CCopasiXMLParser Class Reference

#include <CCopasiXMLParser.h>

Inheritance diagram for CCopasiXMLParser:

Collaboration diagram for CCopasiXMLParser:

Classes
class	AdditionalGOElement
class	AssignmentElement
class	BodyElement
class	BoundingBoxElement
class	CallParameterElement
class	ChannelSpecElement
class	CharacterDataElement
class	ColorDefinitionElement
class	CommentElement
class	CompartmentElement
class	CompartmentGlyphElement
class	ComplexElement
class	ConstantElement
class	COPASIElement
class	CurveElement
class	CurveElementElement
class	EllipseElement
class	EventElement
class	FooterElement
class	FunctionElement
class	GlobalRenderInformationElement
class	GlobalStyleElement
class	GradientStopElement
class	GroupElement
class	GUIElement
class	HeaderElement
class	ImageElement
class	InitialStateElement
class	KineticLawElement
class	LayoutElement
class	LinearGradientElement
class	LineEndingElement
class	ListOfAdditionalGOsElement
class	ListOfAssignmentsElement
class	ListOfCallParametersElement
class	ListOfChannelsElement
class	ListOfColorDefinitionsElement
class	ListOfCompartmentGlyphsElement
class	ListOfCompartmentsElement
class	ListOfConstantsElement
class	ListOfCurveElementsElement
class	ListOfEventsElement
class	ListOfFunctionsElement
class	ListOfGlobalRenderInformationElement
class	ListOfGlobalStylesElement
class	ListOfGradientDefinitionsElement
class	ListOfLayoutsElement
class	ListOfLineEndingsElement
class	ListOfLocalRenderInformationElement
class	ListOfLocalStylesElement
class	ListOfMetabGlyphsElement
class	ListOfMetaboliteReferenceGlyphsElement
class	ListOfMetabolitesElement
class	ListOfModelParameterSetsElement
class	ListOfModelValuesElement
class	ListOfModifiersElement
class	ListOfParameterDescriptionsElement
class	ListOfPlotItemsElement
class	ListOfPlotsElement
class	ListOfProductsElement
class	ListOfReactionGlyphsElement
class	ListOfReactionsElement
class	ListOfReportsElement
class	ListOfSlidersElement
class	ListOfSubstratesElement
class	ListOfTasksElement
class	ListOfTextGlyphsElement
class	ListOfUnsupportedAnnotationsElement
class	LocalRenderInformationElement
class	LocalStyleElement
class	MathMLElement
class	MetaboliteElement
class	MetaboliteGlyphElement
class	MetaboliteReferenceGlyphElement
class	MethodElement
class	MiriamAnnotationElement
class	ModelElement
class	ModelParameterElement
class	ModelParameterGroupElement
class	ModelParameterSetElement
class	ModelValueElement
class	ModifierElement
class	ObjectElement
class	ParameterDescriptionElement
class	ParameterElement
class	ParameterGroupElement
class	ParameterTextElement
class	PlotItemElement
class	PlotSpecificationElement
class	PolygonElement
class	ProductElement
class	RadialGradientElement
class	ReactionElement
class	ReactionGlyphElement
class	RectangleElement
class	RenderCurveElement
class	ReportElement
class	ReportInstanceElement
class	SBMLMapElement
class	SBMLReferenceElement
class	SliderElement
class	SourceParameterElement
class	StateTemplateElement
class	StateTemplateVariableElement
class	SubstrateElement
class	TableElement
class	TaskElement
class	TextElement
class	TextGlyphElement
class	UnknownElement
class	UnsupportedAnnotationElement

