diff --git a/project/information_resource_registry.py b/project/information_resource_registry.py index 9bd0a60..43e3182 100644 --- a/project/information_resource_registry.py +++ b/project/information_resource_registry.py @@ -1,5 +1,5 @@ # Auto generated from information_resource_registry.yaml by pythongen.py version: 0.0.1 -# Generation date: 2024-03-15T09:51:05 +# Generation date: 2024-03-15T21:28:56 # Schema: Information-Resource-Registry-Schema # # id: https://w3id.org/biolink/information_resource_registry.yaml diff --git a/project/jsonld/information_resource_registry.context.jsonld b/project/jsonld/information_resource_registry.context.jsonld index e769de5..d4a1e4e 100644 --- a/project/jsonld/information_resource_registry.context.jsonld +++ b/project/jsonld/information_resource_registry.context.jsonld @@ -1,7 +1,7 @@ { "comments": { "description": "Auto generated by LinkML jsonld context generator", - "generation_date": "2024-03-15T09:51:03", + "generation_date": "2024-03-15T21:28:55", "source": "information_resource_registry.yaml" }, "@context": { diff --git a/project/jsonld/information_resource_registry.jsonld b/project/jsonld/information_resource_registry.jsonld index e9925f5..b179c5c 100644 --- a/project/jsonld/information_resource_registry.jsonld +++ b/project/jsonld/information_resource_registry.jsonld @@ -612,9 +612,9 @@ ], "metamodel_version": "1.7.0", "source_file": "information_resource_registry.yaml", - "source_file_date": "2024-03-15T09:06:03", + "source_file_date": "2024-03-15T21:28:11", "source_file_size": 7882, - "generation_date": "2024-03-15T09:51:03", + "generation_date": "2024-03-15T21:28:56", "@type": "SchemaDefinition", "@context": [ "project/jsonld/information_resource_registry.context.jsonld", diff --git a/project/owl/information_resource.owl.ttl b/project/owl/information_resource.owl.ttl index d78094d..aebd6fe 100644 --- a/project/owl/information_resource.owl.ttl +++ b/project/owl/information_resource.owl.ttl @@ -12,10 +12,10 @@ infores:InformationResourceContainer a owl:Class ; rdfs:label "InformationResourceContainer" ; rdfs:subClassOf [ a owl:Restriction ; - owl:minCardinality 0 ; + owl:allValuesFrom infores:InformationResource ; owl:onProperty infores:information_resources ], [ a owl:Restriction ; - owl:allValuesFrom infores:InformationResource ; + owl:minCardinality 0 ; owl:onProperty infores:information_resources ], linkml:ClassDefinition ; skos:definition "A collection of information resources" ; @@ -39,71 +39,71 @@ biolink:information_resource_registry.yaml.owl.ttl a owl:Ontology ; infores:InformationResource a owl:Class ; rdfs:label "InformationResource" ; rdfs:subClassOf [ a owl:Restriction ; - owl:minCardinality 0 ; + owl:allValuesFrom xsd:string ; + owl:onProperty infores:name ], + [ a owl:Restriction ; + owl:maxCardinality 1 ; + owl:onProperty infores:name ], + [ a owl:Restriction ; + owl:allValuesFrom xsd:string ; owl:onProperty infores:synonym ], [ a owl:Restriction ; - owl:allValuesFrom infores:InformationResourceStatusEnum ; - owl:onProperty infores:status ], + owl:allValuesFrom xsd:string ; + owl:onProperty infores:xref ], [ a owl:Restriction ; - owl:maxCardinality 1 ; + owl:minCardinality 0 ; owl:onProperty infores:description ], [ a owl:Restriction ; owl:allValuesFrom infores:AgentTypeEnum ; owl:onProperty infores:agent_type ], [ a owl:Restriction ; owl:maxCardinality 1 ; - owl:onProperty infores:name ], - [ a owl:Restriction ; - owl:minCardinality 0 ; - owl:onProperty infores:knowledge_level ], + owl:onProperty infores:description ], [ a owl:Restriction ; owl:allValuesFrom xsd:string ; owl:onProperty infores:id ], [ a owl:Restriction ; - owl:minCardinality 0 ; - owl:onProperty infores:agent_type ], - [ a owl:Restriction ; - owl:allValuesFrom xsd:string ; - owl:onProperty