parPE C++ API¶
parPE C++ library functions
Class Hierarchy¶
-
- Namespace parpe
- Struct JobData
- Class AmiciSimulationRunner
- Class AmiciSummedGradientFunction
- Class AnalyticalParameterHdf5Reader
- Class AnalyticalParameterProvider
- Class AnalyticalParameterProviderDefault
- Class CostFunction
- Class CpuTimer
- Class GradientFunction
- Class HDF5Exception
- Class HierarchicalOptimizationProblemWrapper
- Class HierarchicalOptimizationReporter
- Class HierarchicalOptimizationWrapper
- Template Class InverseUniqueLock
- Class LearningRateUpdater
- Class LinearModel
- Class LinearModelMSE
- Class LoadBalancerWorker
- Class LocalOptimizationIpoptTNLP
- Class Logger
- Class MeanSquaredError
- Template Class MinibatchOptimizationProblem
- Template Class MinibatchOptimizer
- Template Class Model
- Class MultiConditionDataProvider
- Class MultiConditionDataProviderDefault
- Class MultiConditionDataProviderHDF5
- Class MultiConditionProblem
- Class MultiConditionProblemMultiStartOptimizationProblem
- Class MultiStartOptimization
- Class MultiStartOptimizationProblem
- Class OptimizationApplication
- Class OptimizationOptions
- Class OptimizationProblem
- Class OptimizationProblemImpl
- Class OptimizationReporter
- Class OptimizationResultWriter
- Class Optimizer
- Class OptimizerCeres
- Class OptimizerDlibLineSearch
- Class OptimizerFides
- Class OptimizerFsqp
- Class OptimizerIpOpt
- Class OptimizerToms611TrustRegionSumsl
- Class ParameterUpdater
- Class ParameterUpdaterAdam
- Class ParameterUpdaterAdamClassic
- Class ParameterUpdaterMomentum
- Class ParameterUpdaterRmsProp
- Class ParameterUpdaterVanilla
- Class ParPEException
- Class SimulationResultWriter
- Class StandaloneSimulator
- Template Class SummedGradientFunction
- Template Class SummedGradientFunctionGradientFunctionAdapter
- Class WallTimer
- Enum ErrorModel
- Enum FunctionEvaluationStatus
- Enum interceptType
- Enum learningRateInterp
- Enum loglevel
- Enum minibatchExitStatus
- Enum optimizerName
- Namespace parpe
File Hierarchy¶
-
- Directory include
- Directory parpeamici
- Directory parpecommon
- File costFunction.h
- File functions.h
- File hdf5Misc.h
- File logging.h
- File misc.h
- File model.h
- File parpeException.h
- Directory parpeloadbalancer
- File loadBalancerMaster.h
- File loadBalancerWorker.h
- Directory parpeoptimization
- File localOptimizationCeres.h
- File localOptimizationDlib.h
- File localOptimizationFides.h
- File localOptimizationFsqp.h
- File localOptimizationIpopt.h
- File localOptimizationIpoptTNLP.h
- File localOptimizationToms611.h
- File minibatchOptimization.h
- File multiStartOptimization.h
- File optimizationOptions.h
- File optimizationProblem.h
- File optimizationResultWriter.h
- File optimizer.h
- Directory include
Full API¶
Namespaces¶
Classes and Structs¶
- Struct AmiciSimulationRunner::AmiciResultPackageSimple
- Nested Relationships
- Struct Documentation
AmiciResultPackageSimple
AmiciResultPackageSimple::AmiciResultPackageSimple()
AmiciResultPackageSimple::llh
AmiciResultPackageSimple::simulationTimeSeconds
AmiciResultPackageSimple::gradient
AmiciResultPackageSimple::modelOutput
AmiciResultPackageSimple::modelSigmas
AmiciResultPackageSimple::modelStates
AmiciResultPackageSimple::status
- Class AmiciSimulationRunner
- Nested Relationships
- Class Documentation
AmiciSimulationRunner
AmiciSimulationRunner::messageHandlerFunc
AmiciSimulationRunner::callbackJobFinishedType
AmiciSimulationRunner::callbackAllFinishedType
AmiciSimulationRunner::AmiciSimulationRunner()
AmiciSimulationRunner::AmiciSimulationRunner()
