corneto.io.import_sbml_model#

corneto.io.import_sbml_model(source, *, annotations=False, compression='auto', timeout=30.0)#

Read supported SBML and convert it to a CORNETO metabolic graph.

The native reader supports SBML Level 3 Version 1 Core and FBC Version 2, with optional Groups Version 1. It uses only the standard library to parse SBML and does not require COBRApy. Raw SBML identifiers are preserved; boundary and constant species remain available in graph metadata but are omitted from mass-balance vertices. If the document has an active FBC objective, its minimization-convention coefficient map is stored as graph.get_graph_attributes()["fba_objective"]. Pass that mapping explicitly to MultiSampleFBA.build(..., objectives=...) to use it.

Parameters:

  • source (str | PathLike | BinaryIO) – SBML path, HTTP(S) URL, or binary readable stream. Caller-owned streams are read from their current position and remain open.

  • annotations (bool) – Include embedded RDF resource URIs in record metadata. Annotation URIs are not fetched.

  • compression (str | None) – "auto" detects gzip, bz2, or xz by magic bytes; None disables decompression, and an explicit codec forces it.

  • timeout (float) – HTTP request timeout in seconds.

Returns:

A CORNETO graph containing the parsed metabolic network.

Raises:

ValueError – If the document uses unsupported dynamic semantics or contains invalid or unresolved model references.

Return type:

Graph

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