Node

class Node(*, id: str, lbl: str | None = None, meta: Meta | None = None, type: typing_extensions.Literal[CLASS, PROPERTY, INDIVIDUAL], reference: Reference | None = None, standardized: bool = False)[source]

Bases: BaseModel, StandardizeMixin

Represents a node in an OBO Graph.

Create a new model by parsing and validating input data from keyword arguments.

Raises [ValidationError][pydantic_core.ValidationError] if the input data cannot be validated to form a valid model.

self is explicitly positional-only to allow self as a field name.

Attributes Summary

`alternative_ids`	Get the alernative identifiers for this node.
`created_by`	Get the creator of the node.
`creation_date`	Get the creation date of the node.
`curie`	Get the CURIE string representing this node or error if not normalized.
`definition`	Get the definition of the node.
`definition_provenance`	Get the provenance CURIEs for the definition.
`deprecated`	Get if the node is deprecated.
`identifier`	Get the identifier for the node if it has been standardized.
`model_computed_fields`	A dictionary of computed field names and their corresponding ComputedFieldInfo objects.
`model_config`	Configuration for the model, should be a dictionary conforming to [ConfigDict][pydantic.config.ConfigDict].
`model_fields`	Metadata about the fields defined on the model, mapping of field names to [FieldInfo][pydantic.fields.FieldInfo].
`namespace`	Get the OBO namespace.
`prefix`	Get the prefix for the node if it has been standardized.
`properties`	Get the properties for this node.
`replaced_by`	Get the identifier that this node was replaced by.
`synonyms`	Get the synonyms for the node.
`xrefs`	Get the xrefs for the node.

Methods Summary

`get_provenance`()	Get provenance CURIEs from definition and xrefs.
`parse_curie`()	Parse the identifier into a pair, assuming it's a CURIE.
`standardize`()	Ground the node to a standard prefix and luid based on its id (URI).

Attributes Documentation

alternative_ids: Get the alernative identifiers for this node.

created_by: Get the creator of the node.

creation_date: Get the creation date of the node.

curie: Get the CURIE string representing this node or error if not normalized.

definition: Get the definition of the node.

definition_provenance: Get the provenance CURIEs for the definition.

deprecated: Get if the node is deprecated.

identifier: Get the identifier for the node if it has been standardized.

model_computed_fields: ClassVar[dict[str, ComputedFieldInfo]] = {}: A dictionary of computed field names and their corresponding ComputedFieldInfo objects.

model_config: ClassVar[ConfigDict] = {}: Configuration for the model, should be a dictionary conforming to [ConfigDict][pydantic.config.ConfigDict].

model_fields: ClassVar[dict[str, FieldInfo]] = {'id': FieldInfo(annotation=str, required=True, description='The IRI for the node'), 'meta': FieldInfo(annotation=Union[Meta, NoneType], required=False), 'name': FieldInfo(annotation=Union[str, NoneType], required=False, alias='lbl', alias_priority=2, description='The name of the node'), 'reference': FieldInfo(annotation=Union[Reference, NoneType], required=False), 'standardized': FieldInfo(annotation=bool, required=False, default=False, exclude=True), 'type': FieldInfo(annotation=Literal['CLASS', 'PROPERTY', 'INDIVIDUAL'], required=True, description='Type of node')}

Metadata about the fields defined on the model, mapping of field names to [FieldInfo][pydantic.fields.FieldInfo].

This replaces Model.__fields__ from Pydantic V1.

namespace: Get the OBO namespace.

prefix: Get the prefix for the node if it has been standardized.

properties: Get the properties for this node.

replaced_by: Get the identifier that this node was replaced by.

synonyms: Get the synonyms for the node.

xrefs: Get the xrefs for the node.

Methods Documentation

get_provenance() → List[Reference][source]: Get provenance CURIEs from definition and xrefs.

parse_curie() → Tuple[str, str] | Tuple[None, None][source]: Parse the identifier into a pair, assuming it’s a CURIE.

standardize() → Self[source]: Ground the node to a standard prefix and luid based on its id (URI).