AmiciSimulationRunner::runSharedMemory()
AmiciSimulationRunner::AmiciResultPackageSimple
AmiciSimulationRunner::AmiciResultPackageSimple::AmiciResultPackageSimple()
AmiciSimulationRunner::AmiciResultPackageSimple::llh
AmiciSimulationRunner::AmiciResultPackageSimple::simulationTimeSeconds
AmiciSimulationRunner::AmiciResultPackageSimple::gradient
AmiciSimulationRunner::AmiciResultPackageSimple::modelOutput
AmiciSimulationRunner::AmiciResultPackageSimple::modelSigmas
AmiciSimulationRunner::AmiciResultPackageSimple::modelStates
AmiciSimulationRunner::AmiciResultPackageSimple::status
AmiciSimulationRunner::AmiciWorkPackageSimple
AmiciSimulationRunner::AmiciWorkPackageSimple::AmiciWorkPackageSimple()
AmiciSimulationRunner::AmiciWorkPackageSimple::optimizationParameters
AmiciSimulationRunner::AmiciWorkPackageSimple::sensitivityOrder
AmiciSimulationRunner::AmiciWorkPackageSimple::conditionIndices
AmiciSimulationRunner::AmiciWorkPackageSimple::logPrefix
- Class AmiciSummedGradientFunction
- Inheritance Relationships
- Class Documentation
AmiciSummedGradientFunction
AmiciSummedGradientFunction::WorkPackage
AmiciSummedGradientFunction::ResultPackage
AmiciSummedGradientFunction::ResultMap
AmiciSummedGradientFunction::AmiciSummedGradientFunction()
AmiciSummedGradientFunction::~AmiciSummedGradientFunction()
AmiciSummedGradientFunction::evaluate()
AmiciSummedGradientFunction::evaluate()
AmiciSummedGradientFunction::numParameters()
AmiciSummedGradientFunction::getParameterIds()
AmiciSummedGradientFunction::getModelOutputsAndSigmas()
AmiciSummedGradientFunction::getAllMeasurements()
AmiciSummedGradientFunction::messageHandler()
AmiciSummedGradientFunction::getParameterScaling()
AmiciSummedGradientFunction::sendStates
AmiciSummedGradientFunction::AmiciSummedGradientFunction()
AmiciSummedGradientFunction::runSimulations()
AmiciSummedGradientFunction::aggregateLikelihood()
AmiciSummedGradientFunction::addSimulationGradientToObjectiveFunctionGradient()
AmiciSummedGradientFunction::setSensitivityOptions()
- Class AnalyticalParameterHdf5Reader
- Inheritance Relationships
- Class Documentation
AnalyticalParameterHdf5Reader
AnalyticalParameterHdf5Reader::AnalyticalParameterHdf5Reader()
AnalyticalParameterHdf5Reader::AnalyticalParameterHdf5Reader()
AnalyticalParameterHdf5Reader::AnalyticalParameterHdf5Reader()
AnalyticalParameterHdf5Reader::getConditionsForParameter()
AnalyticalParameterHdf5Reader::getObservablesForParameter()
AnalyticalParameterHdf5Reader::getOptimizationParameterIndices()
AnalyticalParameterHdf5Reader::~AnalyticalParameterHdf5Reader()
- Class AnalyticalParameterProviderDefault
- Inheritance Relationships
- Class Documentation
AnalyticalParameterProviderDefault
AnalyticalParameterProviderDefault::AnalyticalParameterProviderDefault()
AnalyticalParameterProviderDefault::getConditionsForParameter()
AnalyticalParameterProviderDefault::getObservablesForParameter()
AnalyticalParameterProviderDefault::getOptimizationParameterIndices()
AnalyticalParameterProviderDefault::conditionsForParameter
AnalyticalParameterProviderDefault::optimizationParameterIndices
AnalyticalParameterProviderDefault::mapping
- Class HierarchicalOptimizationProblemWrapper
- Inheritance Relationships
- Class Documentation
HierarchicalOptimizationProblemWrapper
HierarchicalOptimizationProblemWrapper::HierarchicalOptimizationProblemWrapper()
HierarchicalOptimizationProblemWrapper::HierarchicalOptimizationProblemWrapper()
HierarchicalOptimizationProblemWrapper::HierarchicalOptimizationProblemWrapper()
HierarchicalOptimizationProblemWrapper::HierarchicalOptimizationProblemWrapper()
