COPASI API  4.40.278
CHybridMethodODE45 Member List

This is the complete list of members for CHybridMethodODE45, including all inherited members.

__SIZE enum valueCDataObject
add(CDataObject *pObject, const bool &adopt=true)CDataContainervirtual
addGroup(const std::string &name)CCopasiParameterGroup
addIssue(const CIssue &issue)CDataObject
addMatrixReference(const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)CDataContainerprotected
addObjectReference(const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)CDataContainerprotected
addParameter(const CCopasiParameter &parameter)CCopasiParameterGroup
addParameter(const std::string &name, const CCopasiParameter::Type type, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)CCopasiParameterGroup
addParameter(const std::string &name, const CCopasiParameter::Type type, const CType &value, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)CCopasiParameterGroupinline
addParameter(CCopasiParameter *pParameter)CCopasiParameterGroup
addReference(const CDataContainer *pReference)CDataObject
addVectorReference(const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)CDataContainerprotected
ALL enum valueCHybridMethodODE45protected
AllDeterministic enum valueCHybridMethodODE45protected
allocateValidValues(const Type &type, void *&pValidValues)CCopasiParameterstatic
allocateValue(const Type &type, void *&pValue)CCopasiParameterstatic
AllStochastic enum valueCHybridMethodODE45protected
appendDeletedDependentData(CUndoData &undoData) constCDataContainervirtual
applyData(const CData &data, CUndoData::CChangeSet &changes)CCopasiParameterGroupvirtual
Array enum valueCDataObject
assertGroup(const std::string &name, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)CCopasiParameterGroup
assertParameter(const std::string &name, const CCopasiParameter::Type type, const CType &defaultValue, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)CCopasiParameterGroupinline
assignDefault(const void *pDefault)CCopasiParameterprivate
assignValidValues(const void *pValidValues)CCopasiParameterprivate
assignValue(const Type &type, void *&pValue, const void *pNewValue)CCopasiParameterstatic
assignValue(const void *pValue)CCopasiParameterprivate
beginIndex() constCCopasiParameterGroup
beginName() constCCopasiParameterGroup
calculateValue() overrideCDataObjectvirtual
CCopasiMethod()CCopasiMethodprivate
CCopasiMethod(const CDataContainer *pParent, const CTaskEnum::Method &methodType, const CTaskEnum::Task &taskType)CCopasiMethodprotected
CCopasiMethod(const CCopasiMethod &src)CCopasiMethodprotected
CCopasiMethod(const CCopasiMethod &src, const CDataContainer *pParent)CCopasiMethod
CCopasiParameter(const CCopasiParameter &src)CCopasiParameterprotected
CCopasiParameter()CCopasiParameterprivate
CCopasiParameter(const CCopasiParameter &src, const CDataContainer *pParent)CCopasiParameter
CCopasiParameter(const std::string &name, const Type &type, const void *pValue=NULL, const CDataContainer *pParent=NO_PARENT, const std::string &objectType="Parameter")CCopasiParameter
CCopasiParameterGroup()CCopasiParameterGroupprotected
CCopasiParameterGroup(const CCopasiParameterGroup &src, const CDataContainer *pParent=NULL)CCopasiParameterGroup
CCopasiParameterGroup(const std::string &name, const CDataContainer *pParent=NO_PARENT, const std::string &objectType="ParameterGroup")CCopasiParameterGroup
CDataContainer()CDataContainerprivate
CDataContainer(const CDataContainer &src)CDataContainerprotected
CDataContainer(const std::string &name, const CDataContainer *pParent=NO_PARENT, const std::string &type="CN", const CFlags< Flag > &flag=CFlags< Flag >::None)CDataContainer
CDataContainer(const CDataContainer &src, const CDataContainer *pParent)CDataContainer
CDataObject()CDataObjectprotected
