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"""Test model annotations in JSON format."""
from pathlib import Path
import pytest
from cobra.io import load_json_model, write_sbml_model
def test_load_json_model_valid(data_directory: Path, tmp_path: Path) -> None:
"""Test loading a valid annotation from JSON.
data_directory : pathlib.Path
The path to the test data directory.
tmp_path : pathlib.Path
The path to the temporary test assets store.
"""
path_to_file = data_directory / "valid_annotation_format.json"
model = load_json_model(path_to_file)
expected = {
"bigg.reaction": [["is", "PFK26"]],
"kegg.reaction": [["is", "R02732"]],
"rhea": [["is", "15656"]],
}
for metabolite in model.metabolites:
assert metabolite.annotation == expected
path_to_output = tmp_path / "valid_annotation_output.xml"
write_sbml_model(model, str(path_to_output.resolve()))
def test_load_json_model_invalid(data_directory: Path) -> None:
"""Test that loading an invalid annotation from JSON raises TypeError.
data_directory : pathlib.Path
The path to the test data directory.
"""
path = data_directory / "invalid_annotation_format.json"
with pytest.raises(TypeError):
load_json_model(path)
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