HierarchicalOptimizationProblemWrapper::fillInitialParameters()
HierarchicalOptimizationProblemWrapper::fillParametersMin()
HierarchicalOptimizationProblemWrapper::fillParametersMax()
HierarchicalOptimizationProblemWrapper::fillFilteredParams()
HierarchicalOptimizationProblemWrapper::getOptimizationOptions()
HierarchicalOptimizationProblemWrapper::setOptimizationOptions()
HierarchicalOptimizationProblemWrapper::getReporter()
- Class HierarchicalOptimizationReporter
- Inheritance Relationships
- Class Documentation
HierarchicalOptimizationReporter
HierarchicalOptimizationReporter::HierarchicalOptimizationReporter()
HierarchicalOptimizationReporter::evaluate()
HierarchicalOptimizationReporter::iterationFinished()
HierarchicalOptimizationReporter::afterCostFunctionCall()
HierarchicalOptimizationReporter::finished()
HierarchicalOptimizationReporter::getFinalParameters()
HierarchicalOptimizationReporter::evaluate()
HierarchicalOptimizationReporter::hierarchical_wrapper_
HierarchicalOptimizationReporter::cached_full_parameters_
HierarchicalOptimizationReporter::cached_full_gradient_
- Class HierarchicalOptimizationWrapper
- Inheritance Relationships
- Class Documentation
HierarchicalOptimizationWrapper
HierarchicalOptimizationWrapper::HierarchicalOptimizationWrapper()
HierarchicalOptimizationWrapper::HierarchicalOptimizationWrapper()
HierarchicalOptimizationWrapper::HierarchicalOptimizationWrapper()
HierarchicalOptimizationWrapper::evaluate()
HierarchicalOptimizationWrapper::evaluate()
HierarchicalOptimizationWrapper::getDefaultScalingFactors()
HierarchicalOptimizationWrapper::getDefaultOffsetParameters()
HierarchicalOptimizationWrapper::getDefaultSigmaParameters()
HierarchicalOptimizationWrapper::getUnscaledModelOutputsAndSigmas()
HierarchicalOptimizationWrapper::computeAnalyticalScalings()
HierarchicalOptimizationWrapper::applyOptimalScalings()
HierarchicalOptimizationWrapper::computeAnalyticalOffsets()
HierarchicalOptimizationWrapper::computeAnalyticalSigmas()
HierarchicalOptimizationWrapper::applyOptimalOffsets()
HierarchicalOptimizationWrapper::fillInAnalyticalSigmas()
HierarchicalOptimizationWrapper::evaluateWithOptimalParameters()
HierarchicalOptimizationWrapper::numParameters()
HierarchicalOptimizationWrapper::numProportionalityFactors()
HierarchicalOptimizationWrapper::getProportionalityFactorIndices()
HierarchicalOptimizationWrapper::numOffsetParameters()
HierarchicalOptimizationWrapper::numSigmaParameters()
HierarchicalOptimizationWrapper::getOffsetParameterIndices()
HierarchicalOptimizationWrapper::getSigmaParameterIndices()
HierarchicalOptimizationWrapper::getAnalyticalParameterIndices()
HierarchicalOptimizationWrapper::getWrappedFunction()
HierarchicalOptimizationWrapper::getParameterIds()
HierarchicalOptimizationWrapper::evaluate()
- Class LearningRateUpdater
- Class Documentation
LearningRateUpdater
LearningRateUpdater::LearningRateUpdater()
LearningRateUpdater::updateLearningRate()
LearningRateUpdater::reduceLearningRate()
LearningRateUpdater::increaseLearningRate()
LearningRateUpdater::getCurrentLearningRate()
LearningRateUpdater::setReductionFactor()
LearningRateUpdater::setMaxEpochs()
LearningRateUpdater::setStartLearningRate()
LearningRateUpdater::setEndLearningRate()
- Class Documentation
- Class LocalOptimizationIpoptTNLP
- Inheritance Relationships
- Class Documentation
LocalOptimizationIpoptTNLP
LocalOptimizationIpoptTNLP::LocalOptimizationIpoptTNLP()
LocalOptimizationIpoptTNLP::~LocalOptimizationIpoptTNLP()
LocalOptimizationIpoptTNLP::get_nlp_info()
LocalOptimizationIpoptTNLP::get_bounds_info()
LocalOptimizationIpoptTNLP::get_starting_point()
