QUESO::MLSamplingLevelOptions Class Reference

This class provides options for each level of the Multilevel sequence generator if no input file is available. More...

#include <MLSamplingLevelOptions.h>

Public Member Functions
Constructor/Destructor methods
	MLSamplingLevelOptions (const BaseEnvironment &env, const char *prefix)
	Constructor: reads options from the input file. More...
virtual	~MLSamplingLevelOptions ()
	Destructor. More...
Misc method
const BaseEnvironment &	env () const
	Access to the environment. More...
I/O methods
void	scanOptionsValues (const MLSamplingLevelOptions *defaultOptions)
void	print (std::ostream &os) const

Public Attributes
std::string	m_prefix
std::string	m_help
	If non-empty string, print options and values to output file. More...
std::string	m_checkpointOutputFileName
	Name of checkpoint output file. More...
bool	m_stopAtEnd
	Stop at end of such level. More...
std::string	m_dataOutputFileName
	Name of generic output file. More...
bool	m_dataOutputAllowAll
	subEnvs that will write to generic output file. More...
std::set< unsigned int >	m_dataOutputAllowedSet
	subEnvs that will write to generic output file. More...
std::string	m_str1
	subEnvs that will write to generic output file. More...
unsigned int	m_loadBalanceAlgorithmId
	Perform load balancing with chosen algorithm (0 = no balancing). More...
double	m_loadBalanceTreshold
	Perform load balancing if load unbalancing ratio > threshold. More...
double	m_minEffectiveSizeRatio
	Minimum allowed effective size ratio wrt previous level. More...
double	m_maxEffectiveSizeRatio
	Maximum allowed effective size ratio wrt previous level. More...
bool	m_scaleCovMatrix
	Whether or not scale proposal covariance matrix. More...
double	m_minRejectionRate
	minimum allowed attempted rejection rate at current level More...
double	m_maxRejectionRate
	maximum allowed attempted rejection rate at current level. More...
double	m_covRejectionRate
	c.o.v. for judging attempted rejection rate at current level. More...
double	m_minAcceptableEta
	minimum acceptable eta, More...
bool	m_totallyMute
	Whether or not to be totally mute (no printout message). More...
std::string	m_initialPositionDataInputFileName
	Name of input file for initial position. More...
std::string	m_initialPositionDataInputFileType
	Type of input file for initial position. More...
std::string	m_initialProposalCovMatrixDataInputFileName
	Name of input file for initial proposal covariance matrix. More...
std::string	m_initialProposalCovMatrixDataInputFileType
	Type of input file for initial proposal covariance matrix. More...
bool	m_initialPositionUsePreviousLevelLikelihood
	Use previous level likelihood for initial chain position instead of re-computing it from target pdf. More...
std::set< unsigned int >	m_parameterDisabledSet
std::string	m_str2
std::vector< double >	m_initialValuesOfDisabledParameters
std::string	m_str3
std::string	m_rawChainDataInputFileName
	Name of input file for raw chain. More...
std::string	m_rawChainDataInputFileType
	Type of input file for raw chain. More...
unsigned int	m_rawChainSize
	Size of raw chain. More...
bool	m_rawChainGenerateExtra
	Generate extra information about raw chain. More...
unsigned int	m_rawChainDisplayPeriod
	Period of message display during raw chain generation. More...
bool	m_rawChainMeasureRunTimes
	Whether or not to measure run times. More...
unsigned int	m_rawChainDataOutputPeriod
	Period of message display during raw chain generation. More...
std::string	m_rawChainDataOutputFileName
	Name of output file for raw chain. More...
std::string	m_rawChainDataOutputFileType
	Type of output file for raw chain. More...
bool	m_rawChainDataOutputAllowAll
	Whether or not subEnvs will write to output file for raw chain. More...
std::set< unsigned int >	m_rawChainDataOutputAllowedSet
	subEnvs that will write to output file for raw chain. More...
std::string	m_str4
bool	m_rawChainComputeStats
	Compute statistics on raw chain. More...
SequenceStatisticalOptions *	m_rawChainStatisticalOptionsObj
bool	m_rawChainStatOptsInstantiated
bool	m_filteredChainGenerate
	Whether or not to generate filtered chain. More...
double	m_filteredChainDiscardedPortion
	Initial discarded portion for chain filtering. More...
unsigned int	m_filteredChainLag
	Spacing for chain filtering. More...
std::string	m_filteredChainDataOutputFileName
	Name of output file for filtered chain. More...
std::string	m_filteredChainDataOutputFileType
	Type of output file for filtered chain. More...
bool	m_filteredChainDataOutputAllowAll
	Whether or not subEnvs will write to output file for filtered chain. More...
std::set< unsigned int >	m_filteredChainDataOutputAllowedSet
	subEnvs that will write to output file for filtered chain. More...
std::string	m_str5
bool	m_filteredChainComputeStats
	Compute statistics on filtered chain. More...
SequenceStatisticalOptions *	m_filteredChainStatisticalOptionsObj
bool	m_filteredChainStatOptsInstantiated
bool	m_displayCandidates
	Display candidates generated in the core MH algorithm. More...
bool	m_putOutOfBoundsInChain
	Put 'out of bound' candidates in chain as well. More...
bool	m_tkUseLocalHessian
	Whether or not 'proposal' uses local Hessian. More...
bool	m_tkUseNewtonComponent
	Whether or not 'proposal' uses Newton component. More...
unsigned int	m_drMaxNumExtraStages
	'dr' maximum number of extra stages. More...
std::vector< double >	m_drScalesForExtraStages
	'dr' list of scales for proposal covariance matrices from 2nd stage on. More...
std::string	m_str6
bool	m_drDuringAmNonAdaptiveInt
	Whether or not 'dr' is used during 'am' non adaptive interval. More...
bool	m_amKeepInitialMatrix
	Whether or not 'am' will keep initial (given) matrix. More...
unsigned int	m_amInitialNonAdaptInterval
	'am' initial non adaptation interval More...
unsigned int	m_amAdaptInterval
	'am' adaptation interval. More...
unsigned int	m_amAdaptedMatricesDataOutputPeriod
	Period for outputing 'am' adapted matrices. More...
std::string	m_amAdaptedMatricesDataOutputFileName
	Name of output file for 'am' adapted matrices. More...
std::string	m_amAdaptedMatricesDataOutputFileType
	Type of output file for 'am' adapted matrices. More...
bool	m_amAdaptedMatricesDataOutputAllowAll
	Whether or not subEnvs will write to output file for 'am' adapted matrices. More...
std::set< unsigned int >	m_amAdaptedMatricesDataOutputAllowedSet
	subEnvs that will write to output file for 'am' adapted matrices. More...
std::string	m_str7
double	m_amEta
	'am' eta. More...
double	m_amEpsilon
	'am' epsilon. More...
bool	m_doLogitTransform
	Whether or not a logit transform will be done for bounded domains. More...
std::string	m_algorithm
	Which algorithm to use for sampling. More...
std::string	m_tk
	Which transition kernel to use for sampling. More...
unsigned int	m_updateInterval
	How often to call the TK's updateTK method. More...

Private Member Functions
void	copyOptionsValues (const MLSamplingLevelOptions &srcOptions)
	Copies the option values from srcOptions to this. More...
void	getAllOptions ()
void	defineAllOptions ()
void	checkOptions (const BaseEnvironment *env)

Private Attributes
const BaseEnvironment &	m_env
BoostInputOptionsParser *	m_parser
std::string	m_option_help
std::string	m_option_checkpointOutputFileName
std::string	m_option_stopAtEnd
std::string	m_option_dataOutputFileName
std::string	m_option_dataOutputAllowAll
std::string	m_option_dataOutputAllowedSet
std::string	m_option_loadBalanceAlgorithmId
std::string	m_option_loadBalanceTreshold
std::string	m_option_minEffectiveSizeRatio
std::string	m_option_maxEffectiveSizeRatio
std::string	m_option_scaleCovMatrix
std::string	m_option_minRejectionRate
std::string	m_option_maxRejectionRate
std::string	m_option_covRejectionRate
std::string	m_option_minAcceptableEta
std::string	m_option_totallyMute
std::string	m_option_initialPosition_dataInputFileName
std::string	m_option_initialPosition_dataInputFileType
std::string	m_option_initialProposalCovMatrix_dataInputFileName
std::string	m_option_initialProposalCovMatrix_dataInputFileType
std::string	m_option_initialPositionUsePreviousLevelLikelihood
std::string	m_option_listOfDisabledParameters
std::string	m_option_initialValuesOfDisabledParameters
std::string	m_option_rawChain_dataInputFileName
std::string	m_option_rawChain_dataInputFileType
std::string	m_option_rawChain_size
std::string	m_option_rawChain_generateExtra
std::string	m_option_rawChain_displayPeriod
std::string	m_option_rawChain_measureRunTimes
std::string	m_option_rawChain_dataOutputPeriod
std::string	m_option_rawChain_dataOutputFileName
std::string	m_option_rawChain_dataOutputFileType
	Option name for MLSamplingLevelOptions::m_rawChainDataOutputFileType. Option name is m_prefix + "ml_rawChain_dataOutputFileType". More...
std::string	m_option_rawChain_dataOutputAllowAll
std::string	m_option_rawChain_dataOutputAllowedSet
std::string	m_option_rawChain_computeStats
std::string	m_option_filteredChain_generate
std::string	m_option_filteredChain_discardedPortion
std::string	m_option_filteredChain_lag
std::string	m_option_filteredChain_dataOutputFileName
std::string	m_option_filteredChain_dataOutputFileType
std::string	m_option_filteredChain_dataOutputAllowAll
std::string	m_option_filteredChain_dataOutputAllowedSet
std::string	m_option_filteredChain_computeStats
std::string	m_option_displayCandidates
std::string	m_option_putOutOfBoundsInChain
std::string	m_option_tk_useLocalHessian
std::string	m_option_tk_useNewtonComponent
std::string	m_option_dr_maxNumExtraStages
std::string	m_option_dr_listOfScalesForExtraStages
std::string	m_option_dr_duringAmNonAdaptiveInt
std::string	m_option_am_keepInitialMatrix
std::string	m_option_am_initialNonAdaptInterval
std::string	m_option_am_adaptInterval
std::string	m_option_am_adaptedMatrices_dataOutputPeriod
std::string	m_option_am_adaptedMatrices_dataOutputFileName
std::string	m_option_am_adaptedMatrices_dataOutputFileType
std::string	m_option_am_adaptedMatrices_dataOutputAllowAll
std::string	m_option_am_adaptedMatrices_dataOutputAllowedSet
std::string	m_option_am_eta
std::string	m_option_am_epsilon
std::string	m_option_doLogitTransform
std::string	m_option_algorithm
std::string	m_option_tk
std::string	m_option_updateInterval

Friends
std::ostream &	operator<< (std::ostream &os, const MLSamplingLevelOptions &obj)

Detailed Description

This class provides options for each level of the Multilevel sequence generator if no input file is available.

Multilevel sequence generator expects options for its methods to operate in each level of the sequece generated. This class provides default values for such options if no input file is available.

Definition at line 126 of file MLSamplingLevelOptions.h.

Constructor & Destructor Documentation

QUESO::MLSamplingLevelOptions::MLSamplingLevelOptions	(	const BaseEnvironment &	env,
		const char *	prefix
	)

Constructor: reads options from the input file.

