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C++ CCopasiDataModel::exportSBMLToString方法代码示例

本文整理汇总了C++中CCopasiDataModel::exportSBMLToString方法的典型用法代码示例。如果您正苦于以下问题：C++ CCopasiDataModel::exportSBMLToString方法的具体用法？C++ CCopasiDataModel::exportSBMLToString怎么用？C++ CCopasiDataModel::exportSBMLToString使用的例子？那么, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类CCopasiDataModel的用法示例。


在下文中一共展示了CCopasiDataModel::exportSBMLToString方法的3个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的C++代码示例。

示例1: 


//.........这里部分代码省略.........
  CPPUNIT_ASSERT(pRoot != NULL);

  pReaction = pModel->getReactions()[4];
  CPPUNIT_ASSERT(pReaction != NULL);
  CPPUNIT_ASSERT(pReaction->getChemEq().getSubstrates().size() == 1);
  CPPUNIT_ASSERT(pReaction->getChemEq().getProducts().size() == 1);
  CPPUNIT_ASSERT(pReaction->getChemEq().getModifiers().size() == 0);
  CPPUNIT_ASSERT(pReaction->isReversible() == true);
  // check the kinetic law
  CPPUNIT_ASSERT(pReaction->getParameters().size() == 2);
  pFunction = pReaction->getFunction();
  CPPUNIT_ASSERT(pFunction != NULL);
  CPPUNIT_ASSERT(pFunction->getType() == CEvaluationTree::UserDefined);
  CPPUNIT_ASSERT(pFunction->getObjectName() == "Function for reaction5");
  pRoot = pFunction->getRoot();
  CPPUNIT_ASSERT(pRoot != NULL);

  pReaction = pModel->getReactions()[5];
  CPPUNIT_ASSERT(pReaction != NULL);
  CPPUNIT_ASSERT(pReaction->getChemEq().getSubstrates().size() == 1);
  CPPUNIT_ASSERT(pReaction->getChemEq().getProducts().size() == 1);
  CPPUNIT_ASSERT(pReaction->getChemEq().getModifiers().size() == 0);
  CPPUNIT_ASSERT(pReaction->isReversible() == true);
  // check the kinetic law
  CPPUNIT_ASSERT(pReaction->getParameters().size() == 3);
  pFunction = pReaction->getFunction();
  CPPUNIT_ASSERT(pFunction != NULL);
  CPPUNIT_ASSERT(pFunction->getType() == CEvaluationTree::UserDefined);
  CPPUNIT_ASSERT(pFunction->getObjectName() == "Function for reaction6");
  pRoot = pFunction->getRoot();
  CPPUNIT_ASSERT(pRoot != NULL);

  // export to SBML
  std::string s = pDataModel->exportSBMLToString(NULL, 1, 2);
  CPPUNIT_ASSERT(s.empty() == false);
  // due to the bugfix for Bug 1086 and some issues with libsbml and the current exporter,
  // we now no longer have a L1 document in the datamodel if there was an SBMLDocument prior
  // to exporting to L1 already.
  // To test now, we have to call newModel on the datamodel to delete the old sbml document,
  // and reimport the exported model
  // This will also lead to a Level 2 Version 1 model since we convert all Level 1 model to
  //  Level 2 Version 1 on import, but we can at least test if the export worked.
  pCOPASIDATAMODEL->newModel(NULL, true);
  CPPUNIT_ASSERT(pCOPASIDATAMODEL->importSBMLFromString(s));
  // check the sbml model
  const SBMLDocument* pDocument = pCOPASIDATAMODEL->getCurrentSBMLDocument();
  CPPUNIT_ASSERT(pDocument != NULL);
  CPPUNIT_ASSERT(pDocument->getLevel() == 2);
  CPPUNIT_ASSERT(pDocument->getVersion() == 1);
  const Model* pSBMLModel = pDocument->getModel();
  CPPUNIT_ASSERT(pSBMLModel != NULL);

  CPPUNIT_ASSERT(pSBMLModel->getListOfFunctionDefinitions()->size() == 0);
  CPPUNIT_ASSERT(pSBMLModel->getListOfCompartments()->size() == 1);
  CPPUNIT_ASSERT(pSBMLModel->getListOfSpecies()->size() == 6);
  CPPUNIT_ASSERT(pSBMLModel->getListOfParameters()->size() == 3);
  CPPUNIT_ASSERT(pSBMLModel->getListOfRules()->size() == 6);
  CPPUNIT_ASSERT(pSBMLModel->getListOfReactions()->size() == 6);

  std::map<std::string, const Rule*> ruleMap;
  unsigned int i, iMax = pSBMLModel->getListOfRules()->size();
  const Rule* pRule = NULL;

  for (i = 0; i < iMax; ++i)
    {
      pRule = pSBMLModel->getRule(i);
开发者ID:bmoreau，项目名称:COPASI，代码行数:67，代码来源:test000068.cpp