LocalOptimizationIpoptTNLP::eval_f()
LocalOptimizationIpoptTNLP::eval_grad_f()
LocalOptimizationIpoptTNLP::eval_g()
LocalOptimizationIpoptTNLP::eval_jac_g()
LocalOptimizationIpoptTNLP::intermediate_callback()
LocalOptimizationIpoptTNLP::finalize_solution()
- Template Class MinibatchOptimizationProblem
- Inheritance Relationships
- Class Documentation
MinibatchOptimizationProblem
MinibatchOptimizationProblem::MinibatchOptimizationProblem()
MinibatchOptimizationProblem::MinibatchOptimizationProblem()
MinibatchOptimizationProblem::MinibatchOptimizationProblem()
MinibatchOptimizationProblem::~MinibatchOptimizationProblem()
MinibatchOptimizationProblem::getTrainingData()
MinibatchOptimizationProblem::getGradientFunction()
- Template Class MinibatchOptimizer
- Class Documentation
MinibatchOptimizer
MinibatchOptimizer::optimize()
MinibatchOptimizer::evaluate()
MinibatchOptimizer::finish()
MinibatchOptimizer::rescueInterceptor()
MinibatchOptimizer::handleStep()
MinibatchOptimizer::performLineSearch()
MinibatchOptimizer::parameterUpdater
MinibatchOptimizer::interceptor
MinibatchOptimizer::lineSearchSteps
MinibatchOptimizer::batchSize
MinibatchOptimizer::maxEpochs
MinibatchOptimizer::gradientNormThreshold
MinibatchOptimizer::learningRate
MinibatchOptimizer::learningRateUpdater
- Class Documentation
- Class MultiConditionDataProvider
- Inheritance Relationships
- Class Documentation
MultiConditionDataProvider
MultiConditionDataProvider::~MultiConditionDataProvider()
MultiConditionDataProvider::getNumberOfSimulationConditions()
MultiConditionDataProvider::getSimulationToOptimizationParameterMapping()
MultiConditionDataProvider::mapSimulationToOptimizationGradientAddMultiply()
MultiConditionDataProvider::mapAndSetOptimizationToSimulationVariables()
MultiConditionDataProvider::getParameterScaleOpt()
MultiConditionDataProvider::getParameterScaleOpt()
MultiConditionDataProvider::getParameterScaleSim()
MultiConditionDataProvider::getParameterScaleSim()
MultiConditionDataProvider::updateSimulationParametersAndScale()
MultiConditionDataProvider::getExperimentalDataForCondition()
MultiConditionDataProvider::getAllMeasurements()
MultiConditionDataProvider::getAllSigmas()
MultiConditionDataProvider::getNumOptimizationParameters()
MultiConditionDataProvider::getProblemParameterIds()
MultiConditionDataProvider::getModel()
MultiConditionDataProvider::getSolver()
- Class MultiConditionDataProviderDefault
- Inheritance Relationships
- Class Documentation
MultiConditionDataProviderDefault
MultiConditionDataProviderDefault::MultiConditionDataProviderDefault()
MultiConditionDataProviderDefault::~MultiConditionDataProviderDefault()
MultiConditionDataProviderDefault::getNumberOfSimulationConditions()
MultiConditionDataProviderDefault::getSimulationToOptimizationParameterMapping()
MultiConditionDataProviderDefault::mapSimulationToOptimizationGradientAddMultiply()
MultiConditionDataProviderDefault::mapAndSetOptimizationToSimulationVariables()
MultiConditionDataProviderDefault::getParameterScaleOpt()
MultiConditionDataProviderDefault::getParameterScaleOpt()
MultiConditionDataProviderDefault::getParameterScaleSim()
MultiConditionDataProviderDefault::getParameterScaleSim()
MultiConditionDataProviderDefault::updateSimulationParametersAndScale()
MultiConditionDataProviderDefault::getExperimentalDataForCondition()
MultiConditionDataProviderDefault::getAllMeasurements()
MultiConditionDataProviderDefault::getAllSigmas()
MultiConditionDataProviderDefault::getNumOptimizationParameters()
MultiConditionDataProviderDefault::getModel()
