COPASI API
4.16.103
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#include <CExperimentObjectMap.h>
Public Member Functions | |
CDataColumn (const std::string &name="Object Map", const CCopasiContainer *pParent=NULL) | |
CDataColumn (const CDataColumn &src, const CCopasiContainer *pParent=NULL) | |
CDataColumn (const CCopasiParameterGroup &group, const CCopasiContainer *pParent=NULL) | |
virtual bool | elevateChildren () |
void | fixBuild55 () |
C_FLOAT64 | getDefaultScale () const |
std::string | getObjectCN () const |
const CExperiment::Type & | getRole () const |
C_FLOAT64 | getScale () const |
CDataColumn & | operator= (const CDataColumn &rhs) |
bool | setObjectCN (const std::string &objectCN) |
bool | setRole (const CExperiment::Type &role) |
bool | setScale (const C_FLOAT64 &scale) |
virtual | ~CDataColumn () |
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bool | addGroup (const std::string &name) |
bool | addParameter (const CCopasiParameter ¶meter) |
bool | addParameter (const std::string &name, const CCopasiParameter::Type type) |
template<class CType > | |
bool | addParameter (const std::string &name, const CCopasiParameter::Type type, const CType &value) |
void | addParameter (CCopasiParameter *pParameter) |
CCopasiParameterGroup * | assertGroup (const std::string &name) |
template<class CType > | |
CCopasiParameter * | assertParameter (const std::string &name, const CCopasiParameter::Type type, const CType &defaultValue) |
index_iterator | beginIndex () const |
name_iterator | beginName () const |
CCopasiParameterGroup (const CCopasiParameterGroup &src, const CCopasiContainer *pParent=NULL) | |
CCopasiParameterGroup (const std::string &name, const CCopasiContainer *pParent=NULL, const std::string &objectType="ParameterGroup") | |
void | clear () |
index_iterator | endIndex () const |
name_iterator | endName () const |
CCopasiParameterGroup * | getGroup (const std::string &name) |
const CCopasiParameterGroup * | getGroup (const std::string &name) const |
CCopasiParameterGroup * | getGroup (const size_t &index) |
const CCopasiParameterGroup * | getGroup (const size_t &index) const |
size_t | getIndex (const std::string &name) const |
std::string | getKey (const std::string &name) const |
std::string | getKey (const size_t &index) const |
virtual const std::string & | getName (const size_t &index) const |
virtual const CObjectInterface * | getObject (const CCopasiObjectName &cn) const |
CCopasiParameter * | getParameter (const std::string &name) |
const CCopasiParameter * | getParameter (const std::string &name) const |
CCopasiParameter * | getParameter (const size_t &index) |
const CCopasiParameter * | getParameter (const size_t &index) const |
CCopasiParameter::Type | getType (const std::string &name) const |
CCopasiParameter::Type | getType (const size_t &index) const |
std::string | getUniqueParameterName (const CCopasiParameter *pParameter) const |
const CCopasiParameter::Value & | getValue (const std::string &name) const |
const CCopasiParameter::Value & | getValue (const size_t &index) const |
CCopasiParameter::Value & | getValue (const std::string &name) |
CCopasiParameter::Value & | getValue (const size_t &index) |
CCopasiParameterGroup & | operator= (const CCopasiParameterGroup &rhs) |
virtual void | print (std::ostream *ostream) const |
bool | removeParameter (const std::string &name) |
bool | removeParameter (const size_t &index) |
template<class CType > | |
bool | setValue (const std::string &name, const CType &value) |
template<class CType > | |
bool | setValue (const size_t &index, const CType &value) |
size_t | size () const |
bool | swap (const size_t &iFrom, const size_t &iTo) |
bool | swap (index_iterator &from, index_iterator &to) |
virtual | ~CCopasiParameterGroup () |
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CCopasiParameter (const CCopasiParameter &src, const CCopasiContainer *pParent=NULL) | |
CCopasiParameter (const std::string &name, const Type &type, const void *pValue=NULL, const CCopasiContainer *pParent=NULL, const std::string &objectType="Parameter") | |
virtual CCopasiObjectName | getCN () const |
virtual const std::string & | getKey () const |
virtual std::string | getObjectDisplayName (bool regular=true, bool richtext=false) const |
const CCopasiParameter::Type & | getType () const |
const Value & | getValue () const |
Value & | getValue () |
virtual void * | getValuePointer () const |
CCopasiObject * | getValueReference () const |
bool | isValidValue (const C_FLOAT64 &value) const |
bool | isValidValue (const C_INT32 &value) const |
bool | isValidValue (const unsigned C_INT32 &value) const |
bool | isValidValue (const bool &value) const |
bool | isValidValue (const std::string &value) const |
bool | isValidValue (const CCopasiObjectName &value) const |
bool | isValidValue (const std::vector< CCopasiParameter * > &value) const |
CCopasiParameter & | operator= (const CCopasiParameter &rhs) |
template<class CType > | |
bool | setValue (const CType &value) |
bool | setValue (const std::vector< CCopasiParameter * > &value) |
virtual | ~CCopasiParameter () |
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virtual bool | add (CCopasiObject *pObject, const bool &adopt=true) |
CCopasiContainer (const std::string &name, const CCopasiContainer *pParent=NULL, const std::string &type="CN", const unsigned C_INT32 &flag=CCopasiObject::Container) | |
CCopasiContainer (const CCopasiContainer &src, const CCopasiContainer *pParent=NULL) | |
virtual std::string | getChildObjectUnits (const CCopasiObject *pObject) const |
virtual const objectMap & | getObjects () const |
virtual std::string | getUnits () const |
virtual const CCopasiObject * | getValueObject () const |
virtual bool | remove (CCopasiObject *pObject) |
virtual | ~CCopasiContainer () |
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void | addDirectDependency (const CCopasiObject *pObject) |
CCopasiObject (const CCopasiObject &src, const CCopasiContainer *pParent=NULL) | |
void | clearDirectDependencies () |
void | clearRefresh () |
bool | dependsOn (DataObjectSet candidates, const DataObjectSet &context=DataObjectSet()) const |
void | getAllDependencies (DataObjectSet &dependencies, const DataObjectSet &context) const |
virtual const DataObjectSet & | getDirectDependencies (const DataObjectSet &context=DataObjectSet()) const |
CCopasiContainer * | getObjectAncestor (const std::string &type) const |
CCopasiDataModel * | getObjectDataModel () |
const CCopasiDataModel * | getObjectDataModel () const |
const std::string & | getObjectName () const |
CCopasiContainer * | getObjectParent () const |
const std::string & | getObjectType () const |
virtual const CObjectInterface::ObjectSet & | getPrerequisites () const |
virtual Refresh * | getRefresh () const |
UpdateMethod * | getUpdateMethod () const |
bool | hasCircularDependencies (DataObjectSet &candidates, DataObjectSet &verified, const DataObjectSet &context) const |
bool | hasUpdateMethod () const |
bool | isArray () const |
bool | isContainer () const |
bool | isDataModel () const |
bool | isMatrix () const |
bool | isNameVector () const |
bool | isNonUniqueName () const |
virtual bool | isPrerequisiteForContext (const CObjectInterface *pObject, const CMath::SimulationContextFlag &context, const CObjectInterface::ObjectSet &changedObjects) const |
bool | isReference () const |
bool | isRoot () const |
bool | isSeparator () const |
bool | isStaticString () const |
bool | isValueBool () const |
bool | isValueDbl () const |
bool | isValueInt () const |
bool | isValueInt64 () const |
bool | isValueString () const |
bool | isVector () const |
virtual bool | mustBeDeleted (const DataObjectSet &deletedObjects) const |
void | removeDirectDependency (const CCopasiObject *pObject) |
void | setDirectDependencies (const DataObjectSet &directDependencies) |
bool | setObjectName (const std::string &name) |
virtual bool | setObjectParent (const CCopasiContainer *pParent) |
void | setObjectValue (const C_FLOAT64 &value) |
void | setObjectValue (const C_INT32 &value) |
void | setObjectValue (const bool &value) |
template<class CType > | |
void | setRefresh (CType *pType, void(CType::*method)(void)) |
template<class CType > | |
void | setUpdateMethod (CType *pType, void(CType::*method)(const C_FLOAT64 &)) |
template<class CType > | |
void | setUpdateMethod (CType *pType, void(CType::*method)(const C_INT32 &)) |
template<class CType > | |
void | setUpdateMethod (CType *pType, void(CType::*method)(const bool &)) |
virtual | ~CCopasiObject () |
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CObjectInterface () | |
virtual | ~CObjectInterface () |
Private Member Functions | |
void | initializeParameter () |
Private Attributes | |
CCopasiObjectName * | mpObjectCN |
CExperiment::Type * | mpRole |
C_FLOAT64 * | mpScale |
Additional Inherited Members | |
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typedef parameterGroup::iterator | index_iterator |
typedef CCopasiContainer::objectMap::iterator | name_iterator |
typedef std::vector < CCopasiParameter * > | parameterGroup |
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enum | Type { DOUBLE = 0, UDOUBLE, INT, UINT, BOOL, GROUP, STRING, CN, KEY, FILE, EXPRESSION, INVALID } |
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typedef std::multimap < std::string, CCopasiObject * > | objectMap |
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typedef std::set< const CCopasiObject * > | DataObjectSet |
typedef std::vector< Refresh * > | DataUpdateSequence |
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typedef std::set< const CObjectInterface * > | ObjectSet |
typedef std::vector < CObjectInterface * > | UpdateSequence |
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static std::vector< Refresh * > | buildUpdateSequence (const DataObjectSet &objects, const DataObjectSet &uptoDateObjects, const DataObjectSet &context=DataObjectSet()) |
static void | setRenameHandler (CRenameHandler *rh) |
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static const std::string | TypeName [] |
static const char * | XMLType [] |
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static const std::vector < CCopasiContainer * > | EmptyList |
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enum | Flag { Container = 0x1, Vector = 0x2, Matrix = 0x4, NameVector = 0x8, Reference = 0x10, ValueBool = 0x20, ValueInt = 0x40, ValueInt64 = 0x80, ValueDbl = 0x100, NonUniqueName = 0x200, StaticString = 0x400, ValueString = 0x800, Separator = 0x1000, ModelEntity = 0x2000, Array = 0x4000, DataModel = 0x8000, Root = 0x10000, Gui = 0x20000 } |
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CCopasiParameterGroup () | |
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template<class CType > | |
CCopasiObject * | addMatrixReference (const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) |
template<class CType > | |
CCopasiObject * | addObjectReference (const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) |
template<class CType > | |
CCopasiObject * | addVectorReference (const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) |
void | initObjects () |
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CCopasiObject () | |
CCopasiObject (const std::string &name, const CCopasiContainer *pParent=NULL, const std::string &type="CN", const unsigned C_INT32 &flag=0) | |
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std::string | mKey |
CCopasiObject * | mpValueReference |
size_t | mSize |
Value | mValue |
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objectMap | mObjects |
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static CRenameHandler * | smpRenameHandler = NULL |
Definition at line 27 of file CExperimentObjectMap.h.
CExperimentObjectMap::CDataColumn::CDataColumn | ( | const std::string & | name = "Object Map" , |
const CCopasiContainer * | pParent = NULL |
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Default constructor
const | std::string & name (default: Object Map) |
const | CCopasiContainer * pParent (default: NULL) |
Definition at line 289 of file CExperimentObjectMap.cpp.
References initializeParameter().
CExperimentObjectMap::CDataColumn::CDataColumn | ( | const CDataColumn & | src, |
const CCopasiContainer * | pParent = NULL |
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Copy constructor
const | CDataColumn & src |
const | CCopasiContainer * pParent (default: NULL) |
Definition at line 299 of file CExperimentObjectMap.cpp.
References initializeParameter().
CExperimentObjectMap::CDataColumn::CDataColumn | ( | const CCopasiParameterGroup & | group, |
const CCopasiContainer * | pParent = NULL |
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Specific constructor used for reading COPASI files
const | CCopasiParameterGroup & group |
const | CCopasiContainer * pParent (default: NULL) |
Definition at line 309 of file CExperimentObjectMap.cpp.
References initializeParameter().
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This methods must be called to elevate subgroups to derived objects. The default implementation does nothing.
Reimplemented from CCopasiParameterGroup.
Definition at line 349 of file CExperimentObjectMap.cpp.
void CExperimentObjectMap::CDataColumn::fixBuild55 | ( | ) |
Fix files written with Version 4.10.55, which wrote the square root of user defined weights for the parameter fitting task
Definition at line 460 of file CExperimentObjectMap.cpp.
Referenced by CExperimentObjectMap::fixBuild55().
C_FLOAT64 CExperimentObjectMap::CDataColumn::getDefaultScale | ( | ) | const |
Retrieve the default weight of the column
Definition at line 433 of file CExperimentObjectMap.cpp.
References CCopasiDataModel::getDataObject(), CExperiment::getDefaultScale(), CCopasiObject::getObjectDataModel(), and CCopasiObject::getObjectParent().
Referenced by CExperimentObjectMap::getDefaultScale().
std::string CExperimentObjectMap::CDataColumn::getObjectCN | ( | ) | const |
Retrieve the object CN of the object mapped to the column
Definition at line 383 of file CExperimentObjectMap.cpp.
Referenced by CExperimentObjectMap::getObjectCN(), and operator=().
const CExperiment::Type & CExperimentObjectMap::CDataColumn::getRole | ( | ) | const |
Retrieve the role of the column
Definition at line 358 of file CExperimentObjectMap.cpp.
Referenced by CExperimentObjectMap::getRole().
C_FLOAT64 CExperimentObjectMap::CDataColumn::getScale | ( | ) | const |
Retrieve the scaling factor of the column
Definition at line 425 of file CExperimentObjectMap.cpp.
References CExperimentObjectMap::getDefaultScale().
Referenced by CExperimentObjectMap::getScale(), and operator=().
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Allocates all group parameters and assures that they are properly initialized.
Definition at line 322 of file CExperimentObjectMap.cpp.
References CCopasiParameterGroup::assertParameter(), C_INT32, CExperimentObjectMap::elevateChildren(), CCopasiParameterGroup::getParameter(), CCopasiParameter::getValue(), CExperiment::ignore, CCopasiParameter::Value::pCN, CCopasiParameter::Value::pUDOUBLE, CCopasiParameter::Value::pUINT, and CCopasiParameter::UINT.
Referenced by CDataColumn().
CExperimentObjectMap::CDataColumn & CExperimentObjectMap::CDataColumn::operator= | ( | const CDataColumn & | rhs | ) |
Assignment operator
const | CDataColumn & rhs |
Definition at line 340 of file CExperimentObjectMap.cpp.
References getObjectCN(), getScale(), mpRole, CExperimentObjectMap::setObjectCN(), and CExperimentObjectMap::setScale().
bool CExperimentObjectMap::CDataColumn::setObjectCN | ( | const std::string & | objectCN | ) |
Set the object CN of the object mapped to the column
const | std::string & objectCN |
Definition at line 361 of file CExperimentObjectMap.cpp.
References CCopasiParameterGroup::assertParameter(), CCopasiParameter::CN, CCopasiParameter::getValue(), CCopasiParameter::Value::pCN, and CCopasiParameterGroup::removeParameter().
Referenced by CExperimentObjectMap::setObjectCN().
bool CExperimentObjectMap::CDataColumn::setRole | ( | const CExperiment::Type & | role | ) |
Set the role of the column
const | CExperiment::Type & role |
Definition at line 352 of file CExperimentObjectMap.cpp.
Referenced by CExperimentObjectMap::setRole().
bool CExperimentObjectMap::CDataColumn::setScale | ( | const C_FLOAT64 & | scale | ) |
Set the scaling factor for the column
const | C_FLOAT64 & scale |
Definition at line 391 of file CExperimentObjectMap.cpp.
References CCopasiParameterGroup::assertParameter(), C_FLOAT64, CExperimentObjectMap::getDefaultScale(), CCopasiParameter::getValue(), CCopasiParameter::Value::pUDOUBLE, CCopasiParameterGroup::removeParameter(), and CCopasiParameter::UDOUBLE.
Referenced by CExperimentObjectMap::setScale().
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Definition at line 136 of file CExperimentObjectMap.h.
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Definition at line 134 of file CExperimentObjectMap.h.
Referenced by operator=().
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Definition at line 138 of file CExperimentObjectMap.h.