CDataObject(const std::string &name, const CDataContainer *pParent=static_cast< CDataContainer * >((void *) 0), const std::string &type="CN", const CFlags< Flag > &flag=CFlags< Flag >::None)CDataObjectprotected
CDataObject(const CDataObject &src, const CDataContainer *pParent=NULL)CDataObject
checkModel(CModel *model)CHybridMethodODE45protected
checkRoots()CHybridMethodODE45protected
CHybridMethodODE45()CHybridMethodODE45protected
CHybridMethodODE45(const CDataContainer *pParent, const CTaskEnum::Method &methodType=CTaskEnum::Method::hybridODE45, const CTaskEnum::Task &taskType=CTaskEnum::Task::timeCourse)CHybridMethodODE45
CHybridMethodODE45(const CHybridMethodODE45 &src, const CDataContainer *pParent)CHybridMethodODE45
clear()CCopasiParameterGroup
clearCallBack()CCopasiMethodvirtual
CObjectInterface()CObjectInterface
CObjectInterface(const CObjectInterface &src)CObjectInterface
const_name_iterator typedefCCopasiParameterGroup
Container enum valueCDataObject
ContainerList typedefCObjectInterface
createRootMask()CHybridMethodODE45private
createUndoData(CUndoData &undoData, const CUndoData::Type &type, const CData &oldData=CData(), const CCore::Framework &framework=CCore::Framework::ParticleNumbers) constCCopasiParameterGroupvirtual
createValue()CCopasiParameterprivate
CTrajectoryMethod()CTrajectoryMethodprivate
CTrajectoryMethod(const CDataContainer *pParent, const CTaskEnum::Method &methodType, const CTaskEnum::Task &taskType=CTaskEnum::Task::timeCourse)CTrajectoryMethod
CTrajectoryMethod(const CTrajectoryMethod &src, const CDataContainer *pParent)CTrajectoryMethod
CUndoObjectInterface()CUndoObjectInterface
CUndoObjectInterface(const CUndoObjectInterface &src)CUndoObjectInterface
DataModel enum valueCDataObject
DataObject(const CObjectInterface *pInterface)CObjectInterfacestatic
DataObjectSet typedefCDataObject
deleteValidValues(const Type &type, void *&pValidValues)CCopasiParameterstatic
deleteValue(const Type &type, void *&pValue)CCopasiParameterstatic
destroyRootMask()CHybridMethodODE45private
destruct() overrideCDataObjectvirtual
determineIntegrationType()CHybridMethodODE45protected
DETERMINISTIC enum valueCHybridMethodODE45protected
DISCRETE enum valueCHybridMethodODE45protected
DisplayName enum valueCDataObject
doSingleStep(C_FLOAT64 endTime)CHybridMethodODE45protected
elements typedefCCopasiParameterGroup
elevateChildren()CHybridMethodODE45virtual
EmptyListCDataContainerstatic
endIndex() constCCopasiParameterGroup
endName() constCCopasiParameterGroup
eUserInterfaceFlag enum nameCCopasiParameter
evalF(const C_FLOAT64 *t, const C_FLOAT64 *y, C_FLOAT64 *ydot)CHybridMethodODE45protected
EvalF(const size_t *n, const C_FLOAT64 *t, const C_FLOAT64 *y, C_FLOAT64 *ydot)CHybridMethodODE45protectedstatic
evalR(const C_FLOAT64 *t, const C_FLOAT64 *y, const size_t *nr, C_FLOAT64 *r)CHybridMethodODE45protected
EvalR(const size_t *n, const C_FLOAT64 *t, const C_FLOAT64 *y, const size_t *nr, C_FLOAT64 *r)CHybridMethodODE45protectedstatic
FAILURE enum valueCTrajectoryMethod
fireReaction()CHybridMethodODE45protected
Flag enum nameCDataObject
fromData(const CData &data, CUndoObjectInterface *pParent)CCopasiParameterstatic
generateUuid()CUndoObjectInterface
getCallBack() constCCopasiMethod
getChildObjectUnits(const CDataObject *pObject) constCDataContainervirtual
getCN() const overrideCCopasiParametervirtual
getDataObject() const overrideCDataObjectvirtual
getDefault() constCCopasiParameterinline
getDescendants(CDataObject::DataObjectSet &descendants, const bool &recursive=false) constCDataContainer
getElementTemplates()CCopasiParameterGroup
getElementTemplates() constCCopasiParameterGroup
getGroup(const std::string &name)CCopasiParameterGroup
getGroup(const std::string &name) constCCopasiParameterGroup
getGroup(const size_t &index)CCopasiParameterGroup
getGroup(const size_t &index) constCCopasiParameterGroup
getIndex(const CDataObject *pObject) constCCopasiParameterGroupvirtual