Public Member Functions
	CCopasiXMLParser (CVersion &version)
void	enableCharacterDataHandler (bool fEnable=true)
std::string	getCharacterData (const std::string &toBeStripped="", const std::string &join=" ")
const CCopasiParameterGroup *	getCurrentGroup () const
CListOfLayouts *	getLayoutList () const
CModel *	getModel () const
const CCopasiObject *	getObjectFromName (const std::string &cn) const
COutputDefinitionVector *	getPlotList () const
CReportDefinitionVector *	getReportList () const
CCopasiVectorN< CCopasiTask > *	getTaskList () const
virtual void	onCharacterData (const XML_Char *pszData, int nLength)
virtual void	onEndElement (const XML_Char *pszName)
virtual void	onSkippedEntityHandler (const XML_Char *entityName, int is_parameter_entity)
virtual void	onStartElement (const XML_Char *pszName, const XML_Char **papszAttrs)
void	popElementHandler ()
void	pushElementHandler (CXMLElementHandler< CCopasiXMLParser, SCopasiXMLParserCommon > *elementHandler)
void	setDatamodel (CCopasiDataModel *pDataModel)
void	setFunctionList (CCopasiVectorN< CFunction > *pFunctionList)
void	setGUI (SCopasiXMLGUI *pGUI)
void	setLayoutList (CListOfLayouts *pLayoutList)
	~CCopasiXMLParser ()
Public Member Functions inherited from CExpat
	CExpat ()
virtual void	onComment (const XML_Char *pszData)
virtual void	onDefault (const XML_Char *pszData, int nLength)
virtual void	onEndCdataSection ()
virtual void	onEndDoctypeDecl ()
virtual void	onEndNamespaceDecl (const XML_Char *pszPrefix)
virtual bool	onExternalEntityRef (const XML_Char *pszContext, const XML_Char *pszBase, const XML_Char *pszSystemID, const XML_Char *pszPublicID)
virtual void	onProcessingInstruction (const XML_Char *pszTarget, const XML_Char *pszData)
virtual void	onStartCdataSection ()
virtual void	onStartDoctypeDecl (const XML_Char *pszDoctypeName, const XML_Char *pszSysID, const XML_Char *pszPubID, bool fHasInternalSubset)
virtual void	onStartNamespaceDecl (const XML_Char *pszPrefix, const XML_Char *pszURI)
virtual bool	onUnknownEncoding (const XML_Char *pszName, XML_Encoding *pInfo)
virtual void	onXmlDecl (const XML_Char *pszVersion, const XML_Char *pszEncoding, bool fStandalone)
virtual	~CExpat ()
Public Member Functions inherited from CExpatTemplate< CExpat >
	CExpatTemplate ()
bool	create (const XML_Char *pszEncoding=NULL, const XML_Char *pszSep=NULL)
void	destroy ()
void	enableCdataSectionHandler (bool fEnable=true)
void	enableCharacterDataHandler (bool fEnable=true)
void	enableCommentHandler (bool fEnable=true)
void	enableDefaultHandler (bool fEnable=true, bool fExpand=true)
void	enableDoctypeDeclHandler (bool fEnable=true)
void	enableElementHandler (bool fEnable=true)
void	enableEndCdataSectionHandler (bool fEnable=true)
void	enableEndDoctypeDeclHandler (bool fEnable=true)
void	enableEndElementHandler (bool fEnable=true)
void	enableEndNamespaceDeclHandler (bool fEnable=true)
void	enableExternalEntityRefHandler (bool fEnable=true)
void	enableNamespaceDeclHandler (bool fEnable=true)
void	enableProcessingInstructionHandler (bool fEnable=true)
void	enableSkippedEntityHandler (bool fEnable=true)
void	enableStartCdataSectionHandler (bool fEnable=true)
void	enableStartDoctypeDeclHandler (bool fEnable=true)
void	enableStartElementHandler (bool fEnable=true)
void	enableStartNamespaceDeclHandler (bool fEnable=true)
void	enableUnknownEncodingHandler (bool fEnable=true)
void	enableXmlDeclHandler (bool fEnable=true)
const char *	getAttributeValue (const std::string &name, const char **attributes, const bool &required=true) const
const char *	getAttributeValue (const std::string &name, const char **attributes, const char *def) const
void *	getBuffer (int nLength)
int	getCurrentByteCount ()
long	getCurrentByteIndex ()
int	getCurrentColumnNumber ()
int	getCurrentLineNumber () const
enum XML_Error	getErrorCode ()
const XML_LChar *	getErrorString ()
const char *	getInputContext (int *pnOffset, int *pnSize)
void	onCharacterData (const XML_Char *pszData, int nLength)
void	onComment (const XML_Char *pszData)
void	onDefault (const XML_Char *pszData, int nLength)
void	onEndCdataSection ()
void	onEndDoctypeDecl ()
void	onEndElement (const XML_Char *pszName)
void	onEndNamespaceDecl (const XML_Char *pszPrefix)
bool	onExternalEntityRef (const XML_Char *pszContext, const XML_Char *pszBase, const XML_Char *pszSystemID, const XML_Char *pszPublicID)
void	onProcessingInstruction (const XML_Char *pszTarget, const XML_Char *pszData)
void	onSkippedEntityHandler (const XML_Char *, int)
void	onStartCdataSection ()
void	onStartDoctypeDecl (const XML_Char *pszDoctypeName, const XML_Char *pszSysID, const XML_Char *pszPubID, bool fHasInternalSubset)
void	onStartElement (const XML_Char *pszName, const XML_Char **papszAttrs)
void	onStartNamespaceDecl (const XML_Char *pszPrefix, const XML_Char *pszURI)
bool	onUnknownEncoding (const XML_Char *pszName, XML_Encoding *pInfo)
void	onXmlDecl (const XML_Char *pszVersion, const XML_Char *pszEncoding, bool fStandalone)
bool	parse (const char *pszBuffer, int nLength=-1, bool fIsFinal=true)
bool	parseBuffer (int nLength, bool fIsFinal=true)
	~CExpatTemplate ()