MultiConditionDataProviderDefault::getSolver()
MultiConditionDataProviderDefault::getProblemParameterIds()
MultiConditionDataProviderDefault::edata_
- Class MultiConditionDataProviderHDF5
- Inheritance Relationships
- Class Documentation
MultiConditionDataProviderHDF5
MultiConditionDataProviderHDF5::MultiConditionDataProviderHDF5()
MultiConditionDataProviderHDF5::MultiConditionDataProviderHDF5()
MultiConditionDataProviderHDF5::MultiConditionDataProviderHDF5()
MultiConditionDataProviderHDF5::MultiConditionDataProviderHDF5()
MultiConditionDataProviderHDF5::~MultiConditionDataProviderHDF5()
MultiConditionDataProviderHDF5::getNumberOfSimulationConditions()
MultiConditionDataProviderHDF5::getSimulationToOptimizationParameterMapping()
MultiConditionDataProviderHDF5::mapSimulationToOptimizationGradientAddMultiply()
MultiConditionDataProviderHDF5::mapAndSetOptimizationToSimulationVariables()
MultiConditionDataProviderHDF5::getParameterScaleOpt()
MultiConditionDataProviderHDF5::getParameterScaleOpt()
MultiConditionDataProviderHDF5::getParameterScaleSim()
MultiConditionDataProviderHDF5::getParameterScaleSim()
MultiConditionDataProviderHDF5::checkDataIntegrity()
MultiConditionDataProviderHDF5::readFixedSimulationParameters()
MultiConditionDataProviderHDF5::getExperimentalDataForCondition()
MultiConditionDataProviderHDF5::getAllMeasurements()
MultiConditionDataProviderHDF5::getAllSigmas()
MultiConditionDataProviderHDF5::getSigmaForSimulationIndex()
MultiConditionDataProviderHDF5::getMeasurementForSimulationIndex()
MultiConditionDataProviderHDF5::getOptimizationParametersLowerBounds()
MultiConditionDataProviderHDF5::getOptimizationParametersUpperBounds()
MultiConditionDataProviderHDF5::getNumOptimizationParameters()
MultiConditionDataProviderHDF5::getModel()
MultiConditionDataProviderHDF5::getSolver()
MultiConditionDataProviderHDF5::updateSimulationParametersAndScale()
MultiConditionDataProviderHDF5::copyInputData()
MultiConditionDataProviderHDF5::getSimAndPreeqConditions()
MultiConditionDataProviderHDF5::getReinitializationIndices()
MultiConditionDataProviderHDF5::getHdf5File()
MultiConditionDataProviderHDF5::setModel()
MultiConditionDataProviderHDF5::getProblemParameterIds()
MultiConditionDataProviderHDF5::updateFixedSimulationParameters()
- Class MultiConditionProblem
- Inheritance Relationships
- Class Documentation
MultiConditionProblem
MultiConditionProblem::MultiConditionProblem()
MultiConditionProblem::MultiConditionProblem()
MultiConditionProblem::MultiConditionProblem()
MultiConditionProblem::~MultiConditionProblem()
MultiConditionProblem::earlyStopping()
MultiConditionProblem::getDataProvider()
MultiConditionProblem::getResultWriter()
MultiConditionProblem::setInitialParameters()
MultiConditionProblem::setParametersMin()
MultiConditionProblem::setParametersMax()
MultiConditionProblem::fillParametersMin()
MultiConditionProblem::fillParametersMax()
MultiConditionProblem::fillInitialParameters()
MultiConditionProblem::getReporter()
MultiConditionProblem::getTrainingData()
- Class MultiConditionProblemMultiStartOptimizationProblem
- Inheritance Relationships
- Class Documentation
MultiConditionProblemMultiStartOptimizationProblem
MultiConditionProblemMultiStartOptimizationProblem::MultiConditionProblemMultiStartOptimizationProblem()
MultiConditionProblemMultiStartOptimizationProblem::getNumberOfStarts()
MultiConditionProblemMultiStartOptimizationProblem::restartOnFailure()
MultiConditionProblemMultiStartOptimizationProblem::getLocalProblem()
- Class OptimizationApplication
- Class Documentation
OptimizationApplication
OptimizationApplication::OptimizationApplication()
