CTrajectoryMethodDsaLsodar Member List

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

__SIZE enum value	CDataObject
add(CDataObject *pObject, const bool &adopt=true)	CDataContainer	virtual
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)	CDataContainer	protected
addObjectReference(const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)	CDataContainer	protected
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)	CCopasiParameterGroup	inline
addParameter(CCopasiParameter *pParameter)	CCopasiParameterGroup
addReference(const CDataContainer *pReference)	CDataObject
addVectorReference(const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)	CDataContainer	protected
ALL enum value	CLsodaMethod	protected
allocateValidValues(const Type &type, void *&pValidValues)	CCopasiParameter	static
allocateValue(const Type &type, void *&pValue)	CCopasiParameter	static
appendDeletedDependentData(CUndoData &undoData) const	CDataContainer	virtual
applyData(const CData &data, CUndoData::CChangeSet &changes)	CCopasiParameterGroup	virtual
Array enum value	CDataObject
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)	CCopasiParameterGroup	inline
assignDefault(const void *pDefault)	CCopasiParameter	private
assignValidValues(const void *pValidValues)	CCopasiParameter	private
assignValue(const Type &type, void *&pValue, const void *pNewValue)	CCopasiParameter	static
assignValue(const void *pValue)	CCopasiParameter	private
beginIndex() const	CCopasiParameterGroup
beginName() const	CCopasiParameterGroup
calculatePropensities()	CTrajectoryMethodDsaLsodar
calculateTotalPropensity()	CTrajectoryMethodDsaLsodar
calculateValue() override	CDataObject	virtual
CCopasiMethod()	CCopasiMethod	private
CCopasiMethod(const CDataContainer *pParent, const CTaskEnum::Method &methodType, const CTaskEnum::Task &taskType)	CCopasiMethod	protected
CCopasiMethod(const CCopasiMethod &src)	CCopasiMethod	protected
CCopasiMethod(const CCopasiMethod &src, const CDataContainer *pParent)	CCopasiMethod
CCopasiParameter(const CCopasiParameter &src)	CCopasiParameter	protected
CCopasiParameter()	CCopasiParameter	private
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()	CCopasiParameterGroup	protected
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()	CDataContainer	private
CDataContainer(const CDataContainer &src)	CDataContainer	protected
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()	CDataObject	protected
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)	CDataObject	protected
CDataObject(const CDataObject &src, const CDataContainer *pParent=NULL)	CDataObject
cleanup()	CTrajectoryMethodDsaLsodar
clear()	CCopasiParameterGroup
clearCallBack()	CCopasiMethod	virtual
CLsodaMethod()	CLsodaMethod	private
CLsodaMethod(const CDataContainer *pParent, const CTaskEnum::Method &methodType=CTaskEnum::Method::deterministic, const CTaskEnum::Task &taskType=CTaskEnum::Task::timeCourse)	CLsodaMethod
CLsodaMethod(const CLsodaMethod &src, const CDataContainer *pParent)	CLsodaMethod
CObjectInterface()	CObjectInterface
CObjectInterface(const CObjectInterface &src)	CObjectInterface
const_name_iterator typedef	CCopasiParameterGroup
Container enum value	CDataObject
ContainerList typedef	CObjectInterface
createRootMask()	CLsodaMethod	private
createUndoData(CUndoData &undoData, const CUndoData::Type &type, const CData &oldData=CData(), const CCore::Framework &framework=CCore::Framework::ParticleNumbers) const	CCopasiParameterGroup	virtual
createValue()	CCopasiParameter	private
CTrajectoryMethod()	CTrajectoryMethod	private
CTrajectoryMethod(const CDataContainer *pParent, const CTaskEnum::Method &methodType, const CTaskEnum::Task &taskType=CTaskEnum::Task::timeCourse)	CTrajectoryMethod
