Reference

class pyobo.Reference(**data)

Bases: Reference

A namespace, identifier, and label.

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

Raises ValidationError if the input data cannot be parsed to form a valid model.

Attributes Summary

bioregistry_link

Get the bioregistry link.

Methods Summary

auto(prefix, identifier)	Create a reference and auto-populate its name.
from_curie(curie[, name, strict, auto])	Get a reference from a CURIE.
from_iri(iri[, name, auto])	Get a reference from an IRI using the Bioregistry.
validate_prefix(v)	Validate the prefix for this reference.

Attributes Documentation

bioregistry_link

Get the bioregistry link.

Methods Documentation

classmethod auto(prefix, identifier)

Create a reference and auto-populate its name.

Return type:

Reference

classmethod from_curie(curie, name=None, *, strict=True, auto=False)

Get a reference from a CURIE.

Parameters:

• curie (str) – The compact URI (CURIE) to parse in the form of <prefix>:<identifier>

• name (Optional[str]) – The name associated with the CURIE

• strict (bool) – If true, raises an error if the CURIE can not be parsed.

• auto (bool) – Automatically look up name

Return type:

Optional[Reference]

classmethod from_iri(iri, name=None, *, auto=False)

Get a reference from an IRI using the Bioregistry.

Parameters:

• iri (str) – The IRI to parse

• name (Optional[str]) – The name associated with the CURIE

• auto (bool) – Automatically look up name

Return type:

Optional[Reference]

classmethod validate_prefix(v)

Validate the prefix for this reference.