Definition at line 31 of file MLSamplingLevelOptions.C.

References checkOptions(), defineAllOptions(), getAllOptions(), m_parser, and QUESO::BoostInputOptionsParser::scanInputFile().

  :
    m_prefix                                   ((std::string)(prefix) + ""),
    m_help                                     (UQ_ML_SAMPLING_L_HELP),
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
    m_checkpointOutputFileName                 (UQ_ML_SAMPLING_L_CHECKPOINT_OUTPUT_FILE_NAME_ODV),
#endif
    m_stopAtEnd                                (UQ_ML_SAMPLING_L_STOP_AT_END_ODV),
    m_dataOutputFileName                       (UQ_ML_SAMPLING_L_DATA_OUTPUT_FILE_NAME_ODV),
    m_dataOutputAllowAll                       (UQ_ML_SAMPLING_L_DATA_OUTPUT_ALLOW_ALL_ODV),
  //m_dataOutputAllowedSet                     (),
    m_str1                                     (""),
    m_loadBalanceAlgorithmId                   (UQ_ML_SAMPLING_L_LOAD_BALANCE_ALGORITHM_ID_ODV),
    m_loadBalanceTreshold                      (UQ_ML_SAMPLING_L_LOAD_BALANCE_TRESHOLD_ODV),
    m_minEffectiveSizeRatio                    (UQ_ML_SAMPLING_L_MIN_EFFECTIVE_SIZE_RATIO_ODV),
    m_maxEffectiveSizeRatio                    (UQ_ML_SAMPLING_L_MAX_EFFECTIVE_SIZE_RATIO_ODV),
    m_scaleCovMatrix                           (UQ_ML_SAMPLING_L_SCALE_COV_MATRIX_ODV),
    m_minRejectionRate                         (UQ_ML_SAMPLING_L_MIN_REJECTION_RATE_ODV),
    m_maxRejectionRate                         (UQ_ML_SAMPLING_L_MAX_REJECTION_RATE_ODV),
    m_covRejectionRate                         (UQ_ML_SAMPLING_L_COV_REJECTION_RATE_ODV),
    m_minAcceptableEta                         (UQ_ML_SAMPLING_L_MIN_ACCEPTABLE_ETA_ODV), // gpmsa1
    m_totallyMute                              (UQ_ML_SAMPLING_L_TOTALLY_MUTE_ODV),
    m_initialPositionDataInputFileName         (UQ_ML_SAMPLING_L_INITIAL_POSITION_DATA_INPUT_FILE_NAME_ODV),
    m_initialPositionDataInputFileType         (UQ_ML_SAMPLING_L_INITIAL_POSITION_DATA_INPUT_FILE_TYPE_ODV),
    m_initialProposalCovMatrixDataInputFileName(UQ_ML_SAMPLING_L_INITIAL_PROPOSAL_COV_MATRIX_DATA_INPUT_FILE_NAME_ODV),
    m_initialProposalCovMatrixDataInputFileType(UQ_ML_SAMPLING_L_INITIAL_PROPOSAL_COV_MATRIX_DATA_INPUT_FILE_TYPE_ODV),
    m_initialPositionUsePreviousLevelLikelihood(UQ_ML_SAMPLING_L_INITIAL_POSITION_USE_PREVIOUS_LEVEL_LIKELIHOOD_ODV),  // ml_likelihood_caching
  //m_parameterDisabledSet                     (), // gpmsa2
    m_str2                                     (""),
    m_initialValuesOfDisabledParameters        (0),
    m_str3                                     (""),
    m_rawChainDataInputFileName                (UQ_ML_SAMPLING_L_RAW_CHAIN_DATA_INPUT_FILE_NAME_ODV),
    m_rawChainDataInputFileType                (UQ_ML_SAMPLING_L_RAW_CHAIN_DATA_INPUT_FILE_TYPE_ODV),
    m_rawChainSize                             (UQ_ML_SAMPLING_L_RAW_CHAIN_SIZE_ODV),
    m_rawChainGenerateExtra                    (UQ_ML_SAMPLING_L_RAW_CHAIN_GENERATE_EXTRA_ODV),
    m_rawChainDisplayPeriod                    (UQ_ML_SAMPLING_L_RAW_CHAIN_DISPLAY_PERIOD_ODV),
    m_rawChainMeasureRunTimes                  (UQ_ML_SAMPLING_L_RAW_CHAIN_MEASURE_RUN_TIMES_ODV),
    m_rawChainDataOutputPeriod                 (UQ_ML_SAMPLING_L_RAW_CHAIN_DATA_OUTPUT_PERIOD_ODV),
    m_rawChainDataOutputFileName               (UQ_ML_SAMPLING_L_RAW_CHAIN_DATA_OUTPUT_FILE_NAME_ODV),
    m_rawChainDataOutputFileType               (UQ_ML_SAMPLING_L_RAW_CHAIN_DATA_OUTPUT_FILE_TYPE_ODV),
    m_rawChainDataOutputAllowAll               (UQ_ML_SAMPLING_L_RAW_CHAIN_DATA_OUTPUT_ALLOW_ALL_ODV),
  //m_rawChainDataOutputAllowedSet             (),
    m_str4                                     (""),
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
    m_rawChainComputeStats                     (UQ_ML_SAMPLING_L_RAW_CHAIN_COMPUTE_STATS_ODV),
    m_rawChainStatisticalOptionsObj            (NULL),
    m_rawChainStatOptsInstantiated             (false),
#endif
    m_filteredChainGenerate                    (UQ_ML_SAMPLING_L_FILTERED_CHAIN_GENERATE_ODV),
    m_filteredChainDiscardedPortion            (UQ_ML_SAMPLING_L_FILTERED_CHAIN_DISCARDED_PORTION_ODV),
    m_filteredChainLag                         (UQ_ML_SAMPLING_L_FILTERED_CHAIN_LAG_ODV),
    m_filteredChainDataOutputFileName          (UQ_ML_SAMPLING_L_FILTERED_CHAIN_DATA_OUTPUT_FILE_NAME_ODV),
    m_filteredChainDataOutputFileType          (UQ_ML_SAMPLING_L_FILTERED_CHAIN_DATA_OUTPUT_FILE_TYPE_ODV),
    m_filteredChainDataOutputAllowAll          (UQ_ML_SAMPLING_L_FILTERED_CHAIN_DATA_OUTPUT_ALLOW_ALL_ODV),
  //m_filteredChainDataOutputAllowedSet        (),
    m_str5                                     (""),
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
    m_filteredChainComputeStats                (UQ_ML_SAMPLING_L_FILTERED_CHAIN_COMPUTE_STATS_ODV),
    m_filteredChainStatisticalOptionsObj       (NULL),
    m_filteredChainStatOptsInstantiated        (false),
#endif
    m_displayCandidates                        (UQ_ML_SAMPLING_L_DISPLAY_CANDIDATES_ODV),
    m_putOutOfBoundsInChain                    (UQ_ML_SAMPLING_L_PUT_OUT_OF_BOUNDS_IN_CHAIN_ODV),
    m_tkUseLocalHessian                        (UQ_ML_SAMPLING_L_TK_USE_LOCAL_HESSIAN_ODV),
    m_tkUseNewtonComponent                     (UQ_ML_SAMPLING_L_TK_USE_NEWTON_COMPONENT_ODV),
    m_drMaxNumExtraStages                      (UQ_ML_SAMPLING_L_DR_MAX_NUM_EXTRA_STAGES_ODV),
    m_drScalesForExtraStages                   (0),
    m_str6                                     ("1. "),
    m_drDuringAmNonAdaptiveInt                 (UQ_ML_SAMPLING_L_DR_DURING_AM_NON_ADAPTIVE_INT_ODV),
    m_amKeepInitialMatrix                      (UQ_ML_SAMPLING_L_AM_KEEP_INITIAL_MATRIX_ODV),
    m_amInitialNonAdaptInterval                (UQ_ML_SAMPLING_L_AM_INIT_NON_ADAPT_INT_ODV),
    m_amAdaptInterval                          (UQ_ML_SAMPLING_L_AM_ADAPT_INTERVAL_ODV),
    m_amAdaptedMatricesDataOutputPeriod        (UQ_ML_SAMPLING_L_AM_ADAPTED_MATRICES_DATA_OUTPUT_PERIOD_ODV),
    m_amAdaptedMatricesDataOutputFileName      (UQ_ML_SAMPLING_L_AM_ADAPTED_MATRICES_DATA_OUTPUT_FILE_NAME_ODV),
    m_amAdaptedMatricesDataOutputFileType      (UQ_ML_SAMPLING_L_AM_ADAPTED_MATRICES_DATA_OUTPUT_FILE_TYPE_ODV),
    m_amAdaptedMatricesDataOutputAllowAll      (UQ_ML_SAMPLING_L_AM_ADAPTED_MATRICES_DATA_OUTPUT_ALLOW_ALL_ODV),
  //m_amAdaptedMatricesDataOutputAllowedSet    (),
    m_str7                                     (""),
    m_amEta                                    (UQ_ML_SAMPLING_L_AM_ETA_ODV),
    m_amEpsilon                                (UQ_ML_SAMPLING_L_AM_EPSILON_ODV),
    m_env                                      (env),
#ifndef QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
    m_parser(new BoostInputOptionsParser(env.optionsInputFileName())),
#endif  // QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
    m_option_help                                      (m_prefix + "help"                                      ),
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
    m_option_checkpointOutputFileName                  (m_prefix + "checkpointOutputFileName"                  ),
#endif
    m_option_stopAtEnd                                 (m_prefix + "stopAtEnd"                                 ),
    m_option_dataOutputFileName                        (m_prefix + "dataOutputFileName"                        ),
    m_option_dataOutputAllowAll                        (m_prefix + "dataOutputAllowAll"                        ),
    m_option_dataOutputAllowedSet                      (m_prefix + "dataOutputAllowedSet"                      ),
    m_option_loadBalanceAlgorithmId                    (m_prefix + "loadBalanceAlgorithmId"                    ),
    m_option_loadBalanceTreshold                       (m_prefix + "loadBalanceTreshold"                       ),
    m_option_minEffectiveSizeRatio                     (m_prefix + "minEffectiveSizeRatio"                     ),
    m_option_maxEffectiveSizeRatio                     (m_prefix + "maxEffectiveSizeRatio"                     ),
    m_option_scaleCovMatrix                            (m_prefix + "scaleCovMatrix"                            ),
    m_option_minRejectionRate                          (m_prefix + "minRejectionRate"                          ),
    m_option_maxRejectionRate                          (m_prefix + "maxRejectionRate"                          ),
    m_option_covRejectionRate                          (m_prefix + "covRejectionRate"                          ),
    m_option_minAcceptableEta                          (m_prefix + "minAcceptableEta"                          ), // gpmsa1
    m_option_totallyMute                               (m_prefix + "totallyMute"                               ),
    m_option_initialPosition_dataInputFileName         (m_prefix + "initialPosition_dataInputFileName"         ),
    m_option_initialPosition_dataInputFileType         (m_prefix + "initialPosition_dataInputFileType"         ),
    m_option_initialProposalCovMatrix_dataInputFileName(m_prefix + "initialProposalCovMatrix_dataInputFileName"),
    m_option_initialProposalCovMatrix_dataInputFileType(m_prefix + "initialProposalCovMatrix_dataInputFileType"),
    m_option_initialPositionUsePreviousLevelLikelihood (m_prefix + "initialPositionUsePreviousLevelLikelihood" ), // ml_likelihood_caching
    m_option_listOfDisabledParameters                  (m_prefix + "listOfDisabledParameters"                  ), // gpmsa2
    m_option_initialValuesOfDisabledParameters         (m_prefix + "initialValuesOfDisabledParameters"         ), // gpmsa2
    m_option_rawChain_dataInputFileName                (m_prefix + "rawChain_dataInputFileName"                ),
    m_option_rawChain_dataInputFileType                (m_prefix + "rawChain_dataInputFileType"                ),
    m_option_rawChain_size                             (m_prefix + "rawChain_size"                             ),
    m_option_rawChain_generateExtra                    (m_prefix + "rawChain_generateExtra"                    ),
    m_option_rawChain_displayPeriod                    (m_prefix + "rawChain_displayPeriod"                    ),
    m_option_rawChain_measureRunTimes                  (m_prefix + "rawChain_measureRunTimes"                  ),
    m_option_rawChain_dataOutputPeriod                 (m_prefix + "rawChain_dataOutputPeriod"                 ),
    m_option_rawChain_dataOutputFileName               (m_prefix + "rawChain_dataOutputFileName"               ),
    m_option_rawChain_dataOutputFileType               (m_prefix + "rawChain_dataOutputFileType"               ),
    m_option_rawChain_dataOutputAllowAll               (m_prefix + "rawChain_dataOutputAllowAll"               ),
    m_option_rawChain_dataOutputAllowedSet             (m_prefix + "rawChain_dataOutputAllowedSet"             ),
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
    m_option_rawChain_computeStats                     (m_prefix + "rawChain_computeStats"                     ),
#endif
    m_option_filteredChain_generate                    (m_prefix + "filteredChain_generate"                    ),
    m_option_filteredChain_discardedPortion            (m_prefix + "filteredChain_discardedPortion"            ),
    m_option_filteredChain_lag                         (m_prefix + "filteredChain_lag"                         ),
    m_option_filteredChain_dataOutputFileName          (m_prefix + "filteredChain_dataOutputFileName"          ),
    m_option_filteredChain_dataOutputFileType          (m_prefix + "filteredChain_dataOutputFileType"          ),
    m_option_filteredChain_dataOutputAllowAll          (m_prefix + "filteredChain_dataOutputAllowAll"          ),
    m_option_filteredChain_dataOutputAllowedSet        (m_prefix + "filteredChain_dataOutputAllowedSet"        ),
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
    m_option_filteredChain_computeStats                (m_prefix + "filteredChain_computeStats"                ),
#endif
    m_option_displayCandidates                         (m_prefix + "displayCandidates"                         ),
    m_option_putOutOfBoundsInChain                     (m_prefix + "putOutOfBoundsInChain"                     ),
    m_option_tk_useLocalHessian                        (m_prefix + "tk_useLocalHessian"                        ),
    m_option_tk_useNewtonComponent                     (m_prefix + "tk_useNewtonComponent"                     ),
    m_option_dr_maxNumExtraStages                      (m_prefix + "dr_maxNumExtraStages"                      ),
    m_option_dr_listOfScalesForExtraStages             (m_prefix + "dr_listOfScalesForExtraStages"             ),
    m_option_dr_duringAmNonAdaptiveInt                 (m_prefix + "dr_duringAmNonAdaptiveInt"                 ),
    m_option_am_keepInitialMatrix                      (m_prefix + "am_keepInitialMatrix"                      ),
    m_option_am_initialNonAdaptInterval                (m_prefix + "am_initialNonAdaptInterval"                ),
    m_option_am_adaptInterval                          (m_prefix + "am_adaptInterval"                          ),
    m_option_am_adaptedMatrices_dataOutputPeriod       (m_prefix + "amAdaptedMatrices_dataOutputPeriod"        ),
    m_option_am_adaptedMatrices_dataOutputFileName     (m_prefix + "amAdaptedMatrices_dataOutputFileName"      ),
    m_option_am_adaptedMatrices_dataOutputFileType     (m_prefix + "amAdaptedMatrices_dataOutputFileType"      ),
    m_option_am_adaptedMatrices_dataOutputAllowAll     (m_prefix + "amAdaptedMatrices_dataOutputAllowAll"      ),
    m_option_am_adaptedMatrices_dataOutputAllowedSet   (m_prefix + "amAdaptedMatrices_dataOutputAllowedSet"    ),
    m_option_am_eta                                    (m_prefix + "am_eta"                                    ),
    m_option_am_epsilon                                (m_prefix + "am_epsilon"                                ),
    m_option_doLogitTransform                          (m_prefix + "doLogitTransform"                          ),
    m_option_algorithm                                 (m_prefix + "algorithm"                                 ),
    m_option_tk                                        (m_prefix + "tk"                                        ),
    m_option_updateInterval                            (m_prefix + "updateInterval"                            )
{
#ifndef QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  this->defineAllOptions();
  m_parser->scanInputFile();
#endif  // QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  this->getAllOptions();