Public Attributes
CharacterDataElement	mCharacterDataElement
CommentElement	mCommentElement
ListOfUnsupportedAnnotationsElement	mListOfUnsupportedAnnotationsElement
MiriamAnnotationElement	mMiriamAnnotationElement
UnknownElement	mUnknownElement

Private Member Functions
	CCopasiXMLParser ()

Private Attributes
std::string	mCharacterData
CCopasiXMLInterface::EncodingType	mCharacterDataEncoding
SCopasiXMLParserCommon	mCommon
std::stack< CXMLElementHandler < CCopasiXMLParser, SCopasiXMLParserCommon > * >	mElementHandlerStack

Additional Inherited Members
Static Public Member Functions inherited from CExpatTemplate< CExpat >
static const XML_LChar *	getErrorString (enum XML_Error nError)
static const XML_LChar *	getExpatVersion ()
static void	getExpatVersion (int &nMajor, int &nMinor, int &nMicro)
static bool	toBool (const char *attribute)
Protected Member Functions inherited from CExpatTemplate< CExpat >
void	onPostCreate ()
Static Protected Member Functions inherited from CExpatTemplate< CExpat >
static void	characterDataHandler (void *pUserData, const XML_Char *pszData, int nLength)
static void	commentHandler (void *pUserData, const XML_Char *pszData)
static void	defaultHandler (void *pUserData, const XML_Char *pszData, int nLength)
static void	endCdataSectionHandler (void *pUserData)
static void	endDoctypeDeclHandler (void *pUserData)
static void	endElementHandler (void *pUserData, const XML_Char *pszName)
static void	endNamespaceDeclHandler (void *pUserData, const XML_Char *pszPrefix)
static int	externalEntityRefHandler (XML_Parser pUserData, const XML_Char *pszContext, const XML_Char *pszBase, const XML_Char *pszSystemID, const XML_Char *pszPublicID)
static void	processingInstructionHandler (void *pUserData, const XML_Char *pszTarget, const XML_Char *pszData)
static void	skippedEntityHandler (void *pUserData, const XML_Char *entityName, int is_parameter_entity)
static void	startCdataSectionHandler (void *pUserData)
static void	startDoctypeDeclHandler (void *pUserData, const XML_Char *pszDoctypeName, const XML_Char *pszSysID, const XML_Char *pszPubID, int nHasInternalSubset)
static void	startElementHandler (void *pUserData, const XML_Char *pszName, const XML_Char **papszAttrs)
static void	startNamespaceDeclHandler (void *pUserData, const XML_Char *pszPrefix, const XML_Char *pszURI)
static int	unknownEncodingHandler (void *pUserData, const XML_Char *pszName, XML_Encoding *pInfo)
static void	xmlDeclHandler (void *pUserData, const XML_Char *pszVersion, const XML_Char *pszEncoding, int nStandalone)
Protected Attributes inherited from CExpatTemplate< CExpat >
XML_Parser	mParser

Detailed Description

Definition at line 315 of file CCopasiXMLParser.h.

Constructor & Destructor Documentation

CCopasiXMLParser::CCopasiXMLParser ( )

private

Constructor

CCopasiXMLParser::CCopasiXMLParser

(

CVersion &

version

)

Public constructor

Parameters

CVersion

& version

Definition at line 200 of file CCopasiXMLParser.cpp.

References CExpatTemplate< CExpat >::create(), CExpatTemplate< CExpat >::enableElementHandler(), mCommon, mElementHandlerStack, SCopasiXMLParserCommon::mParameterGroupLevel, SCopasiXMLParserCommon::pCompartmentGlyph, SCopasiXMLParserCommon::pCurrentLayout, SCopasiXMLParserCommon::pCurve, SCopasiXMLParserCommon::pFunction, SCopasiXMLParserCommon::pFunctionList, SCopasiXMLParserCommon::pGeneralGlyph, SCopasiXMLParserCommon::pGradient, SCopasiXMLParserCommon::pGroup, SCopasiXMLParserCommon::pGUI, SCopasiXMLParserCommon::pLayoutList, SCopasiXMLParserCommon::pLineEnding, SCopasiXMLParserCommon::pLineSegment, SCopasiXMLParserCommon::pListOfCurveElements, SCopasiXMLParserCommon::pMetaboliteGlyph, SCopasiXMLParserCommon::pMetaboliteReferenceGlyph, SCopasiXMLParserCommon::pModel, SCopasiXMLParserCommon::pPlotList, SCopasiXMLParserCommon::pReactionGlyph, SCopasiXMLParserCommon::pRenderInformation, SCopasiXMLParserCommon::pReport, SCopasiXMLParserCommon::pReportList, SCopasiXMLParserCommon::pStyle, SCopasiXMLParserCommon::pTaskList, SCopasiXMLParserCommon::pText, SCopasiXMLParserCommon::pTextGlyph, SCopasiXMLParserCommon::pVersion, and SCopasiXMLParserCommon::UnmappedKeyParameters.

