of carbohydrate and sulfur and nitrogen cycling.", - "description_type": "abstract" - } - ], - "publisher": { - "organization_name": "KBase", - "organization_id": "ROR:01znn6x10" - }, - "related_identifiers": [ - { - "relationship_type": "DataCite:IsIdenticalTo", - "id": "OSTI:1878567" }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1099/mgen.0.000853" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1186/1471-2105-11-538" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1093/bioinformatics/btz848" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1093/bioinformatics/btu170" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1186/2049-2618-2-26" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1038/nmeth.1923" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1101/gr.213959.116" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1038/nbt.4163" - }, - { - "relationship_type": "DataCite:References", - "id": "DOI:10.1093/bioinformatics/btz848" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1002/cpbi.102" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1101/gr.186072.114" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1038/nbt.4229" - }, - { - "relationship_type": "DataCite:References", - "id": "DOI:10.1002/cpbi.102" - }, - { - "relationship_type": "DataCite:References", - "id": "DOI:10.1038/nbt.4229" - }, - { - "relationship_type": "DataCite:References", - "id": "DOI:10.1186/gb-2009-10-3-r25" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1093/bioinformatics/btv638" - }, - { - "relationship_type": "DataCite:References", - "id": "DOI:10.1186/2049-2618-2-26" - }, - { - "relationship_type": "DataCite:Cites", - "id": "DOI:10.1186/gb-2009-10-3-r25" - } - ] + "titles": [ + { + "title": "KBase Narrative - Metagenome-assembled genomes from Amazonian soil microbial consortia", + "language": "en-US" + } + ], + "contributors": [ + { + "name": "Jessica Mandro", + "given_name": "Jessica", + "family_name": "Mandro", + "contributor_type": "Person", + "affiliations": [ + { + "organization_name": "University of São Paulo", + "organization_id": "ROR:036rp1748" + } + ] + } + ], + "dates": [ + { + "date": "2022-07-29", + "event": "issued" + } + ], + "descriptions": [ + { + "description_text": "We report 17 metagenome-assembled genomes (MAGs) recovered from microbial consortia of forest and pasture soils, in the Brazilian Eastern Amazon. 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Our goal is to create a Genome Resolved Open Watershed (GROW) database- which will be an open access resource to advance knowledge of aquatic microbiology for the entire scientific community.", - "description_type": "abstract" - } - ], - "identifier": "JDP:5fa4fb4647675a20c852c60b" + "credit_metadata_entry": { + "credit_metadata_schema_version": "0.0.1-commonmeta", + "saved_by": "ialarmedalien", + "timestamp": 1234567890, + "credit_metadata": { + "comment": [], + "contributors": [ + { + "affiliations": [ + { + "organization_name": "Colorado State University", + "organization_id": "ROR:03k1gpj17" + } + ], + "contributor_roles": [ + "CRediT:investigation", + "DataCite:ProjectLeader" + ], + "name": "Kelly Wrighton", + "given_name": "Kelly", + "family_name": "Wrighton", + "contributor_type": "Person" + }, + { + "name": "Rebecca Daly", + "given_name": "Rebecca", + "family_name": "Daly", + "contributor_type": "Person" + }, + { + "name": "Byron Crump", + "given_name": "Byron", + "family_name": "Crump", + "contributor_type": "Person" + }, + { + "name": "Jerome Payet", + "given_name": "Jerome", + "family_name": "Payet", + "contributor_type": "Person" + }, + { + "name": "James Stegen", + "given_name": "James", + "family_name": "Stegen", + "contributor_type": "Person" + }, + { + "name": "Michael Wilkins", + "given_name": "Michael", + "family_name": "Wilkins", + "contributor_type": "Person" + }, + { + "name": "Matthew Sullivan", + "given_name": "Matthew", + "family_name": "Sullivan", + "contributor_type": "Person" + }, + { + "name": "Mikayla