  checkOptions(&env);
}

QUESO::MLSamplingLevelOptions::~MLSamplingLevelOptions ( )

virtual

Destructor.

Definition at line 577 of file MLSamplingLevelOptions.C.

References m_filteredChainStatisticalOptionsObj, m_filteredChainStatOptsInstantiated, m_rawChainStatisticalOptionsObj, and m_rawChainStatOptsInstantiated.

{
  //std::cout << "In MLSamplingLevelOptions::destructor()"
  //          << ": m_filteredChainStatOptsInstantiated = " << m_filteredChainStatOptsInstantiated
  //          << ", m_rawChainStatOptsInstantiated = "      << m_rawChainStatOptsInstantiated
  //          << std::endl;
  //sleep(1);
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  if (m_filteredChainStatOptsInstantiated) delete m_filteredChainStatisticalOptionsObj;
  if (m_rawChainStatOptsInstantiated     ) delete m_rawChainStatisticalOptionsObj;
#endif
}

Member Function Documentation

void QUESO::MLSamplingLevelOptions::checkOptions ( const BaseEnvironment *  env )

private

Definition at line 624 of file MLSamplingLevelOptions.C.

References m_amAdaptedMatricesDataOutputAllowAll, m_amAdaptedMatricesDataOutputAllowedSet, m_covRejectionRate, m_dataOutputAllowAll, m_dataOutputAllowedSet, m_drMaxNumExtraStages, m_drScalesForExtraStages, m_env, m_filteredChainDataOutputAllowAll, m_filteredChainDataOutputAllowedSet, m_filteredChainGenerate, m_filteredChainLag, m_help, m_initialValuesOfDisabledParameters, m_maxEffectiveSizeRatio, m_maxRejectionRate, m_minEffectiveSizeRatio, m_minRejectionRate, m_option_covRejectionRate, m_option_filteredChain_lag, m_option_maxEffectiveSizeRatio, m_option_maxRejectionRate, m_option_minEffectiveSizeRatio, m_option_minRejectionRate, m_parameterDisabledSet, m_rawChainDataOutputAllowAll, m_rawChainDataOutputAllowedSet, m_str1, m_str2, m_str3, m_str4, m_str5, m_str6, m_str7, QUESO::size, QUESO::BaseEnvironment::subDisplayFile(), and QUESO::BaseEnvironment::subId().

Referenced by MLSamplingLevelOptions().

{
  char tmpStr[64];

  // DM: Print here because I don't know where the class is instantiated
  if (m_help != "") {
    if (m_env.subDisplayFile()) {
      *m_env.subDisplayFile() << (*this) << std::endl;
    }
  }

  if (m_dataOutputAllowAll) {
    m_dataOutputAllowedSet.clear();
    m_dataOutputAllowedSet.insert(m_env.subId());
  }

  // DM: Not sure what this is for
  m_str1.clear();
  for (std::set<unsigned int>::iterator setIt = m_dataOutputAllowedSet.begin(); setIt != m_dataOutputAllowedSet.end(); ++setIt) {
    sprintf(tmpStr,"%d",(int)(*setIt));
    m_str1 += tmpStr;
    m_str1 += " ";
  }

  queso_require_less_msg(m_minEffectiveSizeRatio, 1.0, "option `" << m_option_minEffectiveSizeRatio << "` must be less than 1.0");
  queso_require_less_msg(m_maxEffectiveSizeRatio, 1.0, "option `" << m_option_maxEffectiveSizeRatio << "` must be less than 1.0");
  queso_require_less_msg(m_minRejectionRate, 1.0, "option `" << m_option_minRejectionRate << "` must be less than 1.0");
  queso_require_less_msg(m_maxRejectionRate, 1.0, "option `" << m_option_maxRejectionRate << "` must be less than 1.0");
  queso_require_less_msg(m_covRejectionRate, 1.0, "option `" << m_option_covRejectionRate << "` must be less than 1.0");

  // DM: Not sure what this is for
  m_str2.clear();
  for (std::set<unsigned int>::iterator setIt = m_parameterDisabledSet.begin(); setIt != m_parameterDisabledSet.end(); ++setIt) { // gpmsa2
    sprintf(tmpStr,"%d",(int)(*setIt));
    m_str2 += tmpStr;
    m_str2 += " ";
  }

  // DM: Not sure what this is for
  m_str3.clear();
  for (unsigned int i = 0; i < m_initialValuesOfDisabledParameters.size(); ++i) {
    sprintf(tmpStr,"%e",m_initialValuesOfDisabledParameters[i]);
    m_str3 += tmpStr;
    m_str3 += " ";
  }

  if (m_rawChainDataOutputAllowAll) {
    m_rawChainDataOutputAllowedSet.clear();
    m_rawChainDataOutputAllowedSet.insert(m_env.subId());
  }

  // DM: Not sure what this is for
  m_str4.clear();
  for (std::set<unsigned int>::iterator setIt = m_rawChainDataOutputAllowedSet.begin(); setIt != m_rawChainDataOutputAllowedSet.end(); ++setIt) {
    sprintf(tmpStr,"%d",(int)(*setIt));
    m_str4 += tmpStr;
    m_str4 += " ";
  }

  if (m_filteredChainGenerate == true) {
    queso_require_greater_equal_msg(m_filteredChainLag, 2, "option `" << m_option_filteredChain_lag << "` must be at least 2");
  }

  if (m_filteredChainDataOutputAllowAll) {
    m_filteredChainDataOutputAllowedSet.clear();
    m_filteredChainDataOutputAllowedSet.insert(m_env.subId());
  }

  // DM: Not sure what this is for
  m_str5.clear();
  for (std::set<unsigned int>::iterator setIt = m_filteredChainDataOutputAllowedSet.begin(); setIt != m_filteredChainDataOutputAllowedSet.end(); ++setIt) {
    sprintf(tmpStr,"%d",(int)(*setIt));
    m_str5 += tmpStr;
    m_str5 += " ";
  }

  if (m_drMaxNumExtraStages > 0) {
    unsigned int size = m_drScalesForExtraStages.size();

    // If we asked more stages than scales provided, pad with ones
    if (m_drMaxNumExtraStages > size) {
      for (unsigned int i = size; i < m_drMaxNumExtraStages; i++) {
        double scale = 1.0;
        m_drScalesForExtraStages.push_back(scale);
      }
    }
  }

  // DM: Not sure what this is for
  m_str6.clear();
  for (unsigned int i = 0; i < m_drScalesForExtraStages.size(); ++i) {
    sprintf(tmpStr,"%e",m_drScalesForExtraStages[i]);
    m_str6 += tmpStr;
    m_str6 += " ";
  }

  if (m_amAdaptedMatricesDataOutputAllowAll) {
    m_amAdaptedMatricesDataOutputAllowedSet.clear();
    m_amAdaptedMatricesDataOutputAllowedSet.insert(m_env.subId());
  }

  // DM: Not sure what this is for
  m_str7.clear();
  for (std::set<unsigned int>::iterator setIt = m_amAdaptedMatricesDataOutputAllowedSet.begin(); setIt != m_amAdaptedMatricesDataOutputAllowedSet.end(); ++setIt) {
    sprintf(tmpStr,"%d",(int)(*setIt));
    m_str7 += tmpStr;
    m_str7 += " ";
  }
}

void QUESO::MLSamplingLevelOptions::copyOptionsValues ( const MLSamplingLevelOptions &  srcOptions )

private

Copies the option values from srcOptions to this.