getIndex(const std::string &name) constCCopasiParameterGroup
getKey(const std::string &name) constCCopasiParameterGroup
getKey(const size_t &index) constCCopasiParameterGroup
CCopasiParameter::getKey() const overrideCCopasiParametervirtual
getMathContainer() constCCopasiMethod
getName(const size_t &index) constCCopasiParameterGroupvirtual
getObject(const CCommonName &cn) constCCopasiParameterGroupvirtual
getObjectAncestor(const std::string &type) constCDataObject
getObjectDataModel() constCDataObject
getObjectDisplayName() const overrideCCopasiParametervirtual
GetObjectFromCN(const ContainerList &listOfContainer, const CCommonName &objName)CObjectInterfacestatic
getObjectFromCN(const CCommonName &cn) constCDataObject
getObjectName() constCDataObject
getObjectParent() constCDataObject
getObjects() constCDataContainervirtual
getObjects()CDataContainervirtual
getObjectType() constCDataObject
getParameter(std::string name)CCopasiParameterGroup
getParameter(std::string name) constCCopasiParameterGroup
getParameter(const size_t &index)CCopasiParameterGroup
getParameter(const size_t &index) constCCopasiParameterGroup
getPrerequisites() const overrideCDataObjectvirtual
getReactionToFire()CHybridMethodODE45protected
getRoots() constCTrajectoryMethod
getSubType() constCCopasiMethod
getType() constCCopasiMethod
CCopasiParameterGroup::getType(const std::string &name) constCCopasiParameterGroup
CCopasiParameterGroup::getType(const size_t &index) constCCopasiParameterGroup
getUniqueParameterName(const CCopasiParameter *pParameter) constCCopasiParameterGroup
getUnits() const overrideCDataContainervirtual
getUserInterfaceFlag() constCCopasiParameter
getUuid() constCUndoObjectInterface
getValidity() const overrideCDataObjectvirtual
getValidValues() constCCopasiParameterinline
getValidValues()CCopasiParameterinline
getValidValuesPointer() constCCopasiParameter
getValue(const std::string &name) constCCopasiParameterGroupinline
getValue(const std::string &name)CCopasiParameterGroupinline
getValue(const size_t &index) constCCopasiParameterGroupinline
getValue(const size_t &index)CCopasiParameterGroupinline
CCopasiParameter::getValue() constCCopasiParameterinline
CCopasiParameter::getValue()CCopasiParameterinline
getValueObject() const overrideCDataContainervirtual
getValuePointer() const overrideCCopasiParametervirtual
getValueReference() constCCopasiParameter
Gui enum valueCDataObject
hasFlag(const Flag &flag) constCDataObject
hasValidValues() constCCopasiParameter
haveTemplate() constCCopasiParameterGroup
HYBRID enum valueCHybridMethodODE45protected
index_iterator typedefCCopasiParameterGroup
initializeParameter()CHybridMethodODE45private
initObjects()CDataContainerprotected
insert(const CData &data)CCopasiParameterGroupvirtual
integrateDeterministicPart(C_FLOAT64 ds)CHybridMethodODE45protected
integrateReducedModel() constCTrajectoryMethod
IntergrationType enum nameCHybridMethodODE45protected
inValidValues(const CType &value) constCCopasiParameterinlineprivate
isBasic() constCCopasiParameter
isDefault() constCCopasiParameter
isEditable() constCCopasiParameter
isPrerequisiteForContext(const CObjectInterface *pObject, const CCore::SimulationContextFlag &context, const CObjectInterface::ObjectSet &changedObjects) const overrideCDataObjectvirtual
isUnsupported() constCCopasiParameter
isValidProblem(const CCopasiProblem *pProblem)CHybridMethodODE45virtual
isValidValue(const C_FLOAT64 &value) constCCopasiParameter
isValidValue(const C_INT32 &value) constCCopasiParameter
isValidValue(const unsigned C_INT32 &value) constCCopasiParameter
isValidValue(const bool &value) constCCopasiParameter
isValidValue(const std::string &value) constCCopasiParameter
isValidValue(const CCommonName &value) constCCopasiParameter
isValidValue(const std::vector< CCopasiParameter * > &value) constCCopasiParameter
isValidValue(const CType &) constCCopasiParameterinline