CTrajectoryMethod(const CTrajectoryMethod &src, const CDataContainer *pParent)	CTrajectoryMethod
CTrajectoryMethodDsaLsodar()	CTrajectoryMethodDsaLsodar	private
CTrajectoryMethodDsaLsodar(const CDataContainer *pParent, const CTaskEnum::Method &methodType=CTaskEnum::Method::DsaLsodar, const CTaskEnum::Task &taskType=CTaskEnum::Task::timeCourse)	CTrajectoryMethodDsaLsodar
CTrajectoryMethodDsaLsodar(const CTrajectoryMethodDsaLsodar &src, const CDataContainer *pParent)	CTrajectoryMethodDsaLsodar
CUndoObjectInterface()	CUndoObjectInterface
CUndoObjectInterface(const CUndoObjectInterface &src)	CUndoObjectInterface
DataModel enum value	CDataObject
DataObject(const CObjectInterface *pInterface)	CObjectInterface	static
DataObjectSet typedef	CDataObject
deleteValidValues(const Type &type, void *&pValidValues)	CCopasiParameter	static
deleteValue(const Type &type, void *&pValue)	CCopasiParameter	static
destroyRootMask()	CLsodaMethod	protected
destruct() override	CDataObject	virtual
DISCRETE enum value	CLsodaMethod	protected
DisplayName enum value	CDataObject
doSingleStep(C_FLOAT64 currentTime, C_FLOAT64 endTime)	CTrajectoryMethodDsaLsodar	virtual
elements typedef	CCopasiParameterGroup
elevateChildren()	CTrajectoryMethodDsaLsodar	virtual
EmptyList	CDataContainer	static
endIndex() const	CCopasiParameterGroup
endName() const	CCopasiParameterGroup
eRootMasking enum name	CLsodaMethod	protected
eUserInterfaceFlag enum name	CCopasiParameter
evalF(const C_FLOAT64 *t, const C_FLOAT64 *y, C_FLOAT64 *ydot)	CTrajectoryMethodDsaLsodar	virtual
EvalF(const C_INT *n, const C_FLOAT64 *t, const C_FLOAT64 *y, C_FLOAT64 *ydot)	CLsodaMethod	static
EvalJ(const C_INT *n, const C_FLOAT64 *t, const C_FLOAT64 *y, const C_INT *ml, const C_INT *mu, C_FLOAT64 *pd, const C_INT *nRowPD)	CLsodaMethod	static
evalJ(const C_FLOAT64 *t, const C_FLOAT64 *y, const C_INT *ml, const C_INT *mu, C_FLOAT64 *pd, const C_INT *nRowPD)	CLsodaMethod	virtual
evalR(const C_FLOAT64 *t, const C_FLOAT64 *y, const C_INT *nr, C_FLOAT64 *r)	CTrajectoryMethodDsaLsodar	virtual
EvalR(const C_INT *n, const C_FLOAT64 *t, const C_FLOAT64 *y, const C_INT *nr, C_FLOAT64 *r)	CLsodaMethod	static
FAILURE enum value	CTrajectoryMethod
fireReaction(const size_t &index)	CTrajectoryMethodDsaLsodar
Flag enum name	CDataObject
fromData(const CData &data, CUndoObjectInterface *pParent)	CCopasiParameter	static
generateUuid()	CUndoObjectInterface
getCallBack() const	CCopasiMethod
getChildObjectUnits(const CDataObject *pObject) const	CDataContainer	virtual
getCN() const override	CCopasiParameter	virtual
getDataObject() const override	CDataObject	virtual
getDefault() const	CCopasiParameter	inline
getDescendants(CDataObject::DataObjectSet &descendants, const bool &recursive=false) const	CDataContainer
getElementTemplates()	CCopasiParameterGroup
getElementTemplates() const	CCopasiParameterGroup
getGroup(const std::string &name)	CCopasiParameterGroup
getGroup(const std::string &name) const	CCopasiParameterGroup
getGroup(const size_t &index)	CCopasiParameterGroup
getGroup(const size_t &index) const	CCopasiParameterGroup
getIndex(const CDataObject *pObject) const	CCopasiParameterGroup	virtual
getIndex(const std::string &name) const	CCopasiParameterGroup
getKey(const std::string &name) const	CCopasiParameterGroup
getKey(const size_t &index) const	CCopasiParameterGroup
CCopasiParameter::getKey() const override	CCopasiParameter	virtual
getMathContainer() const	CCopasiMethod
getName(const size_t &index) const	CCopasiParameterGroup	virtual
getObject(const CCommonName &cn) const	CCopasiParameterGroup	virtual
getObjectAncestor(const std::string &type) const	CDataObject
getObjectDataModel() const	CDataObject
