def _check_consistency(doc: libsbml.SBMLDocument, internalConsistency=False, show_errors=True):
Nerr = 0 # error count
Nwarn = 0 # warning count
if internalConsistency:
Nall = doc.checkInternalConsistency()
else:
Nall = doc.checkConsistency()
if Nall > 0:
for i in range(Nall):
severity = doc.getError(i).getSeverity()
if (severity == libsbml.LIBSBML_SEV_ERROR) or (severity == libsbml.LIBSBML_SEV_FATAL):
Nerr += 1
else:
Nwarn += 1
doc.printErrors()
return Nall, Nerr, Nwarn
def is_sbml_consistent(sbml_document: libsbml.SBMLDocument, check_units=False):
"""Check for SBML validity / consistency
Arguments:
sbml_document: SBML document to check
check_units: Also check for unit-related issues
Returns:
False if problems were detected, otherwise True
"""
if not check_units:
sbml_document.setConsistencyChecks(
libsbml.LIBSBML_CAT_UNITS_CONSISTENCY, False)
has_problems = sbml_document.checkConsistency()
if has_problems:
log_sbml_errors(sbml_document)
logger.warning(
'WARNING: Generated invalid SBML model. Check messages above.')
return not has_problems