infores:name ], + owl:maxCardinality 1 ; + owl:onProperty infores:id ], [ a owl:Restriction ; owl:maxCardinality 1 ; owl:onProperty infores:status ], [ a owl:Restriction ; - owl:minCardinality 1 ; - owl:onProperty infores:id ], - [ a owl:Restriction ; - owl:minCardinality 0 ; - owl:onProperty infores:description ], + owl:allValuesFrom infores:InformationResourceStatusEnum ; + owl:onProperty infores:status ], [ a owl:Restriction ; - owl:maxCardinality 1 ; + owl:allValuesFrom infores:KnowledgeLevelEnum ; owl:onProperty infores:knowledge_level ], [ a owl:Restriction ; owl:minCardinality 0 ; - owl:onProperty infores:xref ], + owl:onProperty infores:synonym ], [ a owl:Restriction ; - owl:maxCardinality 1 ; - owl:onProperty infores:id ], + owl:minCardinality 0 ; + owl:onProperty infores:status ], [ a owl:Restriction ; - owl:allValuesFrom xsd:string ; - owl:onProperty infores:xref ], + owl:minCardinality 0 ; + owl:onProperty infores:knowledge_level ], [ a owl:Restriction ; - owl:allValuesFrom xsd:string ; - owl:onProperty infores:synonym ], + owl:minCardinality 0 ; + owl:onProperty infores:name ], [ a owl:Restriction ; owl:maxCardinality 1 ; - owl:onProperty infores:agent_type ], + owl:onProperty infores:knowledge_level ], [ a owl:Restriction ; - owl:minCardinality 0 ; - owl:onProperty infores:name ], + owl:minCardinality 1 ; + owl:onProperty infores:id ], [ a owl:Restriction ; owl:allValuesFrom xsd:string ; owl:onProperty infores:description ], [ a owl:Restriction ; - owl:allValuesFrom infores:KnowledgeLevelEnum ; - owl:onProperty infores:knowledge_level ], + owl:minCardinality 0 ; + owl:onProperty infores:xref ], [ a owl:Restriction ; owl:minCardinality 0 ; - owl:onProperty infores:status ], + owl:onProperty infores:agent_type ], + [ a owl:Restriction ; + owl:maxCardinality 1 ; + owl:onProperty infores:agent_type ], linkml:ClassDefinition ; skos:altLabel "knowledgebase" ; skos:definition "A database or knowledgebase and its supporting ecosystem of interfaces and services that deliver content to consumers (e.g. web portals, APIs, query endpoints, streaming services, data downloads, etc.). A single Information Resource by this definition may span many different datasets or databases, and include many access endpoints and user interfaces. Information Resources include project-specific resources such as a Translator Knowledge Provider, and community knowledgebases like ChemBL, OMIM, or DGIdb." ; diff --git a/project/shacl/information_resource_registry.shacl.ttl b/project/shacl/information_resource_registry.shacl.ttl index c426a13..2d861be 100644 --- a/project/shacl/information_resource_registry.shacl.ttl +++ b/project/shacl/information_resource_registry.shacl.ttl @@ -20,34 +20,24 @@ infores:InformationResource a sh:NodeShape ; sh:description "A database or knowledgebase and its supporting ecosystem of interfaces and services that deliver content to consumers (e.g. web portals, APIs, query endpoints, streaming services, data downloads, etc.). A single Information Resource by this definition may span many different datasets or databases, and include many access endpoints and user interfaces. Information Resources include project-specific resources such as a Translator Knowledge Provider, and community knowledgebases like ChemBL, OMIM, or DGIdb." ; sh:ignoredProperties ( rdf:type ) ; sh:property [ sh:datatype xsd:string ; - sh:description "A database cross reference or alternative identifier for a NamedThing or edge between two NamedThings. This property should point to a database record or webpage that supports the existence of the edge, or gives more detail about the edge. This property can be used on a node or edge to provide multiple URIs or CURIE cross references." ; - sh:order 3 ; - sh:path infores:xref ], - [ sh:datatype xsd:string ; - sh:description "A human-readable name for an attribute or entity." ; - sh:maxCount 1 ; - sh:order 1 ; - sh:path rdfs:label ], - [ sh:description "The level of knowledge that supports an edge or node. This is a general categorization of the type of evidence that supports a statement, and is not intended to be a comprehensive description of the evidence. For example, a statement may be supported by a single publication, but that publication may contain multiple types of evidence, such as a computational prediction and a manual curation. In this case, the knowledge level would be \"curated\", and the evidence would be described in more detail in the evidence graph." ; - sh:in ( "curated" "predicted" "text_mined" "correlation" "observed" "other" "mixed" ) ; - sh:maxCount 1 ; - sh:order 6 ; - sh:path infores:knowledge_level ], - [ sh:datatype xsd:string ; sh:description "Alternate human-readable names for a thing" ; sh:order 4 ; sh:path infores:synonym ], [ sh:datatype xsd:string ; - sh:description "A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI" ; + sh:description "A human-readable name for an attribute or entity." ; sh:maxCount 1 ; - sh:minCount 1 ; - sh:order 2 ; - sh:path infores:id ], + sh:order 1 ; + sh:path rdfs:label ], [ sh:datatype xsd:string ; sh:description "A free-text description of an entity or attribute." ; sh:maxCount 1 ; sh:order 5 ; sh:path rdfs:comment ], + [ sh:description "The level of knowledge that supports an edge or node. This is a general categorization of the type of evidence that supports a statement, and is not intended to be a comprehensive description of the evidence. For example, a statement may be supported by a single publication, but that publication may contain multiple types of evidence, such as a computational prediction and a manual curation. In this case, the knowledge level would be \"curated\", and the evidence would be described in more detail in the evidence graph." ; + sh:in ( "curated" "predicted" "text_mined" "correlation" "observed" "other" "mixed" ) ; + sh:maxCount 1 ; + sh:order 6 ; + sh:path infores:knowledge_level ], [ sh:description "the status of the infores identifier, the default is \"released\"" ; sh:in ( "released" "deprecated" "draft" "modified" ) ; sh:maxCount 1 ; @@ -57,6 +47,16 @@ infores:InformationResource a sh:NodeShape ; sh:in ( "not_provided" "computational_model" ) ; sh:maxCount 1 ; sh:order 7 ; - sh:path infores:agent_type ] ; + sh:path infores:agent_type ], + [ sh:datatype xsd:string ; + sh:description "A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI" ; + sh:maxCount 1 ; + sh:minCount 1 ; + sh:order 2 ; + sh:path infores:id ], + [ sh:datatype xsd:string ; + sh:description "A database cross reference or alternative identifier for a NamedThing or edge between two NamedThings. This property should point to a database record or webpage that supports the existence of the edge, or gives more detail about the edge. This property can be used on a node or edge to provide multiple URIs or CURIE cross references." ; + sh:order 3 ; + sh:path infores:xref ] ; sh:targetClass infores:InformationResource . diff --git a/src/information_resource_registry/datamodel/information_resource_registry.py b/src/information_resource_registry/datamodel/information_resource_registry.py index bab37dc..479caf1 100644 --- a/src/information_resource_registry/datamodel/information_resource_registry.py +++ b/src/information_resource_registry/datamodel/information_resource_registry.py @@ -1,5 +1,5 @@ # Auto generated from information_resource_registry.yaml by pythongen.py version: 0.0.1 -# Generation date: 2024-03-15T09:51:17 +# Generation date: 2024-03-15T21:29:03 # Schema: Information-Resource-Registry-Schema # # id: https://w3id.org/biolink/information_resource_registry.yaml