Borton", + "given_name": "Mikayla", + "family_name": "Borton", + "contributor_type": "Person" + }, + { + "name": "Robert Danczak", + "given_name": "Robert", + "family_name": "Danczak", + "contributor_type": "Person" + }, + { + "name": "Stephen Good", + "given_name": "Stephen", + "family_name": "Good", + "contributor_type": "Person" + }, + { + "name": "Edward Hall", + "given_name": "Edward", + "family_name": "Hall", + "contributor_type": "Person" + }, + { + "name": "Annika Mosier", + "given_name": "Annika", + "family_name": "Mosier", + "contributor_type": "Person" + }, + { + "name": "Peter Raymond", + "given_name": "Peter", + "family_name": "Raymond", + "contributor_type": "Person" + }, + { + "name": "Jacob Hosen", + "given_name": "Jacob", + "family_name": "Hosen", + "contributor_type": "Person" + }, + { + "name": "Christopher Henry", + "given_name": "Christopher", + "family_name": "Henry", + "contributor_type": "Person" + } + ], + "dates": [ + { + "event": "submitted", + "date": "2020-11-05" + } + ], + "funding": [ + { + "grant_title": "Creating the GROW (Genome Resolved Open Watershed) Database: Leveraging Distributed Research Networks to Understand Watershed Systems", + "grant_url": "https://www.osti.gov/award-doi-service/biblio/10.46936/10.25585/60001289", + "funder": { + "organization_name": "US Department of Energy", + "organization_id": "DOI:10.13039/100000015" + }, + "grant_id": "505780" + } + ], + "related_identifiers": [ + { + "description": "JGI taxon ID", + "id": "jgi_taxon:3300041981", + "relationship_type": "unknown" + }, + { + "description": "JGI aggregation ID", + "id": "IMG_AP:1279887", + "relationship_type": "DataCite:IsPartOf" + }, + { + "description": "GOLD sample ID", + "id": "JGI_GOLD_sample:Gp0503312", + "relationship_type": "unknown" + }, + { + "description": "GOLD analysis project ID", + "id": "JGI_GOLD_analysis:Ga0451497", + "relationship_type": "DataCite:IsPartOf" + }, + { + "description": "ITS analysis project ID", + "id": "JGI_ITS_AP_ID:1279887", + "relationship_type": "DataCite:IsPartOf" + }, + { + "description": "ITS sequencing project ID", + "id": "JGI_ITS_SP_ID:1280049", + "relationship_type": "DataCite:IsPartOf" + }, + { + "description": "award doi", + "id": "DOI:10.46936/10.25585/60001289", + "relationship_type": "Crossref:Finances" + } + ], + "titles": [ + { + "title": "Metatranscriptome of feshwater microbial communities from Wyoming, USA - littlewindriver_2019_sw_WHONDRS-S19S_0009 (Metagenome Metatranscriptome)" + } + ], + "publisher": { + "organization_id": "ROR:04xm1d337", + "organization_name": "Joint Genome Institute" + }, + "resource_type": "dataset", + "version": "1", + "descriptions": [ + { + "description_text": "This proposal seeks to create a global census of microbial genomes across 250 of the worlds rivers, from the Amazon to the Mississippi. Our goal is to create a Genome Resolved Open Watershed (GROW) database- which will be an open access resource to advance knowledge of aquatic microbiology for the entire scientific community.", + "description_type": "abstract" + } + ], + "identifier": "JDP:5fa4fb4647675a20c852c60b" + } } } diff --git a/schema/commonmeta/commonmeta.schema.json b/schema/commonmeta/commonmeta.schema.json index d516b07..01aea7b 100644 --- a/schema/commonmeta/commonmeta.schema.json +++ b/schema/commonmeta/commonmeta.schema.json @@ -1,7 +1,7 @@ { "$schema": "http://json-schema.org/draft-07/schema#", - "$id": "https://commonmeta.org/commonmeta_v0.10.2.json", - "title": "Commonmeta v0.10.2", + "$id": "https://commonmeta.org/commonmeta_v0.10.8.json", + "title": "Commonmeta v0.10.8", "description": "JSON representation of the Commonmeta schema.", "additionalProperties": false, "definitions": { @@ -134,6 +134,7 @@ "Journal", "PeerReview", "PhysicalObject", + "Presentation", "ProceedingsArticle", "ProceedingsSeries", "Proceedings", @@ -141,6 +142,7 @@ "ReportSeries", "Report", "Software", + "StudyRegistration", "Other" ] }, @@ -234,42 +236,36 @@ }, "date": { "description": "The dates for the resource.", + "$comment": "The date fields are not required. Dates should be formatted as ISO 8601 dates.", "type": "object", "properties": { "created": { "description": "The date the resource was created.", - "type": "string", - "format": "date" + "type": "string" }, "submitted": { "description": "The date the resource was submitted.", - "type": "string", - "format": "date" + "type": "string" }, "accepted": { "description": "The date the resource was accepted.", - "type": "string", - "format": "date" + "type": "string" }, "published": { "description": "The date the resource was published.", - "type": "string", - "format": "date" + "type": "string" }, "updated": { "description": "The date the resource was updated.", - "type": "string", - "format": "date" + "type": "string" }, "available": { "description": "The date the resource was made available.", - "type": "string", - "format": "date" + "type": "string" }, "withdrawn": { "description": "The date the resource was withdrawn.", - "type": "string", - "format": "date" + "type": "string" } } }, @@ -291,6 +287,10 @@ "Subtitle", "TranslatedTitle" ] + }, + "language": { + "description": "The language of the title. Use one of the language codes from the IETF BCP 47 standard.", + "type": "string" } }, "required": [ @@ -302,27 +302,48 @@ "description": "The container of the resource.", "type": "object", "properties": { - "id": { + "identifier": { "description": "The identifier for the container.", "type": "string" }, + "identifierType": { + "description": "The identifierType for the container.", + "type": "string" + }, "type": { "description": "The type of the container.", "type": "string", "enum": [ "Book", "BookSeries", - "DataCatalog", "Journal", - "Periodical", + "Proceedings", "ProceedingsSeries", "Repository", + "DataRepository", + "Periodical", "Series" ] }, "title": { "description": "The title of the container.", "type": "string" + }, + "firstPage": { + "description": "The first page of the resource.", + "type": "string" + }, + "lastPage": { + "description": "The last page of the resource.", + "type": "string" + }, + "volume": { + "description": "The volume of the resource.", + "type": "string" + }, + "issue": { + "description": "The issue of the resource.", + "type": "string" } } }, @@ -455,7 +476,7 @@ "Reviews", "IsPreprintOf", "HasPreprint", - "isSupplementTo" + "IsSupplementTo" ] } }, @@ -517,9 +538,15 @@ "type": "string", "enum": [ "Abstract", - "Description", - "Summary" + "Summary", + "Methods", + "TechnicalInfo", + "Other" ] + }, + "language": { + "description": "The language of the title. Use one of the language codes from the IETF BCP 47 standard.", + "type": "string" } }, "required": [ @@ -597,7 +624,8 @@ "JaLC", "KISTI", "mEDRA", - "OP" + "OP", + "InvenioRDM" ] }, "alternate_identifiers": { @@ -654,6 +682,7 @@ "description": "The schema version of the resource.", "type": "string", "enum": [ + "https://commonmeta.org/commonmeta_v0.10", "http://datacite.org/schema/kernel-3", "http://datacite.org/schema/kernel-4" ] @@ -665,6 +694,22 @@ "findable", "not_found" ] + }, + "archive_locations": { + "description": "The location where content is archived.", + "type": "array", + "items": { + "type": "string", + "enum": [ + "CLOCKSS", + "LOCKSS", + "Portico", + "KB", + "Internet Archive", + "DWT" + ] + }, + "uniqueItems": true } }, "required": [ diff --git a/schema/kbase/jsonschema/credit_metadata.schema.json b/schema/kbase/jsonschema/credit_metadata.schema.json index dc0d794..5c3fe22 100644 --- a/schema/kbase/jsonschema/credit_metadata.schema.json +++ b/schema/kbase/jsonschema/credit_metadata.schema.json @@ -20,7 +20,7 @@ }, "contributor_id": { "description": "Persistent unique identifier for the contributor; this might be an ORCID for an individual, or a ROR ID for an organization.", - "pattern": "^[a-zA-Z0-9.]