COPASI API  4.40.278
Public Member Functions | Static Public Member Functions | Static Private Member Functions | List of all members
CMMLOutput Class Reference

#include <CMMLOutput.h>

Public Member Functions

 CMMLOutput ()
 

Static Public Member Functions

static void writeDifferentialEquations (std::ostream &mml, CModel *model, bool localParameterNumbers, bool expand, bool expandFull)
 

Static Private Member Functions

static void createParameterMapping (const CReaction *pReac, std::vector< std::vector< std::string > > &params, bool numbers)
 
static std::set< std::string > listReactionsForMetab (const CModel *model, const std::string &key)
 
static void writeLHS (std::ostream &out, const std::string &metabName, const std::string &compName, size_t l)
 
static void writeLHS_ModelValue (std::ostream &out, const std::string &valueName, size_t l)
 
static void writeRHS (std::ostream &out, const CMetab *pMetab, const CReaction *pReac, bool numbers, bool expand, bool expandFull, size_t l)
 
static void writeRHS_ModelEntity (std::ostream &out, const CModelEntity *pEntity, bool expandFull, size_t l)
 

Detailed Description

This class handles the output of the differential equations as presentation MathML

Constructor & Destructor Documentation

◆ CMMLOutput()

CMMLOutput::CMMLOutput ( )

Member Function Documentation

◆ createParameterMapping()

void CMMLOutput::createParameterMapping ( const CReaction *  pReac,
std::vector< std::vector< std::string > > &  params,
bool  numbers 
)
staticprivate

References CMathMl::fixName(), CFunctionParameter::FLOAT64, CReaction::getFunction(), CReaction::getFunctionParameters(), CDataObject::getObjectDisplayName(), CDataObject::getObjectName(), CReaction::getParameterObjects(), CReaction::getParameterValue(), CReaction::isLocalParameter(), CFunctionParameter::MODIFIER, CFunctionParameter::PARAMETER, CFunctionParameter::PRODUCT, CFunctionParameters::size(), CFunctionParameter::SUBSTRATE, CFunctionParameter::TIME, CFunctionParameter::VARIABLE, CFunctionParameter::VFLOAT64, and CFunctionParameter::VOLUME.

Referenced by writeRHS().

◆ listReactionsForMetab()

std::set< std::string > CMMLOutput::listReactionsForMetab ( const CModel *  model,
const std::string &  key 
)
staticprivate

References CModel::getReactions(), and CDataVector< CType >::size().

Referenced by writeDifferentialEquations().

◆ writeDifferentialEquations()

void CMMLOutput::writeDifferentialEquations ( std::ostream &  mml,
CModel *  model,
bool  localParameterNumbers,
bool  expand,
bool  expandFull 
)
static

References CModelEntity::ASSIGNMENT, CMathMl::fixName(), CKeyFactory::get(), CModel::getCompartments(), CDataObject::getKey(), CRootContainer::getKeyFactory(), CModel::getMetabolites(), CModel::getModelValues(), CDataObject::getObjectDisplayName(), CDataObject::getObjectName(), listReactionsForMetab(), CModelEntity::ODE, CModelEntity::REACTIONS, CDataVector< CType >::size(), SPC, writeLHS(), writeLHS_ModelValue(), writeRHS(), and writeRHS_ModelEntity().

◆ writeLHS()

void CMMLOutput::writeLHS ( std::ostream &  out,
const std::string &  metabName,
const std::string &  compName,
size_t  l 
)
staticprivate

References CMathMl::fixName(), and SPC.

Referenced by writeDifferentialEquations().

◆ writeLHS_ModelValue()

void CMMLOutput::writeLHS_ModelValue ( std::ostream &  out,
const std::string &  valueName,
size_t  l 
)
staticprivate

References CMathMl::fixName(), and SPC.

Referenced by writeDifferentialEquations().

◆ writeRHS()

void CMMLOutput::writeRHS ( std::ostream &  out,
const CMetab *  pMetab,
const CReaction *  pReac,
bool  numbers,
bool  expand,
bool  expandFull,
size_t  l 
)
staticprivate

References C_FLOAT64, CReaction::ConcentrationPerTime, createParameterMapping(), CMathMl::fixName(), CChemEq::getBalances(), CReaction::getChemEq(), CReaction::getEffectiveKineticLawUnitType(), CReaction::getFunction(), CModelEntity::getKey(), CDataObject::getObjectName(), CReaction::getScalingCompartment(), CDataVector< CType >::size(), SPC, and CFunction::writeMathML().

Referenced by writeDifferentialEquations().

◆ writeRHS_ModelEntity()

void CMMLOutput::writeRHS_ModelEntity ( std::ostream &  out,
const CModelEntity *  pEntity,
bool  expandFull,
size_t  l 
)
staticprivate

References CModelEntity::getExpressionPtr(), SPC, and CExpression::writeMathML().

Referenced by writeDifferentialEquations().

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