load(CReadConfig &configBuffer, CReadConfig::Mode mode=CReadConfig::SEARCH)CCopasiMethodvirtual
mA0CHybridMethodODE45private
mAggregateValidityCDataObjectprivate
mAmuPointersCHybridMethodODE45private
mAmuVariablesCHybridMethodODE45private
maskRoots(CVectorCore< C_FLOAT64 > &rootValues)CHybridMethodODE45private
Matrix enum valueCDataObject
mContainerFluxesCHybridMethodODE45private
mContainerStateCTrajectoryMethodprotected
mCountContainerVariablesCHybridMethodODE45private
mCountReactionSpeciesCHybridMethodODE45private
mDataCHybridMethodODE45private
mDiscreteRootsCHybridMethodODE45private
mEventProcessingCHybridMethodODE45private
mFireReactionCHybridMethodODE45private
mFirstReactionSpeciesIndexCHybridMethodODE45private
mFluxPointersCHybridMethodODE45private
mHasDetermReactionCHybridMethodODE45private
mHasStoiReactionCHybridMethodODE45private
mIntegrationTypeCHybridMethodODE45private
mKeyCCopasiParameterprotected
mLastSuccessStateCHybridMethodODE45private
mMaxBalanceCHybridMethodODE45private
mMaxStepsReachedCHybridMethodODE45private
mMethodRootsFoundCHybridMethodODE45private
mObjectDisplayNameCDataObjectmutableprivate
mObjectFlagCDataObjectprivate
mObjectNameCDataObjectprivate
mObjectsCDataContainerprotected
mObjectTypeCDataObjectprivate
mODE45CHybridMethodODE45private
mODEInitalizedCHybridMethodODE45private
ModelEntity enum valueCDataObject
mOutputCounterCHybridMethodODE45private
mOutputFileCHybridMethodODE45private
mOutputFileNameCHybridMethodODE45private
mpAbsoluteToleranceCHybridMethodODE45private
mpContainerCCopasiMethodprotected
mpContainerStateTimeCTrajectoryMethodprotected
mpDefaultCCopasiParameterprotected
mpElementTemplatesCCopasiParameterGroupprivate
mpFastReactionsCHybridMethodODE45private
mpHybridRootCHybridMethodODE45private
mpMaxInternalStepsCHybridMethodODE45private
mpObjectDisplayNameCDataObjectmutableprivate
mpObjectNameCDataObjectmutableprivate
mpObjectParentCDataObjectprivate
mpPartitioningStrategyCHybridMethodODE45private
mpProblemCTrajectoryMethodprotected
mpRandomGeneratorCHybridMethodODE45private
mpRandomSeedCHybridMethodODE45private
mpReducedModelCTrajectoryMethodprotected
mpRelativeToleranceCHybridMethodODE45private
mPrerequisitsCDataObjectprotected
mProcessReportCCopasiMethodprotected
mPropensitiesUpdateSequenceCHybridMethodODE45private
mpTaskCTrajectoryMethodprotected
mpUseRandomSeedCHybridMethodODE45private
mpUuidCUndoObjectInterfaceprivate
mpValidValuesCCopasiParameterprotected
mpValueCCopasiParameterprotected
mpValueReferenceCCopasiParametermutableprotected
mpYdotCHybridMethodODE45private
mReferencedValiditiesCDataObjectprivate
mReferencesCDataObjectprotected
mRKMethodStatusCHybridMethodODE45private
mRootCounterCHybridMethodODE45private
mRootMaskCHybridMethodODE45private
mRootMaskingCHybridMethodODE45protected
mRootsFoundCTrajectoryMethodprotected
mRootsNonZeroCHybridMethodODE45private
mRootValuesLeftCHybridMethodODE45private
mRootValuesRightCHybridMethodODE45private
mSavedFluxesCHybridMethodODE45private
mSlowReactionsCHybridMethodODE45private
mSpeciesRateUpdateSequenceCHybridMethodODE45private
mSubTypeCCopasiMethodprivate
mTargetTimeCHybridMethodODE45private
mTaskTypeCCopasiMethodprivate
mTypeCCopasiParameterprivate
mUserInterfaceFlagCCopasiParameterprotected
mUuidLockedCUndoObjectInterfaceprivate
mValidityCObjectInterfacemutableprotected
mYCHybridMethodODE45private
name_iterator typedefCCopasiParameterGroup
NameVector enum valueCDataObject
NONE enum valueCHybridMethodODE45protected
NonUniqueName enum valueCDataObject
NORMAL enum valueCTrajectoryMethod
objectMap typedefCDataContainer
objectRenamed(CDataObject *pObject, const std::string &oldName)CDataContainer
ObjectSet typedefCObjectInterface
operator=(const CCopasiMethod &rhs)CCopasiMethod
CCopasiParameterGroup::operator=(const CCopasiParameterGroup &rhs)CCopasiParameterGroup
CCopasiParameter::operator=(const CCopasiParameter &rhs)CCopasiParameter