+:\\S", + "pattern": "^[a-zA-Z0-9.-_]+:\\S", "type": "string" }, "contributor_roles": { @@ -166,21 +166,13 @@ }, "identifier": { "description": "Resolvable persistent unique identifier for the resource. Should be in the format :.", - "pattern": "^[a-zA-Z0-9.]+:\\S", - "type": "string" - }, - "language": { - "description": "The language in which the title and other text relating to the resource is written, using the appropriate IETF BCP-47 notation.", + "pattern": "^[a-zA-Z0-9.-_]+:\\S", "type": "string" }, "license": { "$ref": "#/$defs/License", "description": "Usage license for the resource. Use one of the SPDX license identifiers or provide a link to the license text if no SPDX ID is available.\n\nAll data published at KBase is done so under a Creative Commons 0 or Creative Commons 4.0 license.\n" }, - "provider": { - "$ref": "#/$defs/ProviderType", - "description": "The provider of the resource. This can be a DOI registration agency or a repository." - }, "publisher": { "$ref": "#/$defs/Organization", "description": "The publisher of the resource. For a dataset, this is the repository where it is stored." @@ -275,6 +267,10 @@ "description_type": { "$ref": "#/$defs/DescriptionType", "description": "The type of text being represented" + }, + "language": { + "description": "The language in which the description is written, using the appropriate IETF BCP-47 notation.", + "type": "string" } }, "required": [ @@ -396,7 +392,7 @@ "properties": { "organization_id": { "description": "Persistent unique identifier for the organization in the format :", - "pattern": "^[a-zA-Z0-9.]+:\\S", + "pattern": "^[a-zA-Z0-9.-_]+:\\S", "type": "string" }, "organization_name": { @@ -420,7 +416,7 @@ }, "id": { "description": "Persistent unique ID for an entity. Should be in the format :.", - "pattern": "^[a-zA-Z0-9.]+:\\S", + "pattern": "^[a-zA-Z0-9.-_]+:\\S", "type": "string" }, "relationship_type": { @@ -429,25 +425,12 @@ } }, "required": [ - "id" + "id", + "relationship_type" ], "title": "PermanentID", "type": "object" }, - "ProviderType": { - "description": "The provider of a resource.", - "enum": [ - "Crossref", - "DataCite", - "GitHub", - "JaLC", - "KISTI", - "mEDRA", - "OP" - ], - "title": "ProviderType", - "type": "string" - }, "RelationshipType": { "description": "The relationship between two entities", "enum": [ @@ -513,7 +496,8 @@ "Crossref:IsReviewOf", "Crossref:IsSameAs", "Crossref:IsTranslationOf", - "Crossref:Replaces" + "Crossref:Replaces", + "unknown" ], "title": "RelationshipType", "type": "string" @@ -530,6 +514,10 @@ "additionalProperties": false, "description": "Represents the title or name of a resource, and the type of that title.\n\nThe 'title' field is required; 'title_type' is only necessary if the text is not the primary title.", "properties": { + "language": { + "description": "The language in which the description is written, using the appropriate IETF BCP-47 notation.", + "type": "string" + }, "title": { "description": "A string used as a title for a resource", "type": "string" diff --git a/schema/kbase/linkml/credit_metadata.yaml b/schema/kbase/linkml/credit_metadata.yaml index a3246ce..c976a6d 100644 --- a/schema/kbase/linkml/credit_metadata.yaml +++ b/schema/kbase/linkml/credit_metadata.yaml @@ -61,7 +61,7 @@ classes: slot_uri: schema:identifier description: Persistent unique identifier for the contributor; this might be an ORCID for an individual, or a ROR ID for an organization. range: uriorcurie - pattern: "^[a-zA-Z0-9.]+:\\S" + pattern: "^[a-zA-Z0-9.-_]+:\\S" examples: - value: ORCID:0000-0001-9557-7715 - value: ROR:01znn6x10 @@ -306,7 +306,7 @@ classes: description: Resolvable persistent unique identifier for the resource. Should be in the format :. range: uriorcurie required: true - pattern: "^[a-zA-Z0-9.]+:\\S" + pattern: "^[a-zA-Z0-9.