示例2: iss

void test000009::test_references_to_species()
{
  // load the CPS file
  // export to SBML
  // check the resulting SBML model
  CCopasiDataModel* pDataModel = pCOPASIDATAMODEL;
  std::istringstream iss(test000009::MODEL_STRING);
  CPPUNIT_ASSERT(load_cps_model_from_stream(iss, *pDataModel) == true);
  CPPUNIT_ASSERT(pDataModel->getModel() != NULL);
  CPPUNIT_ASSERT(pDataModel->exportSBMLToString(NULL, 2, 3).empty() == false);
  SBMLDocument* pDocument = pDataModel->getCurrentSBMLDocument();
  CPPUNIT_ASSERT(pDocument != NULL);
  Model* pModel = pDocument->getModel();
  CPPUNIT_ASSERT(pModel != NULL);
  // assert that there is only one compartment and
  // assert the compartment is constant
  CPPUNIT_ASSERT(pModel->getNumCompartments() == 1);
  Compartment* pCompartment = pModel->getCompartment(0);
  CPPUNIT_ASSERT(pCompartment->getConstant() == false);
  CPPUNIT_ASSERT(pModel->getNumSpecies() == 2);
  Species* pSpecies = pModel->getSpecies(1);
  CPPUNIT_ASSERT(pSpecies->getHasOnlySubstanceUnits() == true);
  pSpecies = pModel->getSpecies(0);
  std::string idSpeciesA = pSpecies->getId();
  CPPUNIT_ASSERT(pSpecies->getHasOnlySubstanceUnits() == true);
  CPPUNIT_ASSERT(pModel->getNumRules() == 2);
  // there are two rules, one is the rule for the compartment
  AssignmentRule* pRule = dynamic_cast<AssignmentRule*>(pModel->getRule(0));
  CPPUNIT_ASSERT(pRule != NULL);
  CPPUNIT_ASSERT(pModel->getNumParameters() == 1);
  Parameter* pParameter = pModel->getParameter(0);
  CPPUNIT_ASSERT(pParameter != NULL);

  if (pRule->getVariable() != pParameter->getId())
    {
      pRule = dynamic_cast<AssignmentRule*>(pModel->getRule(1));
    }

  CPPUNIT_ASSERT(pRule->getVariable() == pParameter->getId());
  const ASTNode* pMath = pRule->getMath();
  CPPUNIT_ASSERT(pMath != NULL);
  // the expression should be the species divided by the volume
  CPPUNIT_ASSERT(pMath->getType() == AST_DIVIDE);
  CPPUNIT_ASSERT(pMath->getChild(0) != NULL);
  CPPUNIT_ASSERT(pMath->getChild(0)->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getChild(0)->getName() == pSpecies->getId());
  CPPUNIT_ASSERT(pMath->getChild(1) != NULL);
  CPPUNIT_ASSERT(pMath->getChild(1)->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getChild(1)->getName() == pCompartment->getId());
  CPPUNIT_ASSERT(pModel->getNumReactions() == 2);
  Reaction* pReaction = pModel->getReaction(0);
  // make sure this is reaction A ->
  CPPUNIT_ASSERT(pReaction != NULL);
  CPPUNIT_ASSERT(pReaction->getNumReactants() == 1);
  CPPUNIT_ASSERT(pReaction->getNumProducts() == 0);
  // check if all references in the kinetic law are unmodified
  // math element must be a multiplication of the mass action term by
  // the compartment volume
  // the mass action term is a multiplication of the parameter node by
  // the species node
  // the code that multiplies the reaction by the compartments volume
  // recognizes the division of the species by the compartment and cancels
  // those two
  CPPUNIT_ASSERT(pReaction->isSetKineticLaw() == true);
  KineticLaw* pLaw = pReaction->getKineticLaw();
  CPPUNIT_ASSERT(pLaw != NULL);
  CPPUNIT_ASSERT(pLaw->isSetMath() == true);
  pMath = pLaw->getMath();
  CPPUNIT_ASSERT(pMath->getType() == AST_TIMES);
  CPPUNIT_ASSERT(pMath->getNumChildren() == 2);
  CPPUNIT_ASSERT(pMath->getChild(0)->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getChild(0)->getName() == std::string("k1"));
  CPPUNIT_ASSERT(pMath->getChild(1) != NULL);
  CPPUNIT_ASSERT(pMath->getChild(1)->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getChild(1)->getName() == idSpeciesA);