                                                     :
  CExpat(),
  mCommon(),
  mCharacterData(),
  mCharacterDataEncoding(CCopasiXMLInterface::none),
  mElementHandlerStack(),
  mUnknownElement(*this, this->mCommon),
  mCharacterDataElement(*this, this->mCommon),
  mListOfUnsupportedAnnotationsElement(*this, this->mCommon),
  mCommentElement(*this, this->mCommon),
  mMiriamAnnotationElement(*this, this->mCommon)
  // Attributes
{
  create();

  mElementHandlerStack.push(new COPASIElement(*this, mCommon));

  //  mCommon.pParser = this;
  mCommon.pVersion = & version;
  mCommon.pModel = NULL;
  mCommon.pFunctionList = NULL;
  mCommon.pFunction = NULL;
  mCommon.pTaskList = NULL;
  mCommon.pReportList = NULL;
  mCommon.pReport = NULL;
  mCommon.mParameterGroupLevel = -1;
  mCommon.pGUI = NULL;

  mCommon.pPlotList = NULL;
  mCommon.UnmappedKeyParameters.clear();

  mCommon.pLayoutList = NULL;
  mCommon.pCurrentLayout = NULL;
  mCommon.pCompartmentGlyph = NULL;
  mCommon.pMetaboliteGlyph = NULL;
  mCommon.pReactionGlyph = NULL;
  mCommon.pTextGlyph = NULL;
  //mCommon.pAdditionalGO = NULL;
  mCommon.pGeneralGlyph = NULL;
  mCommon.pCurve = NULL;
  mCommon.pLineSegment = NULL;
  mCommon.pMetaboliteReferenceGlyph = NULL;
  mCommon.pRenderInformation = NULL;
  mCommon.pGradient = NULL;
  mCommon.pLineEnding = NULL;
  mCommon.pStyle = NULL;
  mCommon.pGroup = NULL;
  mCommon.pText = NULL;
  mCommon.pListOfCurveElements = NULL;

  enableElementHandler(true);
}

CCopasiXMLParser::~CCopasiXMLParser

(

)

Destructor

Definition at line 253 of file CCopasiXMLParser.cpp.

References mElementHandlerStack.

{
  // We need to destruct the top most element on the stack since it has been
  // allocated in the constructor.
  if (mElementHandlerStack.empty())
    return;

  while (mElementHandlerStack.size() > 1)
    mElementHandlerStack.pop();

  delete mElementHandlerStack.top();
}

Member Function Documentation

void CCopasiXMLParser::enableCharacterDataHandler

(

bool

fEnable = true

)

Enable/Disable the character data handler

Parameters

bool	fEnable (Default: true)

Definition at line 317 of file CCopasiXMLParser.cpp.

References CExpatTemplate< CExpat >::enableCharacterDataHandler(), and mCharacterData.

Referenced by getCharacterData().

{
  mCharacterData.erase();
  CExpat::enableCharacterDataHandler(fEnable);
}

std::string CCopasiXMLParser::getCharacterData	(	const std::string &	toBeStripped = "",
		const std::string &	join = " "
	)

Retrieve the data. Any sequence of toBeStripped characters is replaced by a single join character. The default is no stripping.

Parameters

const	std::string & toBeStripped (default: "")
const	std::string & join (default: " ")

Returns

std::string data

Definition at line 332 of file CCopasiXMLParser.cpp.

References enableCharacterDataHandler(), and mCharacterData.

{
  std::string tmp(mCharacterData);

  enableCharacterDataHandler(false); /* Resetting for future calls. */

  if (toBeStripped == "") return tmp;

  std::string::size_type Start = tmp.find_first_of(toBeStripped);
  std::string::size_type End = 0;

  while (Start != std::string::npos)
    {
      End = tmp.find_first_not_of(toBeStripped, Start);

      tmp.erase(Start, End - Start);

      if (Start && End != std::string::npos)
        {
          tmp.insert(Start, join);
          Start += join.length();
        }

      Start = tmp.find_first_of(toBeStripped, Start);
    }

  return tmp;
}

const CCopasiParameterGroup * CCopasiXMLParser::getCurrentGroup

(

)

const

Retrieve a pointer to the current group if available

Returns

const CCopasiParameterGroup * currentGroup

Definition at line 392 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pCurrentParameter.