OptimizationApplication::~OptimizationApplication()
OptimizationApplication::initProblem()
OptimizationApplication::run()
OptimizationApplication::runMaster()
OptimizationApplication::runSingleProcess()
OptimizationApplication::OperationType
OptimizationApplication::finalizeTiming()
OptimizationApplication::processResultFilenameCommandLineArgument()
OptimizationApplication::isMaster()
OptimizationApplication::isWorker()
OptimizationApplication::parseCliOptionsPreMpiInit()
OptimizationApplication::parseCliOptionsPostMpiInit()
OptimizationApplication::printUsage()
OptimizationApplication::logParPEVersion()
OptimizationApplication::shortOptions
OptimizationApplication::longOptions
OptimizationApplication::dataFileName
OptimizationApplication::resultFileName
OptimizationApplication::first_start_idx
OptimizationApplication::multiStartOptimizationProblem
OptimizationApplication::problem
OptimizationApplication::h5File
OptimizationApplication::operationType
OptimizationApplication::loadBalancer
OptimizationApplication::withMPI
OptimizationApplication::initMPI()
- Class Documentation
- Class OptimizationOptions
- Class Documentation
OptimizationOptions
OptimizationOptions::OptimizationOptions()
OptimizationOptions::createOptimizer()
OptimizationOptions::toString()
OptimizationOptions::getIntOption()
OptimizationOptions::getDoubleOption()
OptimizationOptions::getStringOption()
OptimizationOptions::setOption()
OptimizationOptions::setOption()
OptimizationOptions::setOption()
OptimizationOptions::for_each()
OptimizationOptions::optimizer
OptimizationOptions::logFile
OptimizationOptions::printToStdout
OptimizationOptions::maxOptimizerIterations
OptimizationOptions::numStarts
OptimizationOptions::retryOptimization
OptimizationOptions::hierarchicalOptimization
OptimizationOptions::multistartsInParallel
OptimizationOptions::fromHDF5()
OptimizationOptions::fromHDF5()
OptimizationOptions::getStartingPoint()
- Class Documentation
- Class OptimizationProblem
- Inheritance Relationships
- Class Documentation
OptimizationProblem
OptimizationProblem::OptimizationProblem()
OptimizationProblem::OptimizationProblem()
OptimizationProblem::OptimizationProblem()
OptimizationProblem::~OptimizationProblem()
OptimizationProblem::fillInitialParameters()
OptimizationProblem::fillParametersMin()
OptimizationProblem::fillParametersMax()
OptimizationProblem::getOptimizationOptions()
OptimizationProblem::setOptimizationOptions()
OptimizationProblem::getReporter()
OptimizationProblem::cost_fun_
OptimizationProblem::logger_
- Class OptimizationProblemImpl
- Inheritance Relationships
- Class Documentation
OptimizationProblemImpl
OptimizationProblemImpl::fillParametersMin()
OptimizationProblemImpl::fillParametersMax()
OptimizationProblemImpl::setParametersMin()
OptimizationProblemImpl::setParametersMax()
OptimizationProblemImpl::setInitialParameters()
OptimizationProblemImpl::fillInitialParameters()
OptimizationProblemImpl::OptimizationProblem()
OptimizationProblemImpl::OptimizationProblem()
OptimizationProblemImpl::OptimizationProblem()
- Class OptimizationReporter
- Inheritance Relationships
- Class Documentation
OptimizationReporter
OptimizationReporter::OptimizationReporter()
OptimizationReporter::OptimizationReporter()
OptimizationReporter::evaluate()
OptimizationReporter::numParameters()
OptimizationReporter::starting()
OptimizationReporter::iterationFinished()
OptimizationReporter::beforeCostFunctionCall()
OptimizationReporter::afterCostFunctionCall()
OptimizationReporter::finished()
OptimizationReporter::getFinalCost()
OptimizationReporter::getFinalParameters()