output(const bool &useMoieties)CTrajectoryMethodprotected
PartitioningStrategyCHybridMethodODE45protectedstatic
PartitioningStrategyType enum nameCHybridMethodODE45protected
partitionSystem()CHybridMethodODE45protected
prerequisitsContains(const DataObjectSet &objects) constCDataObject
print(std::ostream *ostream) constCCopasiMethodvirtual
printResult(std::ostream *ostream) constCCopasiMethodvirtual
ReducedModelCTrajectoryMethodprotectedstatic
Reference enum valueCDataObject
refreshAggregateValidity()CDataObjectprivate
remove(CDataObject *pObject)CCopasiParameterGroupvirtual
removeIssue(const CIssue &issue)CDataObject
removeParameter(const std::string &name)CCopasiParameterGroup
removeParameter(const size_t &index)CCopasiParameterGroup
removeParameter(CCopasiParameter *pParameter)CCopasiParameterGroup
removeReference(const CDataContainer *pReference)CDataObject
ROOT enum valueCTrajectoryMethod
Root enum valueCDataObject
RootMasking enum nameCHybridMethodODE45protected
sanitizeObjectName(std::string &name)CDataObjectstatic
Separator enum valueCDataObject
setCallBack(CProcessReportLevel callBack)CCopasiMethodvirtual
setDefault(const CType &defaultValue)CCopasiParameterinline
setDefault(const std::vector< CCopasiParameter * > &defaultValue)CCopasiParameter
setMathContainer(CMathContainer *pContainer)CCopasiMethod
setObjectName(const std::string &name)CDataObject
setObjectParent(const CDataContainer *pParent) overrideCCopasiParametervirtual
setProblem(CTrajectoryProblem *problem)CTrajectoryMethod
setUserInterfaceFlag(const UserInterfaceFlag &flag)CCopasiParameterGroupvirtual
setUuid(const xg::Guid &uuid)CUndoObjectInterface
setUuid(const std::string &uuid)CUndoObjectInterface
setValidValues(const std::vector< std::pair< CType, CType > > &validValues)CCopasiParameterinline
setValidValues(const CEnumAnnotation< CType, Enum > &validValues)CCopasiParameterinline
setValue(const std::string &name, const CType &value)CCopasiParameterGroupinline
setValue(const size_t &index, const CType &value)CCopasiParameterGroupinline
CCopasiParameter::setValue(const CType &value)CCopasiParameterinline
CCopasiParameter::setValue(const std::vector< CCopasiParameter * > &value)CCopasiParameter
signalMathContainerChanged()CTrajectoryMethodprotectedvirtual
size(const UserInterfaceFlag &require=UserInterfaceFlag::None, const UserInterfaceFlag &exclude=UserInterfaceFlag::None) constCCopasiParameterGroup
start()CHybridMethodODE45virtual
stateChange(const CMath::StateChange &change)CHybridMethodODE45virtual
StaticString enum valueCDataObject
Status enum nameCTrajectoryMethod
step(const double &deltaT, const bool &final=false)CHybridMethodODE45virtual
swap(const size_t &iFrom, const size_t &iTo)CCopasiParameterGroup
swap(index_iterator &from, index_iterator &to)CCopasiParameterGroup
toData() constCCopasiParameterGroupvirtual
Type enum nameCCopasiParameter
TypeNameCCopasiParameterstatic
updateIndex(const size_t &index, const CUndoObjectInterface *pUndoObject)CCopasiParameterGroupvirtual
UserInterfaceFlag typedefCCopasiParameter
UserSpecified enum valueCHybridMethodODE45protected
validityChanged(const CValidity &changedValidity) overrideCDataObjectvirtual
validityRemoved(const CValidity &changedValidity)CDataObject
ValueBool enum valueCDataObject
ValueDbl enum valueCDataObject
ValueInt enum valueCDataObject
ValueInt64 enum valueCDataObject
ValueString enum valueCDataObject
Vector enum valueCDataObject
XMLTypeCCopasiParameterstatic
~CCopasiMethod()CCopasiMethodvirtual
~CCopasiParameter()CCopasiParametervirtual
~CCopasiParameterGroup()CCopasiParameterGroupvirtual
~CDataContainer()CDataContainervirtual
~CDataObject()CDataObjectvirtual
~CHybridMethodODE45()CHybridMethodODE45
~CObjectInterface()CObjectInterfacevirtual
~CTrajectoryMethod()CTrajectoryMethod
~CUndoObjectInterface()CUndoObjectInterfacevirtual