getObjectDisplayName() const override	CCopasiParameter	virtual
getObjectFromCN(const CCommonName &cn) const	CDataObject
GetObjectFromCN(const ContainerList &listOfContainer, const CCommonName &objName)	CObjectInterface	static
getObjectName() const	CDataObject
getObjectParent() const	CDataObject
getObjects() const	CDataContainer	virtual
getObjects()	CDataContainer	virtual
getObjectType() const	CDataObject
getParameter(std::string name)	CCopasiParameterGroup
getParameter(std::string name) const	CCopasiParameterGroup
getParameter(const size_t &index)	CCopasiParameterGroup
getParameter(const size_t &index) const	CCopasiParameterGroup
getPrerequisites() const override	CDataObject	virtual
getRoots() const	CTrajectoryMethod
getSubType() const	CCopasiMethod
getType() const	CCopasiMethod
CCopasiParameterGroup::getType(const std::string &name) const	CCopasiParameterGroup
CCopasiParameterGroup::getType(const size_t &index) const	CCopasiParameterGroup
getUniqueParameterName(const CCopasiParameter *pParameter) const	CCopasiParameterGroup
getUnits() const override	CDataContainer	virtual
getUserInterfaceFlag() const	CCopasiParameter
getUuid() const	CUndoObjectInterface
getValidity() const override	CDataObject	virtual
getValidValues() const	CCopasiParameter	inline
getValidValues()	CCopasiParameter	inline
getValidValuesPointer() const	CCopasiParameter
getValue(const std::string &name) const	CCopasiParameterGroup	inline
getValue(const std::string &name)	CCopasiParameterGroup	inline
getValue(const size_t &index) const	CCopasiParameterGroup	inline
getValue(const size_t &index)	CCopasiParameterGroup	inline
CCopasiParameter::getValue() const	CCopasiParameter	inline
CCopasiParameter::getValue()	CCopasiParameter	inline
getValueObject() const override	CDataContainer	virtual
getValuePointer() const override	CCopasiParameter	virtual
getValueReference() const	CCopasiParameter
Gui enum value	CDataObject
hasFlag(const Flag &flag) const	CDataObject
hasStateChanged(const CVectorCore< C_FLOAT64 > &startState) const	CLsodaMethod	private
hasValidValues() const	CCopasiParameter
haveTemplate() const	CCopasiParameterGroup
index_iterator typedef	CCopasiParameterGroup
initializeParameter()	CTrajectoryMethodDsaLsodar	private
initObjects()	CDataContainer	protected
insert(const CData &data)	CCopasiParameterGroup	virtual
integrateDeterministicPart(const C_FLOAT64 &deltaT)	CTrajectoryMethodDsaLsodar
integrateReducedModel() const	CTrajectoryMethod
inValidValues(const CType &value) const	CCopasiParameter	inlineprivate
isBasic() const	CCopasiParameter
isDefault() const	CCopasiParameter
isEditable() const	CCopasiParameter
isPrerequisiteForContext(const CObjectInterface *pObject, const CCore::SimulationContextFlag &context, const CObjectInterface::ObjectSet &changedObjects) const override	CDataObject	virtual
isUnsupported() const	CCopasiParameter
isValidProblem(const CCopasiProblem *pProblem)	CTrajectoryMethodDsaLsodar	virtual
isValidValue(const C_FLOAT64 &value) const	CCopasiParameter
isValidValue(const C_INT32 &value) const	CCopasiParameter
isValidValue(const unsigned C_INT32 &value) const	CCopasiParameter
isValidValue(const bool &value) const	CCopasiParameter
isValidValue(const std::string &value) const	CCopasiParameter
isValidValue(const CCommonName &value) const	CCopasiParameter
isValidValue(const std::vector< CCopasiParameter * > &value) const	CCopasiParameter
isValidValue(const CType &) const	CCopasiParameter	inline
load(CReadConfig &configBuffer, CReadConfig::Mode mode=CReadConfig::SEARCH)	CCopasiMethod	virtual
mA0	CTrajectoryMethodDsaLsodar	protected
mAggregateValidity	CDataObject	private
mAmu	CTrajectoryMethodDsaLsodar	protected
maskRoots(CVectorCore< C_FLOAT64 > &rootValues)	CLsodaMethod	private
mAtol	CLsodaMethod	private
Matrix enum value	CDataObject
mContainerState	CTrajectoryMethod	protected
mData	CLsodaMethod	protected
mDiscreteRoots	CLsodaMethod	private
mDWork	CLsodaMethod	private
mErrorMsg	CLsodaMethod	private
mFirstReactionSpeciesIndex	CTrajectoryMethodDsaLsodar	protected
mIWork	CLsodaMethod	private
mJType	CLsodaMethod	private
mKey	CCopasiParameter	protected
mLastRootState	CLsodaMethod	protected
mLastSuccessState	CLsodaMethod	protected
mLSODA	CLsodaMethod	private
mLSODAR	CLsodaMethod	private
mLsodaStatus	CLsodaMethod	protected
mMaxStepsReached	CTrajectoryMethodDsaLsodar	protected
mNextReactionIndex	CTrajectoryMethodDsaLsodar	protected
mNextReactionTime	CTrajectoryMethodDsaLsodar	protected
mNumReactions	CTrajectoryMethodDsaLsodar	protected
mNumRoots	CLsodaMethod	private
mObjectDisplayName	CDataObject	mutableprivate
mObjectFlag	CDataObject	private
mObjectName	CDataObject	private
mObjects	CDataContainer	protected
mObjectType	CDataObject	private
ModelEntity enum value	CDataObject
mpAbsoluteTolerance	CLsodaMethod	private
mPartition	CTrajectoryMethodDsaLsodar	protected
mpAtol	CLsodaMethod	private
mpContainer	CCopasiMethod	protected
mpContainerStateTime	CTrajectoryMethod	protected
mpDefault	CCopasiParameter	protected
mPeekAheadMode	CLsodaMethod	private
mpElementTemplates	CCopasiParameterGroup	private
mpLowerLimit	CTrajectoryMethodDsaLsodar	protected
mpMaxInternalSteps	CLsodaMethod	private
mpMaxInternalStepSize	CLsodaMethod	private
mpMaxSteps	CTrajectoryMethodDsaLsodar	protected
mpObjectDisplayName	CDataObject	mutableprivate
mpObjectName	CDataObject	mutableprivate
mpObjectParent	CDataObject	private
mpPartitioningInterval	CTrajectoryMethodDsaLsodar	protected
mpPartitioningSteps	CTrajectoryMethodDsaLsodar	protected
mpProblem	CTrajectoryMethod	protected
mpRandomGenerator	CTrajectoryMethodDsaLsodar	protected
mpReducedModel	CTrajectoryMethod	protected
mpRelativeTolerance	CLsodaMethod	private
mPrerequisits	CDataObject	protected
mProcessReport	CCopasiMethod	protected
mPropensityObjects	CTrajectoryMethodDsaLsodar	protected
mpTask	CTrajectoryMethod	protected
mpUpperLimit	CTrajectoryMethodDsaLsodar	protected
mpUuid	CUndoObjectInterface	private
mpValidValues	CCopasiParameter	protected
mpValue	CCopasiParameter	protected
mpValueReference	CCopasiParameter	mutableprotected
mpY	CLsodaMethod	private
mpYdot	CLsodaMethod	private
mReactions	CTrajectoryMethodDsaLsodar	protected
mReferencedValidities	CDataObject	private
mReferences	CDataObject	protected
mRootCounter	CLsodaMethod	private
mRootMask	CLsodaMethod	private
mRootMasking	CLsodaMethod	protected
mRootsFound	CTrajectoryMethod	protected
mSavedState	CLsodaMethod	private
mStatus	CTrajectoryMethodDsaLsodar	protected
mStepsAfterPartitionSystem	CTrajectoryMethodDsaLsodar	protected
mSubType	CCopasiMethod	private
mTargetTime	CLsodaMethod	private
mTask	CLsodaMethod	private
mTaskType	CCopasiMethod	private
mTime	CLsodaMethod	protected
mType	CCopasiParameter	private
mUpdateSequences	CTrajectoryMethodDsaLsodar	protected
mUserInterfaceFlag	CCopasiParameter	protected
mUuidLocked	CUndoObjectInterface	private
mValidity	CObjectInterface	mutableprotected
name_iterator typedef	CCopasiParameterGroup
NameVector enum value	CDataObject
NONE enum value	CLsodaMethod	protected
NonUniqueName enum value	CDataObject
NORMAL enum value	CTrajectoryMethod
objectMap typedef	CDataContainer
objectRenamed(CDataObject *pObject, const std::string &oldName)	CDataContainer
ObjectSet typedef	CObjectInterface
operator=(const CCopasiMethod &rhs)	CCopasiMethod
CCopasiParameterGroup::operator=(const CCopasiParameterGroup &rhs)	CCopasiParameterGroup
CCopasiParameter::operator=(const CCopasiParameter &rhs)	CCopasiParameter
output(const bool &useMoieties)	CTrajectoryMethod	protected
peekAhead()	CLsodaMethod	private
prerequisitsContains(const DataObjectSet &objects) const	CDataObject
print(std::ostream *ostream) const	CCopasiMethod	virtual
printResult(std::ostream *ostream) const	CCopasiMethod	virtual
ReducedModel	CTrajectoryMethod	protectedstatic
Reference enum value	CDataObject
refreshAggregateValidity()	CDataObject	private
remove(CDataObject *pObject)	CCopasiParameterGroup	virtual
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
resetState(State &state)	CLsodaMethod	private
ROOT enum value	CTrajectoryMethod
Root enum value	CDataObject
sanitizeObjectName(std::string &name)	CDataObject	static
saveState(State &state, const CTrajectoryMethod::Status &status) const	CLsodaMethod	private
Separator enum value	CDataObject
setCallBack(CProcessReportLevel callBack)	CCopasiMethod	virtual
setDefault(const CType &defaultValue)	CCopasiParameter	inline
setDefault(const std::vector< CCopasiParameter * > &defaultValue)	CCopasiParameter
setMathContainer(CMathContainer *pContainer)	CCopasiMethod
setObjectName(const std::string &name)	CDataObject
setObjectParent(const CDataContainer *pParent) override	CCopasiParameter	virtual
setProblem(CTrajectoryProblem *problem)	CTrajectoryMethod
setRootMaskType(const eRootMasking &maskType)	CLsodaMethod	private
setUserInterfaceFlag(const UserInterfaceFlag &flag)	CCopasiParameterGroup	virtual
setUuid(const xg::Guid &uuid)	CUndoObjectInterface
setUuid(const std::string &uuid)	CUndoObjectInterface
setValidValues(const std::vector< std::pair< CType, CType > > &validValues)	CCopasiParameter	inline
setValidValues(const CEnumAnnotation< CType, Enum > &validValues)	CCopasiParameter	inline
setValue(const std::string &name, const CType &value)	CCopasiParameterGroup	inline
setValue(const size_t &index, const CType &value)	CCopasiParameterGroup	inline
CCopasiParameter::setValue(const CType &value)	CCopasiParameter	inline
CCopasiParameter::setValue(const std::vector< CCopasiParameter * > &value)	CCopasiParameter
signalMathContainerChanged()	CTrajectoryMethod	protectedvirtual
size(const UserInterfaceFlag &require=UserInterfaceFlag::None, const UserInterfaceFlag &exclude=UserInterfaceFlag::None) const	CCopasiParameterGroup
start()	CTrajectoryMethodDsaLsodar	virtual
stateChange(const CMath::StateChange &change)	CTrajectoryMethodDsaLsodar	virtual
StaticString enum value	CDataObject
Status enum name	CTrajectoryMethod
step(const double &deltaT, const bool &final=false)	CTrajectoryMethodDsaLsodar	virtual
swap(const size_t &iFrom, const size_t &iTo)	CCopasiParameterGroup
swap(index_iterator &from, index_iterator &to)	CCopasiParameterGroup
toData() const	CCopasiParameterGroup	virtual
Type enum name	CCopasiParameter
TypeName	CCopasiParameter	static
updateIndex(const size_t &index, const CUndoObjectInterface *pUndoObject)	CCopasiParameterGroup	virtual
UserInterfaceFlag typedef	CCopasiParameter
validityChanged(const CValidity &changedValidity) override	CDataObject	virtual
validityRemoved(const CValidity &changedValidity)	CDataObject
ValueBool enum value	CDataObject
ValueDbl enum value	CDataObject
ValueInt enum value	CDataObject
ValueInt64 enum value	CDataObject
ValueString enum value	CDataObject
Vector enum value	CDataObject
XMLType	CCopasiParameter	static
~CCopasiMethod()	CCopasiMethod	virtual
~CCopasiParameter()	CCopasiParameter	virtual
~CCopasiParameterGroup()	CCopasiParameterGroup	virtual
~CDataContainer()	CDataContainer	virtual
~CDataObject()	CDataObject	virtual
~CLsodaMethod()	CLsodaMethod
~CObjectInterface()	CObjectInterface	virtual
~CTrajectoryMethod()	CTrajectoryMethod
~CTrajectoryMethodDsaLsodar()	CTrajectoryMethodDsaLsodar
~CUndoObjectInterface()	CUndoObjectInterface	virtual