  pReaction = pModel->getReaction(1);
  // make sure this is reaction A -> S
  CPPUNIT_ASSERT(pReaction != NULL);
  CPPUNIT_ASSERT(pReaction->getNumReactants() == 1);
  CPPUNIT_ASSERT(pReaction->getNumProducts() == 1);
  // check if all references in the kinetic law are unmodified
  // math element must be a multiplication of the compartments volume with
  // a function call with three arguments
  // the first argument is the reference to the species
  CPPUNIT_ASSERT(pReaction->isSetKineticLaw() == true);
  pLaw = pReaction->getKineticLaw();
  CPPUNIT_ASSERT(pLaw != NULL);
  CPPUNIT_ASSERT(pLaw->isSetMath() == true);
  pMath = pLaw->getMath();
  CPPUNIT_ASSERT(pMath->getType() == AST_TIMES);
  CPPUNIT_ASSERT(pMath->getNumChildren() == 2);
  CPPUNIT_ASSERT(pMath->getChild(0)->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getChild(0)->getName() == pCompartment->getId());
  pMath = pMath->getChild(1);
  CPPUNIT_ASSERT(pMath != NULL);
  CPPUNIT_ASSERT(pMath->getType() == AST_FUNCTION);
  CPPUNIT_ASSERT(pMath->getNumChildren() == 3);
  pMath = pMath->getChild(0);
  CPPUNIT_ASSERT(pMath != NULL);
//.........这里部分代码省略.........
开发者ID:ShuoLearner，项目名称:COPASI，代码行数:101，代码来源:test000009.cpp

示例3: iss

void test000054::test_bug1002()
{
  // load the CPS file
  // export to SBML
  // check the resulting SBML model
  CCopasiDataModel* pDataModel = pCOPASIDATAMODEL;
  std::istringstream iss(test000054::MODEL_STRING);
  CPPUNIT_ASSERT(load_cps_model_from_stream(iss, *pDataModel) == true);
  CPPUNIT_ASSERT(pDataModel->getModel() != NULL);
  CPPUNIT_ASSERT(pDataModel->exportSBMLToString(NULL, 2, 3).empty() == false);
  SBMLDocument* pDocument = pDataModel->getCurrentSBMLDocument();
  CPPUNIT_ASSERT(pDocument != NULL);
  Model* pSBMLModel = pDocument->getModel();
  CPPUNIT_ASSERT(pSBMLModel != NULL);
  CPPUNIT_ASSERT(pSBMLModel->getNumCompartments() == 0);
  CPPUNIT_ASSERT(pSBMLModel->getNumSpecies() == 0);
  CPPUNIT_ASSERT(pSBMLModel->getNumReactions() == 0);
  CPPUNIT_ASSERT(pSBMLModel->getNumInitialAssignments() == 0);
  CPPUNIT_ASSERT(pSBMLModel->getNumParameters() == 5);
  const Parameter* pParameter1 = pSBMLModel->getParameter(0);
  CPPUNIT_ASSERT(pParameter1 != NULL);
  CPPUNIT_ASSERT(pParameter1->getConstant() == false);
  const Parameter* pParameter2 = pSBMLModel->getParameter(1);
  CPPUNIT_ASSERT(pParameter2 != NULL);
  CPPUNIT_ASSERT(pParameter2->getConstant() == false);
  const Parameter* pParameter3 = pSBMLModel->getParameter(2);
  CPPUNIT_ASSERT(pParameter3 != NULL);
  CPPUNIT_ASSERT(pParameter3->getConstant() == false);
  const Parameter* pParameter4 = pSBMLModel->getParameter(3);
  CPPUNIT_ASSERT(pParameter4 != NULL);
  CPPUNIT_ASSERT(pParameter4->getConstant() == false);
  const Parameter* pParameter5 = pSBMLModel->getParameter(4);
  CPPUNIT_ASSERT(pParameter5 != NULL);
  CPPUNIT_ASSERT(pParameter5->getConstant() == false);
  CPPUNIT_ASSERT(pSBMLModel->getNumRules() == 5);

