- allow to bypass suitability tests

Author: fbergmann

src/sbml/conversion/SBMLRateRuleConverter.cpp

@@ -238,6 +238,9 @@ SBMLRateRuleConverter::getDefaultProperties() const
     prop.addOption("useStoichiometryFromMath", true,
                      "If a number appears in the math use it as the stoichiometry");
 
+		prop.addOption("performSanityCheck", true,
+			"Whether the model should be checked for suitability first");
+
     init = true;
     return prop;
   }
@@ -300,7 +303,7 @@ SBMLRateRuleConverter::convert()
 {
   // if we cannot do the conversion - dont try
   OperationReturnValues_t returnValue;
-  if (!isDocumentAppropriate(returnValue))
+  if (performSanityCheck() && !isDocumentAppropriate(returnValue))
   {
     return returnValue;
   }
@@ -1137,6 +1140,21 @@ bool SBMLRateRuleConverter::useStoichiometryFromMath()
     return value;
 }
 
+bool SBMLRateRuleConverter::performSanityCheck()
+{
+	bool value = true;
+	if (getProperties() == NULL || getProperties()->hasOption("performSanityCheck") == false)
+	{
+		return value;
+	}
+	else
+	{
+		value = getProperties()->getBoolValue("performSanityCheck");
+	}
+	return value;
+}
+
+
 void
 SBMLRateRuleConverter::analyseCoefficient(std::vector<double> coeffs, unsigned int term_index)
 {

src/sbml/conversion/SBMLRateRuleConverter.h

@@ -229,6 +229,8 @@ class LIBSBML_EXTERN SBMLRateRuleConverter : public SBMLConverter
 
   bool useStoichiometryFromMath();
 
+  bool performSanityCheck();
+
   // functions to deal with multiple compartments
   bool speciesFromMultipleCompartmentsInSameRateRule();
 

src/sbml/conversion/test/TestSBMLRateRuleConverter.cpp

@@ -254,6 +254,18 @@ START_TEST(test_conversion_raterule_converter_invalid)
 
   fail_unless(rule_rn_converter->convert() == LIBSBML_OPERATION_FAILED);
 
+	// now override the check for suitability to force an invalid document through
+	// assuming the user knows what they are doing
+	rule_rn_props.addOption("performSanityCheck", false);
+	rule_rn_converter->setProperties(&rule_rn_props);
+
+	fail_unless(rule_rn_converter->convert() == LIBSBML_OPERATION_SUCCESS);
+	
+	// reset to default
+	rule_rn_props.setBoolValue("performSanityCheck", true);
+	rule_rn_converter->setProperties(&rule_rn_props);
+
+
   delete doc;
 }
 END_TEST