Referenced by CConfigurationFile::CXML::load().

{return dynamic_cast< const CCopasiParameterGroup * >(mCommon.pCurrentParameter);}

CListOfLayouts * CCopasiXMLParser::getLayoutList

(

)

const

Retrieve the list of loaded layouts

Returns

CListOfLayouts * pLayoutList

Definition at line 389 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pLayoutList.

Referenced by CCopasiXML::load().

{return mCommon.pLayoutList;}

CModel * CCopasiXMLParser::getModel

(

)

const

Retrieve the loaded model functions

Returns

CModel * pModel

Definition at line 371 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pModel.

Referenced by CCopasiXML::load().

{return mCommon.pModel;}

const CCopasiObject * CCopasiXMLParser::getObjectFromName

(

const std::string &

cn

)

const

Retrieve an object by its CN within the context of the parser

Parameters

const

std::string & cn

Returns

const CCopasiObject * pObject

Definition at line 395 of file CCopasiXMLParser.cpp.

References CCopasiContainer::getObject(), CCopasiVectorN< CType >::getObject(), CCopasiObjectName::getRemainder(), mCommon, SCopasiXMLParserCommon::pFunctionList, SCopasiXMLParserCommon::pModel, and SCopasiXMLParserCommon::pTaskList.

{
  const CObjectInterface * pObject = NULL;
  CCopasiObjectName CN = CCopasiObjectName(cn).getRemainder();

  if (mCommon.pModel &&
      (pObject = mCommon.pModel->getObject(CN)))
    return static_cast< const CCopasiObject * >(pObject);

  if (mCommon.pTaskList &&
      (pObject = mCommon.pTaskList->getObject(CN)))
    return static_cast< const CCopasiObject * >(pObject);

  if (mCommon.pFunctionList &&
      (pObject = mCommon.pFunctionList->getObject(CN)))
    return static_cast< const CCopasiObject * >(pObject);

  return NULL;
}

COutputDefinitionVector * CCopasiXMLParser::getPlotList

(

)

const

Retrieve the list of loaded functions

Returns

COutputDefinitionVector * pPlotList

Definition at line 380 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pPlotList.

Referenced by CCopasiXML::load().

{return mCommon.pPlotList;}

CReportDefinitionVector * CCopasiXMLParser::getReportList

(

)

const

Retrieve the list of loaded reports

Returns

CReportDefinitionVector * pReportList

Definition at line 374 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pReportList.

Referenced by CCopasiXML::load().

{return mCommon.pReportList;}

CCopasiVectorN< CCopasiTask > * CCopasiXMLParser::getTaskList

(

)

const

Retrieve the list of loaded functions

Returns

CCopasiVectorN< CTask > * pTaskList

Definition at line 377 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pTaskList.

Referenced by CCopasiXML::load().

{return mCommon.pTaskList;}

void CCopasiXMLParser::onCharacterData ( const XML_Char *  pszData, int  nLength  )

virtual

Character data handler

Parameters

const	XML_Char *pszData
int	nLength

Reimplemented from CExpat.

Definition at line 323 of file CCopasiXMLParser.cpp.

References CCopasiXMLInterface::encode(), mCharacterData, and mCharacterDataEncoding.

{
  std::string Data;
  Data.append(pszData, nLength);

  mCharacterData += CCopasiXMLInterface::encode(Data, mCharacterDataEncoding);
}

void CCopasiXMLParser::onEndElement ( const XML_Char *  pszName )

virtual

End element handler

Parameters

const

XML_Char *pszName

Reimplemented from CExpat.

Definition at line 273 of file CCopasiXMLParser.cpp.

References mElementHandlerStack.

{
  if (mElementHandlerStack.size() != 0)
    mElementHandlerStack.top()->end(pszName);
  else
    return;
}

void CCopasiXMLParser::onSkippedEntityHandler ( const XML_Char *  entityName, int  is_parameter_entity  )

virtual

Skipped entity handler This is called in two situations: 1) An entity reference is encountered for which no declaration has been read and this is not an error. 2) An internal entity reference is read, but not expanded, because XML_SetDefaultHandler has been called. Note: skipped parameter entities in declarations and skipped general entities in attribute values cannot be reported, because the event would be out of sync with the reporting of the declarations or attribute values

Parameters

const	XML_Char *entityName
int	is_parameter_entity

Reimplemented from CExpat.

Definition at line 307 of file CCopasiXMLParser.cpp.

References mCharacterData.