  const Rule* pRule = pSBMLModel->getRule(0);
  CPPUNIT_ASSERT(pRule != NULL);
  CPPUNIT_ASSERT(pRule->getTypeCode() == SBML_ASSIGNMENT_RULE);
  const AssignmentRule* pARule = dynamic_cast<const AssignmentRule*>(pRule);
  CPPUNIT_ASSERT(pARule != NULL);
  CPPUNIT_ASSERT(pARule->getVariable() == pParameter4->getId());
  CPPUNIT_ASSERT(pARule->isSetMath() == true);
  const ASTNode* pMath = pARule->getMath();
  CPPUNIT_ASSERT(pMath != NULL);
  CPPUNIT_ASSERT(pMath->getType() == AST_PLUS);
  CPPUNIT_ASSERT(pMath->getNumChildren() == 2);
  const ASTNode* pChild1 = pMath->getChild(0);
  CPPUNIT_ASSERT(pChild1 != NULL);
  CPPUNIT_ASSERT(pChild1->getType() == AST_REAL);
  CPPUNIT_ASSERT(fabs((pChild1->getReal() - 2.0) / 2.0) < 1e-15);
  const ASTNode* pChild2 = pMath->getChild(1);
  CPPUNIT_ASSERT(pChild2 != NULL);
  CPPUNIT_ASSERT(pChild2->getType() == AST_REAL);
  CPPUNIT_ASSERT(fabs((pChild2->getReal() - 4.0) / 4.0) < 1e-15);

  pRule = pSBMLModel->getRule(1);
  CPPUNIT_ASSERT(pRule != NULL);
  CPPUNIT_ASSERT(pRule->getTypeCode() == SBML_ASSIGNMENT_RULE);
  pARule = dynamic_cast<const AssignmentRule*>(pRule);
  CPPUNIT_ASSERT(pARule != NULL);
  CPPUNIT_ASSERT(pARule->getVariable() == pParameter1->getId());
  CPPUNIT_ASSERT(pARule->isSetMath() == true);
  pMath = pARule->getMath();
  CPPUNIT_ASSERT(pMath != NULL);
  CPPUNIT_ASSERT(pMath->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getName() == pParameter4->getId());
  CPPUNIT_ASSERT(pMath->getNumChildren() == 0);

  pRule = pSBMLModel->getRule(2);
  CPPUNIT_ASSERT(pRule != NULL);
  CPPUNIT_ASSERT(pRule->getTypeCode() == SBML_ASSIGNMENT_RULE);
  pARule = dynamic_cast<const AssignmentRule*>(pRule);
  CPPUNIT_ASSERT(pARule != NULL);
  CPPUNIT_ASSERT(pARule->getVariable() == pParameter3->getId());
  CPPUNIT_ASSERT(pARule->isSetMath() == true);
  pMath = pARule->getMath();
  CPPUNIT_ASSERT(pMath != NULL);
  CPPUNIT_ASSERT(pMath->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getName() == pParameter1->getId());
  CPPUNIT_ASSERT(pMath->getNumChildren() == 0);

  pRule = pSBMLModel->getRule(3);
  CPPUNIT_ASSERT(pRule != NULL);
  CPPUNIT_ASSERT(pRule->getTypeCode() == SBML_ASSIGNMENT_RULE);
  pARule = dynamic_cast<const AssignmentRule*>(pRule);
  CPPUNIT_ASSERT(pARule != NULL);
  CPPUNIT_ASSERT(pARule->getVariable() == pParameter5->getId());
  CPPUNIT_ASSERT(pARule->isSetMath() == true);
  pMath = pARule->getMath();
  CPPUNIT_ASSERT(pMath != NULL);
  CPPUNIT_ASSERT(pMath->getType() == AST_NAME);
  CPPUNIT_ASSERT(pMath->getName() == pParameter3->getId());
  CPPUNIT_ASSERT(pMath->getNumChildren() == 0);

  pRule = pSBMLModel->getRule(4);
  CPPUNIT_ASSERT(pRule != NULL);
  CPPUNIT_ASSERT(pRule->getTypeCode() == SBML_ASSIGNMENT_RULE);
  pARule = dynamic_cast<const AssignmentRule*>(pRule);
  CPPUNIT_ASSERT(pARule != NULL);
//.........这里部分代码省略.........
开发者ID:ShuoLearner，项目名称:COPASI，代码行数:101，代码来源:test000054.cpp


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