def test_snapshot(model):
"""Expect the OpenAPI docs to be served at root."""
with open(join(DATA_PATH, "store.json")) as file_handle:
validator = Draft4Validator(json.load(file_handle))
code, result = memote.test_model(
model=model, results=True, pytest_args=["--tb", "no"]
)
assert validator.is_valid(result)
config = memote.ReportConfiguration.load()
report = memote.SnapshotReport(result=result, configuration=config)
obj = report.render_json()
assert validator.is_valid(obj)
def model_snapshot(model):
"""Run memote on the given model and create a snapshot report."""
configuration = cobra.Configuration()
configuration.processes = 1
_, result = memote.test_model(
model,
results=True,
pytest_args=["-vv", "--tb", "long"],
solver_timeout=20,
skip=("test_inconsistent_min_stoichiometry", ),
)
config = memote.ReportConfiguration.load()
report = memote.SnapshotReport(result=result, configuration=config)
return model, report
def model_snapshot(model):
_, result = memote.test_model(model,
results=True,
pytest_args=["--tb", "no"])
config = memote.ReportConfiguration.load()
return memote.SnapshotReport(result=result, configuration=config)
import cobra
import memote
model = cobra.io.read_sbml_model("/home/agustin/FBA_Tesis/H37Rv-CHROM.sbml")
result = memote.test_model(model, skip=["test_consistency"], results=True)
report = memote.snapshot_report(result[1], config=None, html=True)
with open("H37Rv-CHROM.html", "w") as handle:
handle.write(report)