{
  mCharacterData += "&";
  mCharacterData += entityName;
  mCharacterData += ";";

  return;
}

void CCopasiXMLParser::onStartElement ( const XML_Char *  pszName, const XML_Char **  papszAttrs  )

virtual

Start element handler

Parameters

const	XML_Char *pszName
const	XML_Char **papszAttrs

Reimplemented from CExpat.

Definition at line 266 of file CCopasiXMLParser.cpp.

References mElementHandlerStack.

{
  assert(mElementHandlerStack.size() != 0);
  mElementHandlerStack.top()->start(pszName, papszAttrs);
}

void CCopasiXMLParser::popElementHandler

(

)

Pop the element handler form the stack.

Definition at line 365 of file CCopasiXMLParser.cpp.

References mElementHandlerStack.

{mElementHandlerStack.pop();}

void CCopasiXMLParser::pushElementHandler

(

CXMLElementHandler< CCopasiXMLParser, SCopasiXMLParserCommon > *

elementHandler

)

Push the element handler on the stack.

Parameters

CXMLHandler<

CCopasiXMLParser > elementHandler

Definition at line 362 of file CCopasiXMLParser.cpp.

References mElementHandlerStack.

{mElementHandlerStack.push(elementHandler);}

void CCopasiXMLParser::setDatamodel

(

CCopasiDataModel *

pDataModel

)

Set the datamodel.

Parameters

CCopasiDataModel*

pDataModel

Definition at line 10977 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pDataModel.

Referenced by CCopasiXML::load().

{
  this->mCommon.pDataModel = pDataModel;
}

void CCopasiXMLParser::setFunctionList

(

CCopasiVectorN< CFunction > *

pFunctionList

)

Set the list of loaded functions

Parameters

CCopasiVectorN<

CFunction > * pFunctionList

Definition at line 368 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pFunctionList.

Referenced by CCopasiXML::load().

{mCommon.pFunctionList = pFunctionList;}

void CCopasiXMLParser::setGUI

(

SCopasiXMLGUI *

pGUI

)

Set the GUI information to be saved

Parameters

SCopasiXMLGUI

* pGUI

Definition at line 383 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pGUI.

Referenced by CCopasiXML::load().

{mCommon.pGUI = pGUI;}

void CCopasiXMLParser::setLayoutList

(

CListOfLayouts *

pLayoutList

)

Set the list of loaded layouts

Parameters

CListOfLayouts

* pLayoutList

Definition at line 386 of file CCopasiXMLParser.cpp.

References mCommon, and SCopasiXMLParserCommon::pLayoutList.

Referenced by CCopasiXML::load().

{mCommon.pLayoutList = pLayoutList;}

Member Data Documentation

std::string CCopasiXMLParser::mCharacterData

private

The character data.

Definition at line 327 of file CCopasiXMLParser.h.

Referenced by enableCharacterDataHandler(), getCharacterData(), onCharacterData(), and onSkippedEntityHandler().

CharacterDataElement CCopasiXMLParser::mCharacterDataElement

The character data element handler

Definition at line 491 of file CCopasiXMLParser.h.

CCopasiXMLInterface::EncodingType CCopasiXMLParser::mCharacterDataEncoding

private

The character data.

Definition at line 332 of file CCopasiXMLParser.h.

Referenced by onCharacterData().

CommentElement CCopasiXMLParser::mCommentElement

The comment element handler

Definition at line 1795 of file CCopasiXMLParser.h.

SCopasiXMLParserCommon CCopasiXMLParser::mCommon

private

Attributes accessible through the whole parser.

Definition at line 322 of file CCopasiXMLParser.h.

Referenced by CCopasiXMLParser(), CCopasiXMLParser::ModelParameterElement::end(), CCopasiXMLParser::ModelParameterGroupElement::end(), CCopasiXMLParser::ModelParameterSetElement::end(), CCopasiXMLParser::ListOfModelParameterSetsElement::end(), CCopasiXMLParser::CharacterDataElement::end(), CCopasiXMLParser::InitialStateElement::end(), CCopasiXMLParser::KineticLawElement::end(), CCopasiXMLParser::ReactionElement::end(), CCopasiXMLParser::MetaboliteElement::end(), CCopasiXMLParser::CompartmentElement::end(), CCopasiXMLParser::ModelValueElement::end(), CCopasiXMLParser::EventElement::end(), CCopasiXMLParser::AssignmentElement::end(), CCopasiXMLParser::CommentElement::end(), CCopasiXMLParser::ModelElement::end(), CCopasiXMLParser::PlotItemElement::end(), CCopasiXMLParser::ListOfChannelsElement::end(), CCopasiXMLParser::ListOfPlotItemsElement::end(), CCopasiXMLParser::PlotSpecificationElement::end(), CCopasiXMLParser::ListOfPlotsElement::end(), CCopasiXMLParser::ListOfTasksElement::end(), CCopasiXMLParser::ParameterTextElement::end(), CCopasiXMLParser::ParameterGroupElement::end(), CCopasiXMLParser::TaskElement::end(), CCopasiXMLParser::ListOfReportsElement::end(), CCopasiXMLParser::HeaderElement::end(), CCopasiXMLParser::BodyElement::end(), CCopasiXMLParser::FooterElement::end(), CCopasiXMLParser::TableElement::end(), CCopasiXMLParser::ReportElement::end(), CCopasiXMLParser::COPASIElement::end(), CCopasiXMLParser::ListOfFunctionsElement::end(), CCopasiXMLParser::ListOfParameterDescriptionsElement::end(), CCopasiXMLParser::FunctionElement::end(), CCopasiXMLParser::MiriamAnnotationElement::end(), CCopasiXMLParser::CurveElement::end(), CCopasiXMLParser::ListOfLayoutsElement::end(), CCopasiXMLParser::LinearGradientElement::end(), CCopasiXMLParser::RadialGradientElement::end(), CCopasiXMLParser::LineEndingElement::end(), CCopasiXMLParser::TextElement::end(), CCopasiXMLParser::RenderCurveElement::end(), CCopasiXMLParser::PolygonElement::end(), CCopasiXMLParser::LocalStyleElement::end(), CCopasiXMLParser::GlobalStyleElement::end(), CCopasiXMLParser::LocalRenderInformationElement::end(), CCopasiXMLParser::GlobalRenderInformationElement::end(), CCopasiXMLParser::GroupElement::end(), getCurrentGroup(), getLayoutList(), getModel(), getObjectFromName(), getPlotList(), getReportList(), getTaskList(), setDatamodel(), CCopasiXMLParser::ParameterGroupElement::setDerivedElement(), setFunctionList(), setGUI(), setLayoutList(), CCopasiXMLParser::ModelParameterElement::start(), CCopasiXMLParser::ModelParameterGroupElement::start(), CCopasiXMLParser::ListOfUnsupportedAnnotationsElement::start(), CCopasiXMLParser::ModelParameterSetElement::start(), CCopasiXMLParser::ListOfModelParameterSetsElement::start(), CCopasiXMLParser::StateTemplateVariableElement::start(), CCopasiXMLParser::StateTemplateElement::start(), CCopasiXMLParser::SourceParameterElement::start(), CCopasiXMLParser::CallParameterElement::start(), CCopasiXMLParser::ListOfCallParametersElement::start(), CCopasiXMLParser::KineticLawElement::start(), CCopasiXMLParser::ConstantElement::start(), CCopasiXMLParser::ListOfConstantsElement::start(), CCopasiXMLParser::ModifierElement::start(), CCopasiXMLParser::ListOfModifiersElement::start(), CCopasiXMLParser::ProductElement::start(), CCopasiXMLParser::ListOfProductsElement::start(), CCopasiXMLParser::SubstrateElement::start(), CCopasiXMLParser::ListOfSubstratesElement::start(), CCopasiXMLParser::ReactionElement::start(), CCopasiXMLParser::ListOfReactionsElement::start(), CCopasiXMLParser::MetaboliteElement::start(), CCopasiXMLParser::ListOfMetabolitesElement::start(), CCopasiXMLParser::CompartmentElement::start(), CCopasiXMLParser::ListOfCompartmentsElement::start(), CCopasiXMLParser::ModelValueElement::start(), CCopasiXMLParser::ListOfModelValuesElement::start(), CCopasiXMLParser::ListOfAssignmentsElement::start(), CCopasiXMLParser::EventElement::start(), CCopasiXMLParser::ListOfEventsElement::start(), CCopasiXMLParser::AssignmentElement::start(), CCopasiXMLParser::ModelElement::start(), CCopasiXMLParser::ChannelSpecElement::start(), CCopasiXMLParser::PlotItemElement::start(), CCopasiXMLParser::ListOfChannelsElement::start(), CCopasiXMLParser::ListOfPlotItemsElement::start(), CCopasiXMLParser::PlotSpecificationElement::start(), CCopasiXMLParser::ListOfPlotsElement::start(), CCopasiXMLParser::ListOfTasksElement::start(), CCopasiXMLParser::ReportInstanceElement::start(), CCopasiXMLParser::ParameterElement::start(), CCopasiXMLParser::ParameterTextElement::start(), CCopasiXMLParser::ParameterGroupElement::start(), CCopasiXMLParser::MethodElement::start(), CCopasiXMLParser::TaskElement::start(), CCopasiXMLParser::ListOfReportsElement::start(), CCopasiXMLParser::ObjectElement::start(), CCopasiXMLParser::HeaderElement::start(), CCopasiXMLParser::BodyElement::start(), CCopasiXMLParser::FooterElement::start(), CCopasiXMLParser::TableElement::start(), CCopasiXMLParser::ReportElement::start(), CCopasiXMLParser::COPASIElement::start(), CCopasiXMLParser::ListOfFunctionsElement::start(), CCopasiXMLParser::MathMLElement::start(), CCopasiXMLParser::ParameterDescriptionElement::start(), CCopasiXMLParser::ListOfParameterDescriptionsElement::start(), CCopasiXMLParser::FunctionElement::start(), CCopasiXMLParser::GUIElement::start(), CCopasiXMLParser::ListOfSlidersElement::start(), CCopasiXMLParser::SliderElement::start(), CCopasiXMLParser::CurveElement::start(), CCopasiXMLParser::CompartmentGlyphElement::start(), CCopasiXMLParser::ListOfCompartmentGlyphsElement::start(), CCopasiXMLParser::MetaboliteGlyphElement::start(), CCopasiXMLParser::ListOfMetabGlyphsElement::start(), CCopasiXMLParser::MetaboliteReferenceGlyphElement::start(), CCopasiXMLParser::ListOfMetaboliteReferenceGlyphsElement::start(), CCopasiXMLParser::ReactionGlyphElement::start(), CCopasiXMLParser::ListOfReactionGlyphsElement::start(), CCopasiXMLParser::TextGlyphElement::start(), CCopasiXMLParser::ListOfTextGlyphsElement::start(), CCopasiXMLParser::AdditionalGOElement::start(), CCopasiXMLParser::ListOfAdditionalGOsElement::start(), CCopasiXMLParser::LayoutElement::start(), CCopasiXMLParser::ListOfLayoutsElement::start(), CCopasiXMLParser::SBMLReferenceElement::start(), CCopasiXMLParser::SBMLMapElement::start(), CCopasiXMLParser::GradientStopElement::start(), CCopasiXMLParser::LinearGradientElement::start(), CCopasiXMLParser::RadialGradientElement::start(), CCopasiXMLParser::ColorDefinitionElement::start(), CCopasiXMLParser::ListOfColorDefinitionsElement::start(), CCopasiXMLParser::ListOfGradientDefinitionsElement::start(), CCopasiXMLParser::ListOfLineEndingsElement::start(), CCopasiXMLParser::LineEndingElement::start(), CCopasiXMLParser::ImageElement::start(), CCopasiXMLParser::RectangleElement::start(), CCopasiXMLParser::EllipseElement::start(), CCopasiXMLParser::TextElement::start(), CCopasiXMLParser::RenderCurveElement::start(), CCopasiXMLParser::PolygonElement::start(), CCopasiXMLParser::ListOfCurveElementsElement::start(), CCopasiXMLParser::CurveElementElement::start(), CCopasiXMLParser::LocalStyleElement::start(), CCopasiXMLParser::GlobalStyleElement::start(), CCopasiXMLParser::ListOfLocalStylesElement::start(), CCopasiXMLParser::ListOfGlobalStylesElement::start(), CCopasiXMLParser::ListOfLocalRenderInformationElement::start(), CCopasiXMLParser::ListOfGlobalRenderInformationElement::start(), CCopasiXMLParser::LocalRenderInformationElement::start(), CCopasiXMLParser::GlobalRenderInformationElement::start(), CCopasiXMLParser::GroupElement::start(), and CCopasiXMLParser::BoundingBoxElement::start().

std::stack< CXMLElementHandler< CCopasiXMLParser, SCopasiXMLParserCommon > * > CCopasiXMLParser::mElementHandlerStack

private

The element handler stack

Definition at line 337 of file CCopasiXMLParser.h.

Referenced by CCopasiXMLParser(), onEndElement(), onStartElement(), popElementHandler(), pushElementHandler(), and ~CCopasiXMLParser().

ListOfUnsupportedAnnotationsElement CCopasiXMLParser::mListOfUnsupportedAnnotationsElement

Definition at line 495 of file CCopasiXMLParser.h.

MiriamAnnotationElement CCopasiXMLParser::mMiriamAnnotationElement

The Miriam Annotation Element handler

Definition at line 3159 of file CCopasiXMLParser.h.

UnknownElement CCopasiXMLParser::mUnknownElement

The unknown element handler

Definition at line 440 of file CCopasiXMLParser.h.

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

• CCopasiXMLParser.h
• CCopasiXMLParser.cpp