-_]+:\\S" examples: - value: RefSeq:GCF_004214875.1 - value: GenBank:CP035949.1 @@ -327,12 +327,6 @@ classes: # it should be possible to generate an URL from a curie - ORCID:url - language: - description: The language in which the title and other text relating to the resource is written, using the appropriate IETF BCP-47 notation. - examples: - - value: ru-Cyrl - - value: fr - license: slot_uri: schema:license # also slot_uri:isAccessibleForFree @@ -459,6 +453,11 @@ classes: - value: description - value: summary + language: + description: The language in which the description is written, using the appropriate IETF BCP-47 notation. + examples: + - value: ru-Cyrl + - value: fr EventDate: description: | @@ -529,7 +528,7 @@ classes: close_mappings: - OSTI:award_doi range: uriorcurie - pattern: "^[a-zA-Z0-9.]+:\\S" + pattern: "^[a-zA-Z0-9.-_]+:\\S" examples: - value: https://genome.jgi.doe.gov/portal/Metanaintenssite/Metanaintenssite.info.html @@ -546,7 +545,7 @@ classes: # - DataCite:attributes.funding_references[].funder_identifier # - Crossref:message.project.funding.funder.id.id # range: uriorcurie - # pattern: "^[a-zA-Z0-9.]+:\\S" + # pattern: "^[a-zA-Z0-9.-_]+:\\S" # examples: # - value: DOI:10.13039/100000015 # - value: ISNI:0000000405337147 @@ -610,7 +609,7 @@ classes: - DataCite:attributes.contributors[].affiliation.affiliation_identifier - DataCite:attributes.creators[].affiliation.affiliation_identifier range: uriorcurie - pattern: "^[a-zA-Z0-9.]+:\\S" + pattern: "^[a-zA-Z0-9.-_]+:\\S" organization_name: slot_uri: schema:name @@ -631,7 +630,7 @@ classes: description: | Represents a persistent unique identifier for an entity, with an optional relationship to some other entity. - The 'id' field is required; all other fields are optional. + The 'id' field and 'relationship_type' fields are required. The values in the 'relationship_type' field come from controlled vocabularies maintained by DataCite and Crossref. See the documentation links below for more details. @@ -663,7 +662,7 @@ classes: related_mappings: - OSTI:site_url range: uriorcurie - pattern: "^[a-zA-Z0-9.]+:\\S" + pattern: "^[a-zA-Z0-9.-_]+:\\S" description: slot_uri: schema:description @@ -672,7 +671,7 @@ classes: - OSTI:description examples: - value: Amaranthus hypochondriacus genome - - value: This data analysis workflow demonstrates how to process a metagenome to identify viruses using VirSorter. Then, provides taxonomic classification using vConTACT2 + - value: This data analysis workflow demonstrates how to process a metagenome to identify viruses using VirSorter. Then, provides taxonomic classification using vConTACT2. relationship_type: description: | @@ -685,11 +684,17 @@ classes: Title: description: | - Represents the title or name of a resource, and the type of that title. + Represents the title or name of a resource, the type of that title, and the language used (if appropriate). The 'title' field is required; 'title_type' is only necessary if the text is not the primary title. attributes: + language: + description: The language in which the title is written, using the appropriate IETF BCP-47 notation. + examples: + - value: ru-Cyrl + - value: fr + title: slot_uri: schema:name # could also be schema:headline if title type is 'title' @@ -950,24 +955,6 @@ enums: relationship_types: - RDFS:subClassOf - ProviderType: - description: The provider of a resource. - permissible_values: - Crossref: - description: Crossref - DataCite: - description: DataCite - GitHub: - description: GitHub - JaLC: - description: Japan Link Center - KISTI: - description: Korea Institute of Science and Technology Information - mEDRA: - description: multilingual European DOI Registration Agency - OP: - description: Publications Office of the European Union - RelationshipType: description: The relationship between two entities permissible_values: @@ -1160,6 +1147,9 @@ enums: Crossref:Replaces: meaning: Crossref:Replaces title: replaces + Unknown: + meaning: Relationship type is unknown + title: unknown reachable_from: source_ontology: bioportal:DATACITE-VOCAB source_nodes: