COPASI API  4.40.278
COptMethodNL2SOL Class Reference

#include <COptMethodNL2SOL.h>

Inheritance diagram for COptMethodNL2SOL:
[legend]

Public Member Functions

 COptMethodNL2SOL (const CDataContainer *pParent, const CTaskEnum::Method &methodType=CTaskEnum::Method::NL2SOL, const CTaskEnum::Task &taskType=CTaskEnum::Task::optimization)
 
 COptMethodNL2SOL (const COptMethodNL2SOL &src, const CDataContainer *pParent)
 
virtual const CVector< C_FLOAT64 > * getBestParameters () const
 
virtual C_FLOAT64 getBestValue () const
 
virtual const CVector< C_FLOAT64 > * getCurrentParameters () const
 
virtual C_FLOAT64 getCurrentValue () const
 
virtual unsigned C_INT32 getMaxLogVerbosity () const
 
virtual bool optimise ()
 
virtual ~COptMethodNL2SOL ()
 
- Public Member Functions inherited from COptMethod
 COptMethod (const CDataContainer *pParent, const CTaskEnum::Method &methodType, const CTaskEnum::Task &taskType, const bool &parallel)
 
 COptMethod (const COptMethod &src, const CDataContainer *pParent)
 
const COptLog & getMethodLog () const
 
virtual bool isValidProblem (const CCopasiProblem *pProblem)
 
void setProblem (COptProblem *problem)
 
virtual ~COptMethod ()
 
- Public Member Functions inherited from CCopasiMethod
 CCopasiMethod (const CCopasiMethod &src, const CDataContainer *pParent)
 
virtual void clearCallBack ()
 
const CProcessReportLevel & getCallBack () const
 
CMathContainer * getMathContainer () const
 
const CTaskEnum::Method & getSubType () const
 
const CTaskEnum::Task & getType () const
 
virtual void load (CReadConfig &configBuffer, CReadConfig::Mode mode=CReadConfig::SEARCH)
 
CCopasiMethod & operator= (const CCopasiMethod &rhs)
 
virtual void print (std::ostream *ostream) const
 
virtual void printResult (std::ostream *ostream) const
 
virtual bool setCallBack (CProcessReportLevel callBack)
 
void setMathContainer (CMathContainer *pContainer)
 
virtual ~CCopasiMethod ()
 
- Public Member Functions inherited from CCopasiParameterGroup
bool addGroup (const std::string &name)
 
void addParameter (CCopasiParameter *pParameter)
 
bool addParameter (const CCopasiParameter &parameter)
 
bool addParameter (const std::string &name, const CCopasiParameter::Type type, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)
 
template<class CType >
bool addParameter (const std::string &name, const CCopasiParameter::Type type, const CType &value, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)
 
virtual bool applyData (const CData &data, CUndoData::CChangeSet &changes)
 
CCopasiParameterGroup * assertGroup (const std::string &name, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)
 
template<class CType >
CType * assertParameter (const std::string &name, const CCopasiParameter::Type type, const CType &defaultValue, const CCopasiParameter::UserInterfaceFlag &flag=CCopasiParameter::UserInterfaceFlag::All)
 
index_iterator beginIndex () const
 
const_name_iterator beginName () const
 
 CCopasiParameterGroup (const CCopasiParameterGroup &src, const CDataContainer *pParent=NULL)
 
 CCopasiParameterGroup (const std::string &name, const CDataContainer *pParent=NO_PARENT, const std::string &objectType="ParameterGroup")
 
void clear ()
 
virtual void createUndoData (CUndoData &undoData, const CUndoData::Type &type, const CData &oldData=CData(), const CCore::Framework &framework=CCore::Framework::ParticleNumbers) const
 
virtual bool elevateChildren ()
 
index_iterator endIndex () const
 
const_name_iterator endName () const
 
CCopasiParameterGroup & getElementTemplates ()
 
const CCopasiParameterGroup & getElementTemplates () const
 
CCopasiParameterGroup * getGroup (const size_t &index)
 
const CCopasiParameterGroup * getGroup (const size_t &index) const
 
CCopasiParameterGroup * getGroup (const std::string &name)
 
const CCopasiParameterGroup * getGroup (const std::string &name) const
 
virtual size_t getIndex (const CDataObject *pObject) const
 
size_t getIndex (const std::string &name) const
 
std::string getKey (const size_t &index) const
 
std::string getKey (const std::string &name) const
 
virtual const std::string & getName (const size_t &index) const
 
virtual const CObjectInterface * getObject (const CCommonName &cn) const
 
CCopasiParameter * getParameter (const size_t &index)
 
const CCopasiParameter * getParameter (const size_t &index) const
 
CCopasiParameter * getParameter (std::string name)
 
const CCopasiParameter * getParameter (std::string name) const
 
CCopasiParameter::Type getType (const size_t &index) const
 
CCopasiParameter::Type getType (const std::string &name) const
 
std::string getUniqueParameterName (const CCopasiParameter *pParameter) const
 
template<class CType >
CType & getValue (const size_t &index)
 
template<class CType >
const CType & getValue (const size_t &index) const
 
template<class CType >
CType & getValue (const std::string &name)
 
template<class CType >
const CType & getValue (const std::string &name) const
 
bool haveTemplate () const
 
virtual CUndoObjectInterface * insert (const CData &data)
 
CCopasiParameterGroup & operator= (const CCopasiParameterGroup &rhs)
 
virtual bool remove (CDataObject *pObject)
 
bool removeParameter (CCopasiParameter *pParameter)
 
bool removeParameter (const size_t &index)
 
bool removeParameter (const std::string &name)
 
virtual void setUserInterfaceFlag (const UserInterfaceFlag &flag)
 
template<class CType >
bool setValue (const size_t &index, const CType &value)
 
template<class CType >
bool setValue (const std::string &name, const CType &value)
 
size_t size (const UserInterfaceFlag &require=UserInterfaceFlag::None, const UserInterfaceFlag &exclude=UserInterfaceFlag::None) const
 
bool swap (const size_t &iFrom, const size_t &iTo)
 
bool swap (index_iterator &from, index_iterator &to)
 
virtual CData toData () const
 
virtual void updateIndex (const size_t &index, const CUndoObjectInterface *pUndoObject)
 
virtual ~CCopasiParameterGroup ()
 
- Public Member Functions inherited from CCopasiParameter
 CCopasiParameter (const CCopasiParameter &src, const CDataContainer *pParent)
 
 CCopasiParameter (const std::string &name, const Type &type, const void *pValue=NULL, const CDataContainer *pParent=NO_PARENT, const std::string &objectType="Parameter")
 
virtual CCommonName getCN () const override
 
template<class CType >
const CType & getDefault () const
 
virtual const std::string & getKey () const override
 
virtual std::string getObjectDisplayName () const override
 
const CCopasiParameter::Type & getType () const
 
const UserInterfaceFlag & getUserInterfaceFlag () const
 
template<class CType >
std::vector< std::pair< CType, CType > > & getValidValues ()
 
template<class CType >
const std::vector< std::pair< CType, CType > > & getValidValues () const
 
void * getValidValuesPointer () const
 
template<class CType >
CType & getValue ()
 
template<class CType >
const CType & getValue () const
 
virtual void * getValuePointer () const override
 
CDataObject * getValueReference () const
 
bool hasValidValues () const
 
bool isBasic () const
 
bool isDefault () const
 
bool isEditable () const
 
bool isUnsupported () const
 
bool isValidValue (const bool &value) const
 
bool isValidValue (const C_FLOAT64 &value) const
 
bool isValidValue (const C_INT32 &value) const
 
bool isValidValue (const CCommonName &value) const
 
template<class CType >
bool isValidValue (const CType &) const
 
bool isValidValue (const std::string &value) const
 
bool isValidValue (const std::vector< CCopasiParameter * > &value) const
 
bool isValidValue (const unsigned C_INT32 &value) const
 
CCopasiParameter & operator= (const CCopasiParameter &rhs)
 
template<class CType >
bool setDefault (const CType &defaultValue)
 
bool setDefault (const std::vector< CCopasiParameter * > &defaultValue)
 
virtual bool setObjectParent (const CDataContainer *pParent) override
 
template<class CType , class Enum >
bool setValidValues (const CEnumAnnotation< CType, Enum > &validValues)
 
template<class CType >
bool setValidValues (const std::vector< std::pair< CType, CType > > &validValues)
 
template<class CType >
bool setValue (const CType &value)
 
bool setValue (const std::vector< CCopasiParameter * > &value)
 
virtual ~CCopasiParameter ()
 
- Public Member Functions inherited from CDataContainer
virtual bool add (CDataObject *pObject, const bool &adopt=true)
 
virtual bool appendDeletedDependentData (CUndoData &undoData) const
 
 CDataContainer (const CDataContainer &src, const CDataContainer *pParent)
 
 CDataContainer (const std::string &name, const CDataContainer *pParent=NO_PARENT, const std::string &type="CN", const CFlags< Flag > &flag=CFlags< Flag >::None)
 
virtual std::string getChildObjectUnits (const CDataObject *pObject) const
 
void getDescendants (CDataObject::DataObjectSet &descendants, const bool &recursive=false) const
 
virtual objectMap & getObjects ()
 
virtual const objectMap & getObjects () const
 
virtual const std::string getUnits () const override
 
virtual const CDataObject * getValueObject () const override
 
void objectRenamed (CDataObject *pObject, const std::string &oldName)
 
virtual ~CDataContainer ()
 
- Public Member Functions inherited from CDataObject
void addIssue (const CIssue &issue)
 
void addReference (const CDataContainer *pReference)
 
virtual void calculateValue () override
 
 CDataObject (const CDataObject &src, const CDataContainer *pParent=NULL)
 
virtual void destruct () override
 
virtual const CDataObject * getDataObject () const override
 
CDataContainer * getObjectAncestor (const std::string &type) const
 
CDataModel * getObjectDataModel () const
 
const CObjectInterface * getObjectFromCN (const CCommonName &cn) const
 
const std::string & getObjectName () const
 
CDataContainer * getObjectParent () const
 
const std::string & getObjectType () const
 
virtual const CObjectInterface::ObjectSet & getPrerequisites () const override
 
virtual const CValidity & getValidity () const override
 
bool hasFlag (const Flag &flag) const
 
virtual bool isPrerequisiteForContext (const CObjectInterface *pObject, const CCore::SimulationContextFlag &context, const CObjectInterface::ObjectSet &changedObjects) const override
 
bool prerequisitsContains (const DataObjectSet &objects) const
 
void removeIssue (const CIssue &issue)
 
void removeReference (const CDataContainer *pReference)
 
bool setObjectName (const std::string &name)
 
void validityChanged (const CValidity &changedValidity) override
 
void validityRemoved (const CValidity &changedValidity)
 
virtual ~CDataObject ()
 
- Public Member Functions inherited from CObjectInterface
 CObjectInterface ()
 
 CObjectInterface (const CObjectInterface &src)
 
virtual ~CObjectInterface ()
 
- Public Member Functions inherited from CUndoObjectInterface
 CUndoObjectInterface ()
 
 CUndoObjectInterface (const CUndoObjectInterface &src)
 
bool generateUuid ()
 
const xg::Guid & getUuid () const
 
bool setUuid (const std::string &uuid)
 
bool setUuid (const xg::Guid &uuid)
 
virtual ~CUndoObjectInterface ()
 

Private Member Functions

C_INT calcr (integer *n, integer *p, doublereal *x, integer *nf, doublereal *resid, integer *uiparm, doublereal *urparm, U_fp ufparm)
 
virtual bool cleanup ()
 
 COptMethodNL2SOL ()
 
const C_FLOAT64 & evaluate ()
 
virtual bool initialize ()
 
void initObjects ()
 

Private Attributes

doublereal * bounds
 
FNL2SOL * fCalcr
 
integer * iv
 
integer liv
 
integer lv
 
CVector< C_FLOAT64 > mBest
 
C_FLOAT64 mBestValue
 
bool mContinue
 
CVector< C_FLOAT64 > mCurrent
 
C_FLOAT64 mEvaluationValue
 
bool mHaveResiduals
 
unsigned C_INT32 mIterations
 
CNL2SOL * mpCNL2SOL
 
CMatrix< C_FLOAT64 > mResidualJacobianT
 
C_INT mVariableSize
 
C_INT nResiduals
 
doublereal * v
 

Additional Inherited Members

- Public Types inherited from CCopasiParameterGroup
typedef CDataObjectMap::const_type_iterator< CCopasiParameter > const_name_iterator
 
typedef std::vector< CCopasiParameter * > elements
 
typedef elements::iterator index_iterator
 
typedef CDataObjectMap::type_iterator< CCopasiParameter > name_iterator
 
- Public Types inherited from CCopasiParameter
enum class  eUserInterfaceFlag { editable , basic , unsupported , __SIZE }
 
enum class  Type {
  DOUBLE = 0 , UDOUBLE , INT , UINT ,
  BOOL , GROUP , STRING , CN ,
  KEY , FILE , EXPRESSION , INVALID ,
  __SIZE
}
 
typedef CFlags< eUserInterfaceFlag > UserInterfaceFlag
 
- Public Types inherited from CDataContainer
typedef CDataObjectMap objectMap
 
- Public Types inherited from CDataObject
typedef std::set< const CDataObject * > DataObjectSet
 
enum  Flag {
  Container , Vector , Matrix , NameVector ,
  Reference , ValueBool , ValueInt , ValueInt64 ,
  ValueDbl , NonUniqueName , StaticString , ValueString ,
  Separator , DisplayName , ModelEntity , Array ,
  DataModel , Root , Gui , __SIZE
}
 
- Public Types inherited from CObjectInterface
typedef std::vector< const CDataContainer * > ContainerList
 
typedef std::set< const CObjectInterface * > ObjectSet
 
- Static Public Member Functions inherited from CCopasiParameter
static void allocateValidValues (const Type &type, void *&pValidValues)
 
static void allocateValue (const Type &type, void *&pValue)
 
static void assignValue (const Type &type, void *&pValue, const void *pNewValue)
 
static void deleteValidValues (const Type &type, void *&pValidValues)
 
static void deleteValue (const Type &type, void *&pValue)
 
static CCopasiParameter * fromData (const CData &data, CUndoObjectInterface *pParent)
 
- Static Public Member Functions inherited from CDataContainer
static CDataContainer * fromData (const CData &data, CUndoObjectInterface *pParent)
 
- Static Public Member Functions inherited from CDataObject
static CDataObject * fromData (const CData &data, CUndoObjectInterface *pParent)
 
static void sanitizeObjectName (std::string &name)
 
- Static Public Member Functions inherited from CObjectInterface
static const CDataObject * DataObject (const CObjectInterface *pInterface)
 
static CObjectInterface * GetObjectFromCN (const ContainerList &listOfContainer, const CCommonName &objName)
 
- Static Public Member Functions inherited from CUndoObjectInterface
template<class CType >
static CType * fromData (const CData &, CUndoObjectInterface *)
 
- Static Public Attributes inherited from CCopasiParameter
static const CEnumAnnotation< std::string, Type > TypeName
 
static const CEnumAnnotation< std::string, Type > XMLType
 
- Static Public Attributes inherited from CDataContainer
static const CObjectInterface::ContainerList EmptyList
 
- Protected Member Functions inherited from COptMethod
virtual void signalMathContainerChanged ()
 
- Protected Member Functions inherited from CCopasiMethod
 CCopasiMethod (const CCopasiMethod &src)
 
 CCopasiMethod (const CDataContainer *pParent, const CTaskEnum::Method &methodType, const CTaskEnum::Task &taskType)
 
- Protected Member Functions inherited from CCopasiParameterGroup
 CCopasiParameterGroup ()
 
- Protected Member Functions inherited from CCopasiParameter
 CCopasiParameter (const CCopasiParameter &src)
 
- Protected Member Functions inherited from CDataContainer
template<class CType >
CDataMatrixReference< CType > * addMatrixReference (const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)
 
template<class CType >
CDataObjectReference< CType > * addObjectReference (const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)
 
template<class CType >
CDataVectorReference< CType > * addVectorReference (const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)
 
 CDataContainer (const CDataContainer &src)
 
void initObjects ()
 
- Protected Member Functions inherited from CDataObject
 CDataObject ()
 
 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)
 
- Static Protected Member Functions inherited from COptMethod
static std::pair< C_FLOAT64, bool > objectiveValue (COptProblem *pProblem, const CVectorCore< C_FLOAT64 > &parameters)
 
static void reflect (COptProblem *pProblem, const C_FLOAT64 &bestValue, C_FLOAT64 &objectiveValue)
 
- Protected Attributes inherited from COptMethod
unsigned C_INT32 mLogVerbosity
 
CMathContext mMathContext
 
COptLog mMethodLog
 
bool mParallel
 
COptTask * mpParentTask
 
COptProblemContext mProblemContext
 
- Protected Attributes inherited from CCopasiMethod
CMathContainer * mpContainer
 
CProcessReportLevel mProcessReport
 
- Protected Attributes inherited from CCopasiParameter
std::string mKey
 
void * mpDefault
 
void * mpValidValues
 
void * mpValue
 
CDataObject * mpValueReference
 
UserInterfaceFlag mUserInterfaceFlag
 
- Protected Attributes inherited from CDataContainer
objectMap mObjects
 
- Protected Attributes inherited from CDataObject
ObjectSet mPrerequisits
 
std::set< CDataContainer * > mReferences
 
- Protected Attributes inherited from CObjectInterface
CValidity mValidity
 

Constructor & Destructor Documentation

◆ COptMethodNL2SOL() [1/3]

COptMethodNL2SOL::COptMethodNL2SOL ( const CDataContainer *  pParent,
const CTaskEnum::Method &  methodType = CTaskEnum::Method::NL2SOL,
const CTaskEnum::Task &  taskType = CTaskEnum::Task::optimization 
)

Specific constructor

Parameters
constCDataContainer * pParent
constCTaskEnum::Method & methodType (default: TruncatedNewton)
constCTaskEnum::Task & taskType (default: optimization)

References CCopasiParameterGroup::assertParameter(), C_INT32, initObjects(), and CCopasiParameter::UINT.

◆ COptMethodNL2SOL() [2/3]

COptMethodNL2SOL::COptMethodNL2SOL ( const COptMethodNL2SOL &  src,
const CDataContainer *  pParent 
)

Copy Constructor

Parameters
constCOptMethodNL2SOL & src
constCDataContainer * pParent (default: NULL)

References initObjects().

◆ ~COptMethodNL2SOL()

COptMethodNL2SOL::~COptMethodNL2SOL ( )
virtual

Destructor

References cleanup(), fCalcr, mpCNL2SOL, and pdelete.

◆ COptMethodNL2SOL() [3/3]

COptMethodNL2SOL::COptMethodNL2SOL ( )
private

Default Constructor

Member Function Documentation

◆ calcr()

C_INT COptMethodNL2SOL::calcr ( integer *  n,
integer *  p,
doublereal *  x,
integer *  nf,
doublereal *  resid,
integer *  uiparm,
doublereal *  urparm,
U_fp  ufparm 
)
private

◆ cleanup()

bool COptMethodNL2SOL::cleanup ( )
privatevirtual

Cleanup arrays and pointers.

Returns
bool success

Reimplemented from COptMethod.

References bounds, iv, and v.

Referenced by initialize(), and ~COptMethodNL2SOL().

◆ evaluate()

const C_FLOAT64 & COptMethodNL2SOL::evaluate ( )
private

Evaluate the objective function

Returns
bool continue

References CContext< Data >::master(), mBestValue, mContinue, mEvaluationValue, and COptMethod::mProblemContext.

Referenced by calcr().

◆ getBestParameters()

const CVector< C_FLOAT64 > * COptMethodNL2SOL::getBestParameters ( ) const
virtual
Returns
a the best parameters found

Reimplemented from COptMethod.

References mBest.

◆ getBestValue()

C_FLOAT64 COptMethodNL2SOL::getBestValue ( ) const
virtual
Returns
the objective value

Reimplemented from COptMethod.

References mBestValue.

◆ getCurrentParameters()

const CVector< C_FLOAT64 > * COptMethodNL2SOL::getCurrentParameters ( ) const
virtual
Returns
a the current guess for parameters

Reimplemented from COptMethod.

References mCurrent.

◆ getCurrentValue()

C_FLOAT64 COptMethodNL2SOL::getCurrentValue ( ) const
virtual
Returns
the objective value

Reimplemented from COptMethod.

References mEvaluationValue.

◆ getMaxLogVerbosity()

unsigned C_INT32 COptMethodNL2SOL::getMaxLogVerbosity ( ) const
virtual

Returns the maximum verbosity at which the method can log.

Reimplemented from COptMethod.

◆ initialize()

◆ initObjects()

void COptMethodNL2SOL::initObjects ( )
private

Initialize contained objects.

References CDataContainer::addObjectReference(), mIterations, and CDataObject::ValueInt.

Referenced by COptMethodNL2SOL().

◆ optimise()

Member Data Documentation

◆ bounds

doublereal* COptMethodNL2SOL::bounds
private

parameter bounds

Referenced by cleanup(), initialize(), and optimise().

◆ fCalcr

FNL2SOL* COptMethodNL2SOL::fCalcr
private

Functor pointing to the calculate residuals method.

Referenced by optimise(), and ~COptMethodNL2SOL().

◆ iv

integer* COptMethodNL2SOL::iv
private

integer work array

Referenced by cleanup(), initialize(), and optimise().

◆ liv

integer COptMethodNL2SOL::liv
private

size of work array

Referenced by initialize(), and optimise().

◆ lv

integer COptMethodNL2SOL::lv
private

Size of double work array

Referenced by initialize(), and optimise().

◆ mBest

CVector< C_FLOAT64 > COptMethodNL2SOL::mBest
private

The last individual

Referenced by calcr(), getBestParameters(), initialize(), and optimise().

◆ mBestValue

C_FLOAT64 COptMethodNL2SOL::mBestValue
private

The best value found so far

Referenced by calcr(), evaluate(), getBestValue(), initialize(), and optimise().

◆ mContinue

bool COptMethodNL2SOL::mContinue
private

Flag indicating whether the computation shall continue

Referenced by calcr(), evaluate(), initialize(), and optimise().

◆ mCurrent

CVector< C_FLOAT64 > COptMethodNL2SOL::mCurrent
private

array of candidate parameter values

Referenced by calcr(), getCurrentParameters(), initialize(), and optimise().

◆ mEvaluationValue

C_FLOAT64 COptMethodNL2SOL::mEvaluationValue
private

The result of a function evaluation

Referenced by calcr(), evaluate(), getCurrentValue(), and optimise().

◆ mHaveResiduals

bool COptMethodNL2SOL::mHaveResiduals
private

Indicate whether we have access to the residuals, i.e., it is a fitting problem we are working on.

Referenced by initialize().

◆ mIterations

unsigned C_INT32 COptMethodNL2SOL::mIterations
private

The max number of iterations

Referenced by initialize(), initObjects(), and optimise().

◆ mpCNL2SOL

CNL2SOL* COptMethodNL2SOL::mpCNL2SOL
private

CNL2SOL function.

Referenced by optimise(), and ~COptMethodNL2SOL().

◆ mResidualJacobianT

CMatrix< C_FLOAT64 > COptMethodNL2SOL::mResidualJacobianT
private

The transpose jacobian of the residuals.

Referenced by initialize().

◆ mVariableSize

C_INT COptMethodNL2SOL::mVariableSize
private

number of parameters

Referenced by initialize(), and optimise().

◆ nResiduals

C_INT COptMethodNL2SOL::nResiduals
private

The number of residuals.

Referenced by initialize(), and optimise().

◆ v

doublereal* COptMethodNL2SOL::v
private

double work array

Referenced by cleanup(), initialize(), and optimise().


The documentation for this class was generated from the following files: