COPASI API
4.16.103
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#include <CPlotSpecification.h>
Public Member Functions | |
virtual void | cleanup () |
CPlotSpecification (const std::string &name="NoName", const CCopasiContainer *pParent=NULL, const CPlotItem::Type &type=plot2d) | |
CPlotSpecification (const CPlotSpecification &src, const CCopasiContainer *pParent=NULL) | |
bool | createDefaultPlot (const CModel *model) |
CPlotItem * | createItem (const std::string &name, CPlotItem::Type type) |
const CCopasiVector< CPlotItem > & | getItems () const |
CCopasiVector< CPlotItem > & | getItems () |
const bool & | isActive () const |
bool | isLogX () const |
bool | isLogY () const |
void | setActive (const bool &active) |
void | setLogX (bool l) |
void | setLogY (bool l) |
virtual | ~CPlotSpecification () |
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void | addChannel (const CPlotDataChannelSpec &channel) |
void | cleanup () |
CPlotItem (const std::string &name="NoName", const CCopasiContainer *pParent=NULL, const Type &type=curve2d) | |
CPlotItem (const CPlotItem &src, const CCopasiContainer *pParent=NULL) | |
const COutputInterface::Activity & | getActivity () const |
std::vector < CPlotDataChannelSpec > & | getChannels () |
const std::vector < CPlotDataChannelSpec > & | getChannels () const |
size_t | getNumChannels () const |
const std::string & | getTitle () const |
const CPlotItem::Type & | getType () const |
void | setActivity (const COutputInterface::Activity &activity) |
void | setTitle (const std::string &title) |
void | setType (CPlotItem::Type type) |
virtual | ~CPlotItem () |
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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 () |
virtual bool | elevateChildren () |
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 | initObjects () |
Private Attributes | |
CCopasiVector< CPlotItem > | items |
bool | mActive |
Additional Inherited Members | |
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enum | Type { unset = 0, curve2d, histoItem1d, bandedGraph, surface, plot2d, simWiz } |
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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 | RecordingActivityName [] |
static const std::string | TypeName [] |
static const char * | XMLRecordingActivity [] |
static const char * | XMLType [] |
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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 CPlotSpecification.h.
CPlotSpecification::CPlotSpecification | ( | const std::string & | name = "NoName" , |
const CCopasiContainer * | pParent = NULL , |
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const CPlotItem::Type & | type = plot2d |
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Definition at line 28 of file CPlotSpecification.cpp.
References initObjects().
CPlotSpecification::CPlotSpecification | ( | const CPlotSpecification & | src, |
const CCopasiContainer * | pParent = NULL |
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Definition at line 36 of file CPlotSpecification.cpp.
References initObjects().
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Definition at line 45 of file CPlotSpecification.cpp.
References CPlotItem::cleanup(), CCopasiVector< T >::cleanup(), and items.
Referenced by CQPlotSubwidget::saveToPlotSpec().
bool CPlotSpecification::createDefaultPlot | ( | const CModel * | model | ) |
Definition at line 99 of file CPlotSpecification.cpp.
References CPlotItem::addChannel(), createItem(), CPlotItem::curve2d, CCopasiObject::getCN(), CModel::getMetabolites(), CCopasiObject::getObjectDisplayName(), CModelEntity::getValueReference(), mActive, and CCopasiVector< T >::size().
CPlotItem * CPlotSpecification::createItem | ( | const std::string & | name, |
CPlotItem::Type | type | ||
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Definition at line 86 of file CPlotSpecification.cpp.
References CCopasiVector< T >::add(), CPlotItem::CPlotItem(), and items.
Referenced by COutputAssistant::createDefaultOutput(), createDefaultPlot(), COutputAssistant::createPlot(), SEDMLImporter::readListOfPlotsFromSedMLOutput(), and CCopasiXMLParser::PlotItemElement::start().
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Definition at line 54 of file CPlotSpecification.h.
References items.
Referenced by CopasiPlot::compile(), CSEDMLExporter::createDataGenerators(), COutputAssistant::createDefaultOutput(), CQPlotDM::data(), CopasiPlot::initFromSpec(), CQPlotSubwidget::loadFromPlotSpec(), CCopasiXML::savePlotList(), and CQPlotSubwidget::saveToPlotSpec().
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Initialize the contained CCopasiObjects
Definition at line 51 of file CPlotSpecification.cpp.
Referenced by CPlotSpecification().
const bool & CPlotSpecification::isActive | ( | ) | const |
Definition at line 61 of file CPlotSpecification.cpp.
References mActive.
Referenced by COutputHandlerPlot::compile(), CQPlotDM::data(), CQPlotSubwidget::loadFromPlotSpec(), CCopasiXML::savePlotList(), and CQPlotDM::setData().
bool CPlotSpecification::isLogX | ( | ) | const |
Definition at line 64 of file CPlotSpecification.cpp.
References CCopasiParameter::getValue(), and CCopasiParameter::Value::pBOOL.
Referenced by CSEDMLExporter::createDataGenerators(), PlotWindow::initFromSpec(), CopasiPlot::initFromSpec(), CQPlotSubwidget::loadFromPlotSpec(), and PlotWindow::PlotWindow().
bool CPlotSpecification::isLogY | ( | ) | const |
Definition at line 69 of file CPlotSpecification.cpp.
References CCopasiParameter::getValue(), and CCopasiParameter::Value::pBOOL.
Referenced by CSEDMLExporter::createDataGenerators(), PlotWindow::initFromSpec(), CopasiPlot::initFromSpec(), CQPlotSubwidget::loadFromPlotSpec(), and PlotWindow::PlotWindow().
void CPlotSpecification::setActive | ( | const bool & | active | ) |
Definition at line 58 of file CPlotSpecification.cpp.
References mActive.
Referenced by CQPlotSubwidget::saveToPlotSpec(), CQPlotDM::setData(), CQPlotsWidget::slotBtnActivateAllClicked(), CQPlotsWidget::slotBtnDeactivateAllClicked(), and CCopasiXMLParser::PlotSpecificationElement::start().
void CPlotSpecification::setLogX | ( | bool | l | ) |
Definition at line 74 of file CPlotSpecification.cpp.
References CCopasiParameterGroup::setValue().
Referenced by COutputAssistant::createPlot(), SEDMLImporter::readListOfPlotsFromSedMLOutput(), and CQPlotSubwidget::saveToPlotSpec().
void CPlotSpecification::setLogY | ( | bool | l | ) |
Definition at line 79 of file CPlotSpecification.cpp.
References CCopasiParameterGroup::setValue().
Referenced by COutputAssistant::createDefaultOutput(), COutputAssistant::createPlot(), SEDMLImporter::readListOfPlotsFromSedMLOutput(), and CQPlotSubwidget::saveToPlotSpec().
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Definition at line 31 of file CPlotSpecification.h.
Referenced by cleanup(), createItem(), and getItems().
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Definition at line 32 of file CPlotSpecification.h.
Referenced by createDefaultPlot(), isActive(), and setActive().