OptimizationReporter::setGradientFunction()
OptimizationReporter::getParameterIds()
OptimizationReporter::result_writer_
OptimizationReporter::cpu_time_total_sec_
OptimizationReporter::cpu_time_iteration_sec_
OptimizationReporter::logger_
OptimizationReporter::printObjectiveFunctionFailureMessage()
OptimizationReporter::wall_timer_
OptimizationReporter::num_function_calls_
OptimizationReporter::num_iterations_
OptimizationReporter::num_parameters_
OptimizationReporter::started_
OptimizationReporter::grad_fun_
OptimizationReporter::have_cached_cost_
OptimizationReporter::have_cached_gradient_
OptimizationReporter::cached_gradient_
OptimizationReporter::cached_cost_
OptimizationReporter::cached_status_
OptimizationReporter::final_cost_
OptimizationReporter::cached_parameters_
OptimizationReporter::default_logger_prefix_
- Class OptimizationResultWriter
- Class Documentation
OptimizationResultWriter
OptimizationResultWriter::OptimizationResultWriter()
OptimizationResultWriter::OptimizationResultWriter()
OptimizationResultWriter::operator=()
OptimizationResultWriter::OptimizationResultWriter()
OptimizationResultWriter::~OptimizationResultWriter()
OptimizationResultWriter::logObjectiveFunctionEvaluation()
OptimizationResultWriter::logOptimizerIteration()
OptimizationResultWriter::setLoggingEachIteration()
OptimizationResultWriter::setLoggingEachFunctionEvaluation()
OptimizationResultWriter::starting()
OptimizationResultWriter::saveOptimizerResults()
OptimizationResultWriter::getH5File()
OptimizationResultWriter::getRootPath()
OptimizationResultWriter::setRootPath()
OptimizationResultWriter::logParametersEachFunctionEvaluation
OptimizationResultWriter::logGradientEachFunctionEvaluation
OptimizationResultWriter::logGradientEachIteration
OptimizationResultWriter::flushResultWriter()
- Class Documentation
- Class SimulationResultWriter
- Class Documentation
SimulationResultWriter
SimulationResultWriter::SimulationResultWriter()
SimulationResultWriter::SimulationResultWriter()
SimulationResultWriter::SimulationResultWriter()
SimulationResultWriter::SimulationResultWriter()
SimulationResultWriter::~SimulationResultWriter()
SimulationResultWriter::createDatasets()
SimulationResultWriter::createDatasets()
SimulationResultWriter::saveSimulationResults()
SimulationResultWriter::saveTimepoints()
SimulationResultWriter::saveMeasurements()
SimulationResultWriter::saveModelOutputs()
SimulationResultWriter::saveStates()
SimulationResultWriter::saveParameters()
SimulationResultWriter::saveLikelihood()
SimulationResultWriter::reopenFile()
SimulationResultWriter::saveX
SimulationResultWriter::saveLlh
SimulationResultWriter::saveYSim
SimulationResultWriter::saveYMes
SimulationResultWriter::save_parameters_
SimulationResultWriter::yMesPath
SimulationResultWriter::ySimPath
SimulationResultWriter::xPath
SimulationResultWriter::llhPath
SimulationResultWriter::timePath
SimulationResultWriter::parametersPath
- Class Documentation
- Template Class SummedGradientFunctionGradientFunctionAdapter
- Inheritance Relationships
- Class Documentation
SummedGradientFunctionGradientFunctionAdapter
SummedGradientFunctionGradientFunctionAdapter::SummedGradientFunctionGradientFunctionAdapter()
SummedGradientFunctionGradientFunctionAdapter::evaluate()
SummedGradientFunctionGradientFunctionAdapter::evaluate()
SummedGradientFunctionGradientFunctionAdapter::evaluate()
SummedGradientFunctionGradientFunctionAdapter::numParameters()
SummedGradientFunctionGradientFunctionAdapter::getParameterIds()
SummedGradientFunctionGradientFunctionAdapter::getWrappedFunction()