Definition at line 489 of file MLSamplingLevelOptions.C.

References m_algorithm, m_amAdaptedMatricesDataOutputAllowAll, m_amAdaptedMatricesDataOutputAllowedSet, m_amAdaptedMatricesDataOutputFileName, m_amAdaptedMatricesDataOutputFileType, m_amAdaptedMatricesDataOutputPeriod, m_amAdaptInterval, m_amEpsilon, m_amEta, m_amInitialNonAdaptInterval, m_amKeepInitialMatrix, m_checkpointOutputFileName, m_covRejectionRate, m_dataOutputAllowAll, m_dataOutputAllowedSet, m_dataOutputFileName, m_displayCandidates, m_doLogitTransform, m_drDuringAmNonAdaptiveInt, m_drMaxNumExtraStages, m_drScalesForExtraStages, m_filteredChainComputeStats, m_filteredChainDataOutputAllowAll, m_filteredChainDataOutputAllowedSet, m_filteredChainDataOutputFileName, m_filteredChainDataOutputFileType, m_filteredChainDiscardedPortion, m_filteredChainGenerate, m_filteredChainLag, m_filteredChainStatisticalOptionsObj, m_filteredChainStatOptsInstantiated, m_initialPositionDataInputFileName, m_initialPositionDataInputFileType, m_initialPositionUsePreviousLevelLikelihood, m_initialProposalCovMatrixDataInputFileName, m_initialProposalCovMatrixDataInputFileType, m_initialValuesOfDisabledParameters, m_loadBalanceAlgorithmId, m_loadBalanceTreshold, m_maxEffectiveSizeRatio, m_maxRejectionRate, m_minAcceptableEta, m_minEffectiveSizeRatio, m_minRejectionRate, m_parameterDisabledSet, m_putOutOfBoundsInChain, m_rawChainComputeStats, m_rawChainDataInputFileName, m_rawChainDataInputFileType, m_rawChainDataOutputAllowAll, m_rawChainDataOutputAllowedSet, m_rawChainDataOutputFileName, m_rawChainDataOutputFileType, m_rawChainDataOutputPeriod, m_rawChainDisplayPeriod, m_rawChainGenerateExtra, m_rawChainMeasureRunTimes, m_rawChainSize, m_rawChainStatisticalOptionsObj, m_rawChainStatOptsInstantiated, m_scaleCovMatrix, m_stopAtEnd, m_str1, m_str2, m_str3, m_str4, m_str5, m_str6, m_str7, m_tk, m_tkUseLocalHessian, m_tkUseNewtonComponent, m_totallyMute, and m_updateInterval.

Referenced by scanOptionsValues().

{
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
  m_checkpointOutputFileName                  = srcOptions.m_checkpointOutputFileName;
#endif
  m_stopAtEnd                                 = srcOptions.m_stopAtEnd;
  m_dataOutputFileName                        = srcOptions.m_dataOutputFileName;
  m_dataOutputAllowAll                        = srcOptions.m_dataOutputAllowAll;
  m_dataOutputAllowedSet                      = srcOptions.m_dataOutputAllowedSet;
  m_str1                                      = srcOptions.m_str1;
  m_loadBalanceAlgorithmId                    = srcOptions.m_loadBalanceAlgorithmId;
  m_loadBalanceTreshold                       = srcOptions.m_loadBalanceTreshold;
  m_minEffectiveSizeRatio                     = srcOptions.m_minEffectiveSizeRatio;
  m_maxEffectiveSizeRatio                     = srcOptions.m_maxEffectiveSizeRatio;
  m_scaleCovMatrix                            = srcOptions.m_scaleCovMatrix;
  m_minRejectionRate                          = srcOptions.m_minRejectionRate;
  m_maxRejectionRate                          = srcOptions.m_maxRejectionRate;
  m_covRejectionRate                          = srcOptions.m_covRejectionRate;
  m_minAcceptableEta                          = srcOptions.m_minAcceptableEta; // gpmsa1
  m_totallyMute                               = srcOptions.m_totallyMute;
  m_initialPositionDataInputFileName          = srcOptions.m_initialPositionDataInputFileName;
  m_initialPositionDataInputFileType          = srcOptions.m_initialPositionDataInputFileType;
  m_initialProposalCovMatrixDataInputFileName = srcOptions.m_initialProposalCovMatrixDataInputFileName;
  m_initialProposalCovMatrixDataInputFileType = srcOptions.m_initialProposalCovMatrixDataInputFileType;
  m_initialPositionUsePreviousLevelLikelihood = srcOptions.m_initialPositionUsePreviousLevelLikelihood;
  m_parameterDisabledSet                      = srcOptions.m_parameterDisabledSet; // gpmsa2
  m_str2                                      = srcOptions.m_str2; // gpmsa2
  m_initialValuesOfDisabledParameters         = srcOptions.m_initialValuesOfDisabledParameters;
  m_str3                                      = srcOptions.m_str3;
  m_rawChainDataInputFileName                 = srcOptions.m_rawChainDataInputFileName;
  m_rawChainDataInputFileType                 = srcOptions.m_rawChainDataInputFileType;
  m_rawChainSize                              = srcOptions.m_rawChainSize;
//std::cout << "In copy(), rawChainSize = " << m_rawChainSize << std::endl;
  m_rawChainGenerateExtra                     = srcOptions.m_rawChainGenerateExtra;
  m_rawChainDisplayPeriod                     = srcOptions.m_rawChainDisplayPeriod;
  m_rawChainMeasureRunTimes                   = srcOptions.m_rawChainMeasureRunTimes;
  m_rawChainDataOutputPeriod                  = srcOptions.m_rawChainDataOutputPeriod;
  m_rawChainDataOutputFileName                = srcOptions.m_rawChainDataOutputFileName;
  m_rawChainDataOutputFileType                = srcOptions.m_rawChainDataOutputFileType;
  m_rawChainDataOutputAllowAll                = srcOptions.m_rawChainDataOutputAllowAll;
  m_rawChainDataOutputAllowedSet              = srcOptions.m_rawChainDataOutputAllowedSet;
  m_str4                                      = srcOptions.m_str4;
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_rawChainComputeStats                      = srcOptions.m_rawChainComputeStats;
  m_rawChainStatisticalOptionsObj             = NULL; // Yes, 'NULL'
  m_rawChainStatOptsInstantiated              = false;
#endif
  m_filteredChainGenerate                     = srcOptions.m_filteredChainGenerate;
  m_filteredChainDiscardedPortion             = srcOptions.m_filteredChainDiscardedPortion;
  m_filteredChainLag                          = srcOptions.m_filteredChainLag;
  m_filteredChainDataOutputFileName           = srcOptions.m_filteredChainDataOutputFileName;
  m_filteredChainDataOutputFileType           = srcOptions.m_filteredChainDataOutputFileType;
  m_filteredChainDataOutputAllowAll           = srcOptions.m_filteredChainDataOutputAllowAll;
  m_filteredChainDataOutputAllowedSet         = srcOptions.m_filteredChainDataOutputAllowedSet;
  m_str5                                      = srcOptions.m_str5;
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_filteredChainComputeStats                 = srcOptions.m_filteredChainComputeStats;
  m_filteredChainStatisticalOptionsObj        = NULL; // Yes, 'NULL'
  m_filteredChainStatOptsInstantiated         = false;
#endif
  m_displayCandidates                         = srcOptions.m_displayCandidates;
  m_putOutOfBoundsInChain                     = srcOptions.m_putOutOfBoundsInChain;
  m_tkUseLocalHessian                         = srcOptions.m_tkUseLocalHessian;
  m_tkUseNewtonComponent                      = srcOptions.m_tkUseNewtonComponent;
  m_drMaxNumExtraStages                       = srcOptions.m_drMaxNumExtraStages;
  m_drScalesForExtraStages                    = srcOptions.m_drScalesForExtraStages;
  m_str6                                      = srcOptions.m_str6;
  m_drDuringAmNonAdaptiveInt                  = srcOptions.m_drDuringAmNonAdaptiveInt;
  m_amKeepInitialMatrix                       = srcOptions.m_amKeepInitialMatrix;
  m_amInitialNonAdaptInterval                 = srcOptions.m_amInitialNonAdaptInterval;
  m_amAdaptInterval                           = srcOptions.m_amAdaptInterval;
  m_amAdaptedMatricesDataOutputPeriod         = srcOptions.m_amAdaptedMatricesDataOutputPeriod;
  m_amAdaptedMatricesDataOutputFileName       = srcOptions.m_amAdaptedMatricesDataOutputFileName;
  m_amAdaptedMatricesDataOutputFileType       = srcOptions.m_amAdaptedMatricesDataOutputFileType;
  m_amAdaptedMatricesDataOutputAllowAll       = srcOptions.m_amAdaptedMatricesDataOutputAllowAll;
  m_amAdaptedMatricesDataOutputAllowedSet     = srcOptions.m_amAdaptedMatricesDataOutputAllowedSet;
  m_str7                                      = srcOptions.m_str7;
  m_amEta                                     = srcOptions.m_amEta;
  m_amEpsilon                                 = srcOptions.m_amEpsilon;
  m_doLogitTransform                          = srcOptions.m_doLogitTransform;
  m_algorithm                                 = srcOptions.m_algorithm;
  m_tk                                        = srcOptions.m_tk;
  m_updateInterval                            = srcOptions.m_updateInterval;

  return;
}

void QUESO::MLSamplingLevelOptions::defineAllOptions ( )

private

Definition at line 200 of file MLSamplingLevelOptions.C.

References m_amAdaptedMatricesDataOutputAllowAll, m_amAdaptedMatricesDataOutputFileName, m_amAdaptedMatricesDataOutputFileType, m_amAdaptedMatricesDataOutputPeriod, m_amAdaptInterval, m_amEpsilon, m_amEta, m_amInitialNonAdaptInterval, m_amKeepInitialMatrix, m_checkpointOutputFileName, m_covRejectionRate, m_dataOutputAllowAll, m_dataOutputFileName, m_displayCandidates, m_drDuringAmNonAdaptiveInt, m_drMaxNumExtraStages, m_filteredChainComputeStats, m_filteredChainDataOutputAllowAll, m_filteredChainDataOutputFileName, m_filteredChainDataOutputFileType, m_filteredChainDiscardedPortion, m_filteredChainGenerate, m_filteredChainLag, m_initialPositionDataInputFileName, m_initialPositionDataInputFileType, m_initialPositionUsePreviousLevelLikelihood, m_initialProposalCovMatrixDataInputFileName, m_initialProposalCovMatrixDataInputFileType, m_loadBalanceAlgorithmId, m_loadBalanceTreshold, m_maxEffectiveSizeRatio, m_maxRejectionRate, m_minAcceptableEta, m_minEffectiveSizeRatio, m_minRejectionRate, m_option_algorithm, m_option_am_adaptedMatrices_dataOutputAllowAll, m_option_am_adaptedMatrices_dataOutputAllowedSet, m_option_am_adaptedMatrices_dataOutputFileName, m_option_am_adaptedMatrices_dataOutputFileType, m_option_am_adaptedMatrices_dataOutputPeriod, m_option_am_adaptInterval, m_option_am_epsilon, m_option_am_eta, m_option_am_initialNonAdaptInterval, m_option_am_keepInitialMatrix, m_option_checkpointOutputFileName, m_option_covRejectionRate, m_option_dataOutputAllowAll, m_option_dataOutputAllowedSet, m_option_dataOutputFileName, m_option_displayCandidates, m_option_doLogitTransform, m_option_dr_duringAmNonAdaptiveInt, m_option_dr_listOfScalesForExtraStages, m_option_dr_maxNumExtraStages, m_option_filteredChain_computeStats, m_option_filteredChain_dataOutputAllowAll, m_option_filteredChain_dataOutputAllowedSet, m_option_filteredChain_dataOutputFileName, m_option_filteredChain_dataOutputFileType, m_option_filteredChain_discardedPortion, m_option_filteredChain_generate, m_option_filteredChain_lag, m_option_help, m_option_initialPosition_dataInputFileName, m_option_initialPosition_dataInputFileType, m_option_initialPositionUsePreviousLevelLikelihood, m_option_initialProposalCovMatrix_dataInputFileName, m_option_initialProposalCovMatrix_dataInputFileType, m_option_initialValuesOfDisabledParameters, m_option_listOfDisabledParameters, m_option_loadBalanceAlgorithmId, m_option_loadBalanceTreshold, m_option_maxEffectiveSizeRatio, m_option_maxRejectionRate, m_option_minAcceptableEta, m_option_minEffectiveSizeRatio, m_option_minRejectionRate, m_option_putOutOfBoundsInChain, m_option_rawChain_computeStats, m_option_rawChain_dataInputFileName, m_option_rawChain_dataInputFileType, m_option_rawChain_dataOutputAllowAll, m_option_rawChain_dataOutputAllowedSet, m_option_rawChain_dataOutputFileName, m_option_rawChain_dataOutputFileType, m_option_rawChain_dataOutputPeriod, m_option_rawChain_displayPeriod, m_option_rawChain_generateExtra, m_option_rawChain_measureRunTimes, m_option_rawChain_size, m_option_scaleCovMatrix, m_option_stopAtEnd, m_option_tk, m_option_tk_useLocalHessian, m_option_tk_useNewtonComponent, m_option_totallyMute, m_option_updateInterval, m_parser, m_putOutOfBoundsInChain, m_rawChainComputeStats, m_rawChainDataInputFileName, m_rawChainDataInputFileType, m_rawChainDataOutputAllowAll, m_rawChainDataOutputFileName, m_rawChainDataOutputFileType, m_rawChainDataOutputPeriod, m_rawChainDisplayPeriod, m_rawChainGenerateExtra, m_rawChainMeasureRunTimes, m_rawChainSize, m_scaleCovMatrix, m_stopAtEnd, m_str1, m_str2, m_str3, m_str4, m_str5, m_str6, m_str7, m_tkUseLocalHessian, m_tkUseNewtonComponent, m_totallyMute, and QUESO::BoostInputOptionsParser::registerOption().

Referenced by MLSamplingLevelOptions(), and scanOptionsValues().

{
#ifndef QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  m_parser->registerOption<std::string >(m_option_help,                                       UQ_ML_SAMPLING_L_HELP                      , "produce help message for Bayesian Markov chain distr. calculator");
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
  m_parser->registerOption<std::string >(m_option_checkpointOutputFileName,                   m_checkpointOutputFileName                 , "name of checpoint output file"                                   );
#endif
  m_parser->registerOption<bool        >(m_option_stopAtEnd,                                  m_stopAtEnd                                , "stop at end of such level"                                       );
  m_parser->registerOption<std::string >(m_option_dataOutputFileName,                         m_dataOutputFileName                       , "name of generic output file"                                     );
  m_parser->registerOption<bool        >(m_option_dataOutputAllowAll,                         m_dataOutputAllowAll                       , "subEnvs that will write to generic output file"                  );
  m_parser->registerOption<std::string >(m_option_dataOutputAllowedSet,                       m_str1                                     , "subEnvs that will write to generic output file"                  );
  m_parser->registerOption<unsigned int>(m_option_loadBalanceAlgorithmId,                     m_loadBalanceAlgorithmId                   , "Perform load balancing with chosen algorithm (0 = no balancing)" );
  m_parser->registerOption<double      >(m_option_loadBalanceTreshold,                        m_loadBalanceTreshold                      , "Perform load balancing if load unbalancing ratio > treshold"     );
  m_parser->registerOption<double      >(m_option_minEffectiveSizeRatio,                      m_minEffectiveSizeRatio                    , "minimum allowed effective size ratio wrt previous level"         );
  m_parser->registerOption<double      >(m_option_maxEffectiveSizeRatio,                      m_maxEffectiveSizeRatio                    , "maximum allowed effective size ratio wrt previous level"         );
  m_parser->registerOption<bool        >(m_option_scaleCovMatrix,                             m_scaleCovMatrix                           , "scale proposal covariance matrix"                                );
  m_parser->registerOption<double      >(m_option_minRejectionRate,                           m_minRejectionRate                         , "minimum allowed attempted rejection rate at current level"       );
  m_parser->registerOption<double      >(m_option_maxRejectionRate,                           m_maxRejectionRate                         , "maximum allowed attempted rejection rate at current level"       );
  m_parser->registerOption<double      >(m_option_covRejectionRate,                           m_covRejectionRate                         , "c.o.v. for judging attempted rejection rate at current level"    );
  m_parser->registerOption<double      >(m_option_minAcceptableEta,                           m_minAcceptableEta                         , "min acceptable eta"                                              );
  m_parser->registerOption<bool        >(m_option_totallyMute,                                m_totallyMute                              , "totally mute (no printout message)"                              );
  m_parser->registerOption<std::string >(m_option_initialPosition_dataInputFileName,          m_initialPositionDataInputFileName         , "name of input file for initial position"                         );
  m_parser->registerOption<std::string >(m_option_initialPosition_dataInputFileType,          m_initialPositionDataInputFileType         , "type of input file for initial position"                         );
  m_parser->registerOption<std::string >(m_option_initialProposalCovMatrix_dataInputFileName, m_initialProposalCovMatrixDataInputFileName, "name of input file for initial proposal covariance matrix"       );
  m_parser->registerOption<std::string >(m_option_initialProposalCovMatrix_dataInputFileType, m_initialProposalCovMatrixDataInputFileType, "type of input file for initial proposal covariance matrix"       );
  m_parser->registerOption<bool        >(m_option_initialPositionUsePreviousLevelLikelihood,  m_initialPositionUsePreviousLevelLikelihood, "use previous level likelihood for initial chain position instead of re-computing from target pdf");
  m_parser->registerOption<std::string >(m_option_listOfDisabledParameters,                   m_str2                                     , "list of disabled parameters"                                     );  // gpmsa2
  m_parser->registerOption<std::string >(m_option_initialValuesOfDisabledParameters,          m_str3                                     , "initial values of disabled parameters"                           );  // gpmsa2
  m_parser->registerOption<std::string >(m_option_rawChain_dataInputFileName,                 m_rawChainDataInputFileName                , "name of input file for raw chain "                               );
  m_parser->registerOption<std::string >(m_option_rawChain_dataInputFileType,                 m_rawChainDataInputFileType                , "type of input file for raw chain "                               );
  m_parser->registerOption<unsigned int>(m_option_rawChain_size,                              m_rawChainSize                             , "size of raw chain"                                               );
  m_parser->registerOption<bool        >(m_option_rawChain_generateExtra,                     m_rawChainGenerateExtra                    , "generate extra information about raw chain"                      );
  m_parser->registerOption<unsigned int>(m_option_rawChain_displayPeriod,                     m_rawChainDisplayPeriod                    , "period of message display during raw chain generation"           );
  m_parser->registerOption<bool        >(m_option_rawChain_measureRunTimes,                   m_rawChainMeasureRunTimes                  , "measure run times"                                               );
  m_parser->registerOption<unsigned int>(m_option_rawChain_dataOutputPeriod,                  m_rawChainDataOutputPeriod                 , "period of message display during raw chain generation"           );
  m_parser->registerOption<std::string >(m_option_rawChain_dataOutputFileName,                m_rawChainDataOutputFileName               , "name of output file for raw chain "                              );
  m_parser->registerOption<std::string >(m_option_rawChain_dataOutputFileType,                m_rawChainDataOutputFileType               , "type of output file for raw chain "                              );
  m_parser->registerOption<bool        >(m_option_rawChain_dataOutputAllowAll,                m_rawChainDataOutputAllowAll               , "subEnvs that will write to output file for raw chain"            );
  m_parser->registerOption<std::string >(m_option_rawChain_dataOutputAllowedSet,              m_str4                                     , "subEnvs that will write to output file for raw chain"            );
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_parser->registerOption<bool        >(m_option_rawChain_computeStats,                      m_rawChainComputeStats                     , "compute statistics on raw chain"                                 );
#endif
  m_parser->registerOption<bool        >(m_option_filteredChain_generate,                     m_filteredChainGenerate                    , "generate filtered chain"                                         );
  m_parser->registerOption<double      >(m_option_filteredChain_discardedPortion,             m_filteredChainDiscardedPortion            , "initial discarded portion for chain filtering"                   );
  m_parser->registerOption<unsigned int>(m_option_filteredChain_lag,                          m_filteredChainLag                         , "spacing for chain filtering"                                     );
  m_parser->registerOption<std::string >(m_option_filteredChain_dataOutputFileName,           m_filteredChainDataOutputFileName          , "name of output file for filtered chain"                          );
  m_parser->registerOption<std::string >(m_option_filteredChain_dataOutputFileType,           m_filteredChainDataOutputFileType          , "type of output file for filtered chain"                          );
  m_parser->registerOption<bool        >(m_option_filteredChain_dataOutputAllowAll,           m_filteredChainDataOutputAllowAll          , "subEnvs that will write to output file for filtered chain"       );
  m_parser->registerOption<std::string >(m_option_filteredChain_dataOutputAllowedSet,         m_str5                                     , "subEnvs that will write to output file for filtered chain"       );
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_parser->registerOption<bool        >(m_option_filteredChain_computeStats,                 m_filteredChainComputeStats                , "compute statistics on filtered chain"                            );
#endif
  m_parser->registerOption<bool        >(m_option_displayCandidates,                          m_displayCandidates                        , "display candidates generated in the core MH algorithm"           );
  m_parser->registerOption<bool        >(m_option_putOutOfBoundsInChain,                      m_putOutOfBoundsInChain                    , "put 'out of bound' candidates in chain as well"                  );
  m_parser->registerOption<bool        >(m_option_tk_useLocalHessian,                         m_tkUseLocalHessian                        , "'proposal' use local Hessian"                                    );
  m_parser->registerOption<bool        >(m_option_tk_useNewtonComponent,                      m_tkUseNewtonComponent                     , "'proposal' use Newton component"                                 );
  m_parser->registerOption<unsigned int>(m_option_dr_maxNumExtraStages,                       m_drMaxNumExtraStages                      , "'dr' maximum number of extra stages"                             );
  m_parser->registerOption<std::string >(m_option_dr_listOfScalesForExtraStages,              m_str6                                     , "'dr' list of scales for proposal cov matrices from 2nd stage on" );
  m_parser->registerOption<bool        >(m_option_dr_duringAmNonAdaptiveInt,                  m_drDuringAmNonAdaptiveInt                 , "'dr' used during 'am' non adaptive interval"                     );
  m_parser->registerOption<bool        >(m_option_am_keepInitialMatrix,                       m_amKeepInitialMatrix                      , "'am' keep initial (given) matrix"                                );
  m_parser->registerOption<unsigned int>(m_option_am_initialNonAdaptInterval,                 m_amInitialNonAdaptInterval                , "'am' initial non adaptation interval"                            );
  m_parser->registerOption<unsigned int>(m_option_am_adaptInterval,                           m_amAdaptInterval                          , "'am' adaptation interval"                                        );
  m_parser->registerOption<unsigned int>(m_option_am_adaptedMatrices_dataOutputPeriod,        m_amAdaptedMatricesDataOutputPeriod        , "period for outputing 'am' adapted matrices"                      );
  m_parser->registerOption<std::string >(m_option_am_adaptedMatrices_dataOutputFileName,      m_amAdaptedMatricesDataOutputFileName      , "name of output file for 'am' adapted matrices"                   );
  m_parser->registerOption<std::string >(m_option_am_adaptedMatrices_dataOutputFileType,      m_amAdaptedMatricesDataOutputFileType      , "type of output file for 'am' adapted matrices"                   );
  m_parser->registerOption<bool        >(m_option_am_adaptedMatrices_dataOutputAllowAll,      m_amAdaptedMatricesDataOutputAllowAll      , "type of output file for 'am' adapted matrices"                   );
  m_parser->registerOption<std::string >(m_option_am_adaptedMatrices_dataOutputAllowedSet,    m_str7                                     , "type of output file for 'am' adapted matrices"                   );
  m_parser->registerOption<double      >(m_option_am_eta,                                     m_amEta                                    , "'am' eta"                                                        );
  m_parser->registerOption<double      >(m_option_am_epsilon,                                 m_amEpsilon                                , "'am' epsilon"                                                    );
  m_parser->registerOption<bool        >(m_option_doLogitTransform,                           UQ_ML_SAMPLING_L_DO_LOGIT_TRANSFORM        , "flag for doing logit transform for bounded domains"              );
  m_parser->registerOption<std::string >(m_option_algorithm,                                  UQ_ML_SAMPLING_L_ALGORITHM                 , "which algorithm to use for sampling"                             );
  m_parser->registerOption<std::string >(m_option_tk,                                         UQ_ML_SAMPLING_L_TK                        , "which transition kernel to use for sampling"                     );
  m_parser->registerOption<unsigned int>(m_option_updateInterval,                             UQ_ML_SAMPLING_L_UPDATE_INTERVAL           , "how often to call TK's updateTK method"                          );
#endif  // QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
}

const BaseEnvironment & QUESO::MLSamplingLevelOptions::env

(

)

const

Access to the environment.

Definition at line 837 of file MLSamplingLevelOptions.C.

References m_env.

{
  return m_env;
}

void QUESO::MLSamplingLevelOptions::getAllOptions ( )

private

Definition at line 278 of file MLSamplingLevelOptions.C.

References QUESO::BoostInputOptionsParser::getOption(), QUESO::BaseEnvironment::input(), m_algorithm, m_amAdaptedMatricesDataOutputAllowAll, m_amAdaptedMatricesDataOutputAllowedSet, m_amAdaptedMatricesDataOutputFileName, m_amAdaptedMatricesDataOutputFileType, m_amAdaptedMatricesDataOutputPeriod, m_amAdaptInterval, m_amEpsilon, m_amEta, m_amInitialNonAdaptInterval, m_amKeepInitialMatrix, m_checkpointOutputFileName, m_covRejectionRate, m_dataOutputAllowAll, m_dataOutputAllowedSet, m_dataOutputFileName, m_displayCandidates, m_doLogitTransform, m_drDuringAmNonAdaptiveInt, m_drMaxNumExtraStages, m_drScalesForExtraStages, m_env, m_filteredChainComputeStats, m_filteredChainDataOutputAllowAll, m_filteredChainDataOutputAllowedSet, m_filteredChainDataOutputFileName, m_filteredChainDataOutputFileType, m_filteredChainDiscardedPortion, m_filteredChainGenerate, m_filteredChainLag, m_help, m_initialPositionDataInputFileName, m_initialPositionDataInputFileType, m_initialPositionUsePreviousLevelLikelihood, m_initialProposalCovMatrixDataInputFileName, m_initialProposalCovMatrixDataInputFileType, m_initialValuesOfDisabledParameters, m_loadBalanceAlgorithmId, m_loadBalanceTreshold, m_maxEffectiveSizeRatio, m_maxRejectionRate, m_minAcceptableEta, m_minEffectiveSizeRatio, m_minRejectionRate, m_option_algorithm, m_option_am_adaptedMatrices_dataOutputAllowAll, m_option_am_adaptedMatrices_dataOutputAllowedSet, m_option_am_adaptedMatrices_dataOutputFileName, m_option_am_adaptedMatrices_dataOutputFileType, m_option_am_adaptedMatrices_dataOutputPeriod, m_option_am_adaptInterval, m_option_am_epsilon, m_option_am_eta, m_option_am_initialNonAdaptInterval, m_option_am_keepInitialMatrix, m_option_checkpointOutputFileName, m_option_covRejectionRate, m_option_dataOutputAllowAll, m_option_dataOutputAllowedSet, m_option_dataOutputFileName, m_option_displayCandidates, m_option_doLogitTransform, m_option_dr_duringAmNonAdaptiveInt, m_option_dr_listOfScalesForExtraStages, m_option_dr_maxNumExtraStages, m_option_filteredChain_computeStats, m_option_filteredChain_dataOutputAllowAll, m_option_filteredChain_dataOutputAllowedSet, m_option_filteredChain_dataOutputFileName, m_option_filteredChain_dataOutputFileType, m_option_filteredChain_discardedPortion, m_option_filteredChain_generate, m_option_filteredChain_lag, m_option_help, m_option_initialPosition_dataInputFileName, m_option_initialPosition_dataInputFileType, m_option_initialPositionUsePreviousLevelLikelihood, m_option_initialProposalCovMatrix_dataInputFileName, m_option_initialProposalCovMatrix_dataInputFileType, m_option_initialValuesOfDisabledParameters, m_option_listOfDisabledParameters, m_option_loadBalanceAlgorithmId, m_option_loadBalanceTreshold, m_option_maxEffectiveSizeRatio, m_option_maxRejectionRate, m_option_minAcceptableEta, m_option_minEffectiveSizeRatio, m_option_minRejectionRate, m_option_putOutOfBoundsInChain, m_option_rawChain_computeStats, m_option_rawChain_dataInputFileName, m_option_rawChain_dataInputFileType, m_option_rawChain_dataOutputAllowAll, m_option_rawChain_dataOutputAllowedSet, m_option_rawChain_dataOutputFileName, m_option_rawChain_dataOutputFileType, m_option_rawChain_dataOutputPeriod, m_option_rawChain_displayPeriod, m_option_rawChain_generateExtra, m_option_rawChain_measureRunTimes, m_option_rawChain_size, m_option_scaleCovMatrix, m_option_stopAtEnd, m_option_tk, m_option_tk_useLocalHessian, m_option_tk_useNewtonComponent, m_option_totallyMute, m_option_updateInterval, m_parameterDisabledSet, m_parser, m_putOutOfBoundsInChain, m_rawChainComputeStats, m_rawChainDataInputFileName, m_rawChainDataInputFileType, m_rawChainDataOutputAllowAll, m_rawChainDataOutputAllowedSet, m_rawChainDataOutputFileName, m_rawChainDataOutputFileType, m_rawChainDataOutputPeriod, m_rawChainDisplayPeriod, m_rawChainGenerateExtra, m_rawChainMeasureRunTimes, m_rawChainSize, m_scaleCovMatrix, m_stopAtEnd, m_tk, m_tkUseLocalHessian, m_tkUseNewtonComponent, m_totallyMute, m_updateInterval, and QUESO::size.

Referenced by MLSamplingLevelOptions(), and scanOptionsValues().

{
#ifndef QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  m_parser->getOption<std::string >(m_option_help,                                       m_help);
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
  m_parser->getOption<std::string >(m_option_checkpointOutputFileName,                   m_checkpointOutputFileName                 );
#endif
  m_parser->getOption<bool        >(m_option_stopAtEnd,                                  m_stopAtEnd                                );
  m_parser->getOption<std::string >(m_option_dataOutputFileName,                         m_dataOutputFileName                       );
  m_parser->getOption<bool        >(m_option_dataOutputAllowAll,                         m_dataOutputAllowAll                       );
  m_parser->getOption<std::set<unsigned int> >(m_option_dataOutputAllowedSet,                       m_dataOutputAllowedSet);
  m_parser->getOption<unsigned int>(m_option_loadBalanceAlgorithmId,                     m_loadBalanceAlgorithmId                   );
  m_parser->getOption<double      >(m_option_loadBalanceTreshold,                        m_loadBalanceTreshold                      );
  m_parser->getOption<double      >(m_option_minEffectiveSizeRatio,                      m_minEffectiveSizeRatio                    );
  m_parser->getOption<double      >(m_option_maxEffectiveSizeRatio,                      m_maxEffectiveSizeRatio                    );
  m_parser->getOption<bool        >(m_option_scaleCovMatrix,                             m_scaleCovMatrix                           );
  m_parser->getOption<double      >(m_option_minRejectionRate,                           m_minRejectionRate                         );
  m_parser->getOption<double      >(m_option_maxRejectionRate,                           m_maxRejectionRate                         );
  m_parser->getOption<double      >(m_option_covRejectionRate,                           m_covRejectionRate                         );
  m_parser->getOption<double      >(m_option_minAcceptableEta,                           m_minAcceptableEta                         );
  m_parser->getOption<bool        >(m_option_totallyMute,                                m_totallyMute                              );
  m_parser->getOption<std::string >(m_option_initialPosition_dataInputFileName,          m_initialPositionDataInputFileName         );
  m_parser->getOption<std::string >(m_option_initialPosition_dataInputFileType,          m_initialPositionDataInputFileType         );
  m_parser->getOption<std::string >(m_option_initialProposalCovMatrix_dataInputFileName, m_initialProposalCovMatrixDataInputFileName);
  m_parser->getOption<std::string >(m_option_initialProposalCovMatrix_dataInputFileType, m_initialProposalCovMatrixDataInputFileType);
  m_parser->getOption<bool        >(m_option_initialPositionUsePreviousLevelLikelihood,  m_initialPositionUsePreviousLevelLikelihood);
  m_parser->getOption<std::set<unsigned int> >(m_option_listOfDisabledParameters,                   m_parameterDisabledSet);  // gpmsa2
  m_parser->getOption<std::vector<double> >(m_option_initialValuesOfDisabledParameters,          m_initialValuesOfDisabledParameters);  // gpmsa2
  m_parser->getOption<std::string >(m_option_rawChain_dataInputFileName,                 m_rawChainDataInputFileName                );
  m_parser->getOption<std::string >(m_option_rawChain_dataInputFileType,                 m_rawChainDataInputFileType                );
  m_parser->getOption<unsigned int>(m_option_rawChain_size,                              m_rawChainSize                             );
  m_parser->getOption<bool        >(m_option_rawChain_generateExtra,                     m_rawChainGenerateExtra                    );
  m_parser->getOption<unsigned int>(m_option_rawChain_displayPeriod,                     m_rawChainDisplayPeriod                    );
  m_parser->getOption<bool        >(m_option_rawChain_measureRunTimes,                   m_rawChainMeasureRunTimes                  );
  m_parser->getOption<unsigned int>(m_option_rawChain_dataOutputPeriod,                  m_rawChainDataOutputPeriod                 );
  m_parser->getOption<std::string >(m_option_rawChain_dataOutputFileName,                m_rawChainDataOutputFileName               );
  m_parser->getOption<std::string >(m_option_rawChain_dataOutputFileType,                m_rawChainDataOutputFileType               );
  m_parser->getOption<bool        >(m_option_rawChain_dataOutputAllowAll,                m_rawChainDataOutputAllowAll               );
  m_parser->getOption<std::set<unsigned int> >(m_option_rawChain_dataOutputAllowedSet,              m_rawChainDataOutputAllowedSet);
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_parser->getOption<bool        >(m_option_rawChain_computeStats,                      m_rawChainComputeStats                     );
#endif
  m_parser->getOption<bool        >(m_option_filteredChain_generate,                     m_filteredChainGenerate                    );
  m_parser->getOption<double      >(m_option_filteredChain_discardedPortion,             m_filteredChainDiscardedPortion            );
  m_parser->getOption<unsigned int>(m_option_filteredChain_lag,                          m_filteredChainLag                         );
  m_parser->getOption<std::string >(m_option_filteredChain_dataOutputFileName,           m_filteredChainDataOutputFileName          );
  m_parser->getOption<std::string >(m_option_filteredChain_dataOutputFileType,           m_filteredChainDataOutputFileType          );
  m_parser->getOption<bool        >(m_option_filteredChain_dataOutputAllowAll,           m_filteredChainDataOutputAllowAll          );
  m_parser->getOption<std::set<unsigned int> >(m_option_filteredChain_dataOutputAllowedSet,         m_filteredChainDataOutputAllowedSet);
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_parser->getOption<bool        >(m_option_filteredChain_computeStats,                 m_filteredChainComputeStats                );
#endif
  m_parser->getOption<bool        >(m_option_displayCandidates,                          m_displayCandidates                        );
  m_parser->getOption<bool        >(m_option_putOutOfBoundsInChain,                      m_putOutOfBoundsInChain                    );
  m_parser->getOption<bool        >(m_option_tk_useLocalHessian,                         m_tkUseLocalHessian                        );
  m_parser->getOption<bool        >(m_option_tk_useNewtonComponent,                      m_tkUseNewtonComponent                     );
  m_parser->getOption<unsigned int>(m_option_dr_maxNumExtraStages,                       m_drMaxNumExtraStages                      );
  m_parser->getOption<std::vector<double> >(m_option_dr_listOfScalesForExtraStages,              m_drScalesForExtraStages);
  m_parser->getOption<bool        >(m_option_dr_duringAmNonAdaptiveInt,                  m_drDuringAmNonAdaptiveInt                 );
  m_parser->getOption<bool        >(m_option_am_keepInitialMatrix,                       m_amKeepInitialMatrix                      );
  m_parser->getOption<unsigned int>(m_option_am_initialNonAdaptInterval,                 m_amInitialNonAdaptInterval                );
  m_parser->getOption<unsigned int>(m_option_am_adaptInterval,                           m_amAdaptInterval                          );
  m_parser->getOption<unsigned int>(m_option_am_adaptedMatrices_dataOutputPeriod,        m_amAdaptedMatricesDataOutputPeriod        );
  m_parser->getOption<std::string >(m_option_am_adaptedMatrices_dataOutputFileName,      m_amAdaptedMatricesDataOutputFileName      );
  m_parser->getOption<std::string >(m_option_am_adaptedMatrices_dataOutputFileType,      m_amAdaptedMatricesDataOutputFileType      );
  m_parser->getOption<bool        >(m_option_am_adaptedMatrices_dataOutputAllowAll,      m_amAdaptedMatricesDataOutputAllowAll      );
  m_parser->getOption<std::set<unsigned int> >(m_option_am_adaptedMatrices_dataOutputAllowedSet,    m_amAdaptedMatricesDataOutputAllowedSet);
  m_parser->getOption<double      >(m_option_am_eta,                                     m_amEta                                    );
  m_parser->getOption<double      >(m_option_am_epsilon,                                 m_amEpsilon                                );
  m_parser->getOption<bool        >(m_option_doLogitTransform,                           m_doLogitTransform);
  m_parser->getOption<std::string >(m_option_algorithm,                                  m_algorithm);
  m_parser->getOption<std::string >(m_option_tk,                                         m_tk);
  m_parser->getOption<unsigned int>(m_option_updateInterval,                             m_updateInterval);
#else
  m_help = m_env.input()(m_option_help,                                       UQ_ML_SAMPLING_L_HELP                      );
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
  m_checkpointOutputFileName                  = m_env.input()(m_option_checkpointOutputFileName,                   m_checkpointOutputFileName                 );
#endif
  m_stopAtEnd                                 = m_env.input()(m_option_stopAtEnd,                                  m_stopAtEnd                                );
  m_dataOutputFileName                        = m_env.input()(m_option_dataOutputFileName,                         m_dataOutputFileName                       );
  m_dataOutputAllowAll                        = m_env.input()(m_option_dataOutputAllowAll,                         m_dataOutputAllowAll                       );

  // Is the empty set (string) by default
  unsigned int size = m_env.input().vector_variable_size(m_option_dataOutputAllowedSet);
  for (unsigned int i = 0; i < size; i++) {
    // We default to empty set, so the default values are actually never
    // used here
    unsigned int allowed = m_env.input()(m_option_dataOutputAllowedSet, i, i);
    m_dataOutputAllowedSet.insert(allowed);
  }

  m_loadBalanceAlgorithmId                    = m_env.input()(m_option_loadBalanceAlgorithmId,                     m_loadBalanceAlgorithmId                   );
  m_loadBalanceTreshold                       = m_env.input()(m_option_loadBalanceTreshold,                        m_loadBalanceTreshold                      );
  m_minEffectiveSizeRatio                     = m_env.input()(m_option_minEffectiveSizeRatio,                      m_minEffectiveSizeRatio                    );
  m_maxEffectiveSizeRatio                     = m_env.input()(m_option_maxEffectiveSizeRatio,                      m_maxEffectiveSizeRatio                    );
  m_scaleCovMatrix                            = m_env.input()(m_option_scaleCovMatrix,                             m_scaleCovMatrix                           );
  m_minRejectionRate                          = m_env.input()(m_option_minRejectionRate,                           m_minRejectionRate                         );
  m_maxRejectionRate                          = m_env.input()(m_option_maxRejectionRate,                           m_maxRejectionRate                         );
  m_covRejectionRate                          = m_env.input()(m_option_covRejectionRate,                           m_covRejectionRate                         );
  m_minAcceptableEta                          = m_env.input()(m_option_minAcceptableEta,                           m_minAcceptableEta                         );
  m_totallyMute                               = m_env.input()(m_option_totallyMute,                                m_totallyMute                              );
  m_initialPositionDataInputFileName          = m_env.input()(m_option_initialPosition_dataInputFileName,          m_initialPositionDataInputFileName         );
  m_initialPositionDataInputFileType          = m_env.input()(m_option_initialPosition_dataInputFileType,          m_initialPositionDataInputFileType         );
  m_initialProposalCovMatrixDataInputFileName = m_env.input()(m_option_initialProposalCovMatrix_dataInputFileName, m_initialProposalCovMatrixDataInputFileName);
  m_initialProposalCovMatrixDataInputFileType = m_env.input()(m_option_initialProposalCovMatrix_dataInputFileType, m_initialProposalCovMatrixDataInputFileType);
  m_initialPositionUsePreviousLevelLikelihood = m_env.input()(m_option_initialPositionUsePreviousLevelLikelihood,  m_initialPositionUsePreviousLevelLikelihood);

  // Is the empty set (string) by default
  size = m_env.input().vector_variable_size(m_option_listOfDisabledParameters);
  for (unsigned int i = 0; i < size; i++) {
    // We default to empty set, so the default values are actually never
    // used here
    unsigned int allowed = m_env.input()(m_option_listOfDisabledParameters, i, i);
    m_parameterDisabledSet.insert(allowed);
  }

  // Is the empty set (string) by default
  size = m_env.input().vector_variable_size(m_option_initialValuesOfDisabledParameters);
  for (unsigned int i = 0; i < size; i++) {
    // We default to empty set, so the default values are actually never
    // used here
    unsigned int value = m_env.input()(m_option_initialValuesOfDisabledParameters, i, i);
    m_initialValuesOfDisabledParameters.push_back(value);
  }

  m_rawChainDataInputFileName                 = m_env.input()(m_option_rawChain_dataInputFileName,                 m_rawChainDataInputFileName                );
  m_rawChainDataInputFileType                 = m_env.input()(m_option_rawChain_dataInputFileType,                 m_rawChainDataInputFileType                );
  m_rawChainSize                              = m_env.input()(m_option_rawChain_size,                              m_rawChainSize                             );
  m_rawChainGenerateExtra                     = m_env.input()(m_option_rawChain_generateExtra,                     m_rawChainGenerateExtra                    );
  m_rawChainDisplayPeriod                     = m_env.input()(m_option_rawChain_displayPeriod,                     m_rawChainDisplayPeriod                    );
  m_rawChainMeasureRunTimes                   = m_env.input()(m_option_rawChain_measureRunTimes,                   m_rawChainMeasureRunTimes                  );
  m_rawChainDataOutputPeriod                  = m_env.input()(m_option_rawChain_dataOutputPeriod,                  m_rawChainDataOutputPeriod                 );
  m_rawChainDataOutputFileName                = m_env.input()(m_option_rawChain_dataOutputFileName,                m_rawChainDataOutputFileName               );
  m_rawChainDataOutputFileType                = m_env.input()(m_option_rawChain_dataOutputFileType,                m_rawChainDataOutputFileType               );
  m_rawChainDataOutputAllowAll                = m_env.input()(m_option_rawChain_dataOutputAllowAll,                m_rawChainDataOutputAllowAll               );

  // Is the empty set (string) by default
  size = m_env.input().vector_variable_size(m_option_rawChain_dataOutputAllowedSet);
  for (unsigned int i = 0; i < size; i++) {
    // We default to empty set, so the default values are actually never
    // used here
    unsigned int allowed = m_env.input()(m_option_rawChain_dataOutputAllowedSet, i, i);
    m_rawChainDataOutputAllowedSet.insert(allowed);
  }

#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_rawChainComputeStats                      = m_env.input()(m_option_rawChain_computeStats,                      m_rawChainComputeStats                     );
#endif
  m_filteredChainGenerate                     = m_env.input()(m_option_filteredChain_generate,                     m_filteredChainGenerate                    );
  m_filteredChainDiscardedPortion             = m_env.input()(m_option_filteredChain_discardedPortion,             m_filteredChainDiscardedPortion            );
  m_filteredChainLag                          = m_env.input()(m_option_filteredChain_lag,                          m_filteredChainLag                         );
  m_filteredChainDataOutputFileName           = m_env.input()(m_option_filteredChain_dataOutputFileName,           m_filteredChainDataOutputFileName          );
  m_filteredChainDataOutputFileType           = m_env.input()(m_option_filteredChain_dataOutputFileType,           m_filteredChainDataOutputFileType          );
  m_filteredChainDataOutputAllowAll           = m_env.input()(m_option_filteredChain_dataOutputAllowAll,           m_filteredChainDataOutputAllowAll          );

  // Is the empty set (string) by default
  size = m_env.input().vector_variable_size(m_option_filteredChain_dataOutputAllowedSet);
  for (unsigned int i = 0; i < size; i++) {
    // We default to empty set, so the default values are actually never
    // used here
    unsigned int allowed = m_env.input()(m_option_filteredChain_dataOutputAllowedSet, i, i);
    m_filteredChainDataOutputAllowedSet.insert(allowed);
  }

#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  m_filteredChainComputeStats                 = m_env.input()(m_option_filteredChain_computeStats,                 m_filteredChainComputeStats                );
#endif
  m_displayCandidates                         = m_env.input()(m_option_displayCandidates,                          m_displayCandidates                        );
  m_putOutOfBoundsInChain                     = m_env.input()(m_option_putOutOfBoundsInChain,                      m_putOutOfBoundsInChain                    );
  m_tkUseLocalHessian                         = m_env.input()(m_option_tk_useLocalHessian,                         m_tkUseLocalHessian                        );
  m_tkUseNewtonComponent                      = m_env.input()(m_option_tk_useNewtonComponent,                      m_tkUseNewtonComponent                     );
  m_drMaxNumExtraStages                       = m_env.input()(m_option_dr_maxNumExtraStages,                       m_drMaxNumExtraStages                      );

  // Is the empty set (string) by default
  size = m_env.input().vector_variable_size(m_option_dr_listOfScalesForExtraStages);

  m_drScalesForExtraStages.clear();
  for (unsigned int i = 0; i < size; i++) {
    unsigned int value = m_env.input()(m_option_dr_listOfScalesForExtraStages, i, i);
    m_drScalesForExtraStages.push_back(value);
  }

  m_drDuringAmNonAdaptiveInt                  = m_env.input()(m_option_dr_duringAmNonAdaptiveInt,                  m_drDuringAmNonAdaptiveInt                 );
  m_amKeepInitialMatrix                       = m_env.input()(m_option_am_keepInitialMatrix,                       m_amKeepInitialMatrix                      );
  m_amInitialNonAdaptInterval                 = m_env.input()(m_option_am_initialNonAdaptInterval,                 m_amInitialNonAdaptInterval                );
  m_amAdaptInterval                           = m_env.input()(m_option_am_adaptInterval,                           m_amAdaptInterval                          );
  m_amAdaptedMatricesDataOutputPeriod         = m_env.input()(m_option_am_adaptedMatrices_dataOutputPeriod,        m_amAdaptedMatricesDataOutputPeriod        );
  m_amAdaptedMatricesDataOutputFileName       = m_env.input()(m_option_am_adaptedMatrices_dataOutputFileName,      m_amAdaptedMatricesDataOutputFileName      );
  m_amAdaptedMatricesDataOutputFileType       = m_env.input()(m_option_am_adaptedMatrices_dataOutputFileType,      m_amAdaptedMatricesDataOutputFileType      );
  m_amAdaptedMatricesDataOutputAllowAll       = m_env.input()(m_option_am_adaptedMatrices_dataOutputAllowAll,      m_amAdaptedMatricesDataOutputAllowAll      );

  size = m_env.input().vector_variable_size(m_option_am_adaptedMatrices_dataOutputAllowedSet);
  for (unsigned int i = 0; i < size; i++) {
    // We default to empty set, so the default values are actually never
    // used here
    unsigned int allowed = m_env.input()(m_option_am_adaptedMatrices_dataOutputAllowedSet, i, i);
    m_amAdaptedMatricesDataOutputAllowedSet.insert(allowed);
  }

  m_amEta                                     = m_env.input()(m_option_am_eta,                                     m_amEta                                    );
  m_amEpsilon                                 = m_env.input()(m_option_am_epsilon,                                 m_amEpsilon                                );
  m_doLogitTransform                          = m_env.input()(m_option_doLogitTransform,                           UQ_ML_SAMPLING_L_DO_LOGIT_TRANSFORM        );
  m_algorithm                                 = m_env.input()(m_option_algorithm,                                  UQ_ML_SAMPLING_L_ALGORITHM                 );
  m_tk                                        = m_env.input()(m_option_tk,                                         UQ_ML_SAMPLING_L_TK                        );
  m_updateInterval                            = m_env.input()(m_option_updateInterval,                             UQ_ML_SAMPLING_L_UPDATE_INTERVAL           );
#endif  // QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
}

void QUESO::MLSamplingLevelOptions::print

(

std::ostream &

os

)

const

Definition at line 735 of file MLSamplingLevelOptions.C.

References m_algorithm, m_amAdaptedMatricesDataOutputAllowAll, m_amAdaptedMatricesDataOutputAllowedSet, m_amAdaptedMatricesDataOutputFileName, m_amAdaptedMatricesDataOutputFileType, m_amAdaptedMatricesDataOutputPeriod, m_amAdaptInterval, m_amEpsilon, m_amEta, m_amInitialNonAdaptInterval, m_amKeepInitialMatrix, m_checkpointOutputFileName, m_covRejectionRate, m_dataOutputAllowAll, m_dataOutputAllowedSet, m_dataOutputFileName, m_displayCandidates, m_doLogitTransform, m_drDuringAmNonAdaptiveInt, m_drMaxNumExtraStages, m_drScalesForExtraStages, m_filteredChainComputeStats, m_filteredChainDataOutputAllowAll, m_filteredChainDataOutputAllowedSet, m_filteredChainDataOutputFileName, m_filteredChainDataOutputFileType, m_filteredChainDiscardedPortion, m_filteredChainGenerate, m_filteredChainLag, m_initialPositionDataInputFileName, m_initialPositionDataInputFileType, m_initialPositionUsePreviousLevelLikelihood, m_initialProposalCovMatrixDataInputFileName, m_initialProposalCovMatrixDataInputFileType, m_initialValuesOfDisabledParameters, m_loadBalanceAlgorithmId, m_loadBalanceTreshold, m_maxEffectiveSizeRatio, m_maxRejectionRate, m_minAcceptableEta, m_minEffectiveSizeRatio, m_minRejectionRate, m_option_algorithm, m_option_am_adaptedMatrices_dataOutputAllowAll, m_option_am_adaptedMatrices_dataOutputAllowedSet, m_option_am_adaptedMatrices_dataOutputFileName, m_option_am_adaptedMatrices_dataOutputFileType, m_option_am_adaptedMatrices_dataOutputPeriod, m_option_am_adaptInterval, m_option_am_epsilon, m_option_am_eta, m_option_am_initialNonAdaptInterval, m_option_am_keepInitialMatrix, m_option_checkpointOutputFileName, m_option_covRejectionRate, m_option_dataOutputAllowAll, m_option_dataOutputAllowedSet, m_option_dataOutputFileName, m_option_displayCandidates, m_option_doLogitTransform, m_option_dr_duringAmNonAdaptiveInt, m_option_dr_listOfScalesForExtraStages, m_option_dr_maxNumExtraStages, m_option_filteredChain_computeStats, m_option_filteredChain_dataOutputAllowAll, m_option_filteredChain_dataOutputAllowedSet, m_option_filteredChain_dataOutputFileName, m_option_filteredChain_dataOutputFileType, m_option_filteredChain_discardedPortion, m_option_filteredChain_generate, m_option_filteredChain_lag, m_option_initialPosition_dataInputFileName, m_option_initialPosition_dataInputFileType, m_option_initialPositionUsePreviousLevelLikelihood, m_option_initialProposalCovMatrix_dataInputFileName, m_option_initialProposalCovMatrix_dataInputFileType, m_option_initialValuesOfDisabledParameters, m_option_listOfDisabledParameters, m_option_loadBalanceAlgorithmId, m_option_loadBalanceTreshold, m_option_maxEffectiveSizeRatio, m_option_maxRejectionRate, m_option_minAcceptableEta, m_option_minEffectiveSizeRatio, m_option_minRejectionRate, m_option_putOutOfBoundsInChain, m_option_rawChain_computeStats, m_option_rawChain_dataInputFileName, m_option_rawChain_dataInputFileType, m_option_rawChain_dataOutputAllowAll, m_option_rawChain_dataOutputAllowedSet, m_option_rawChain_dataOutputFileName, m_option_rawChain_dataOutputFileType, m_option_rawChain_dataOutputPeriod, m_option_rawChain_displayPeriod, m_option_rawChain_generateExtra, m_option_rawChain_measureRunTimes, m_option_rawChain_size, m_option_scaleCovMatrix, m_option_stopAtEnd, m_option_tk, m_option_tk_useLocalHessian, m_option_tk_useNewtonComponent, m_option_totallyMute, m_option_updateInterval, m_parameterDisabledSet, m_prefix, m_putOutOfBoundsInChain, m_rawChainComputeStats, m_rawChainDataInputFileName, m_rawChainDataInputFileType, m_rawChainDataOutputAllowAll, m_rawChainDataOutputAllowedSet, m_rawChainDataOutputFileName, m_rawChainDataOutputFileType, m_rawChainDataOutputPeriod, m_rawChainDisplayPeriod, m_rawChainGenerateExtra, m_rawChainMeasureRunTimes, m_rawChainSize, m_scaleCovMatrix, m_stopAtEnd, m_tk, m_tkUseLocalHessian, m_tkUseNewtonComponent, m_totallyMute, and m_updateInterval.

Referenced by QUESO::operator<<().

{
  os <<        "m_prefix"                         << " = " << m_prefix
#ifdef ML_CODE_HAS_NEW_RESTART_CAPABILITY
#else
     << "\n" << m_option_checkpointOutputFileName << " = " << m_checkpointOutputFileName
#endif
     << "\n" << m_option_stopAtEnd                << " = " << m_stopAtEnd
     << "\n" << m_option_dataOutputFileName       << " = " << m_dataOutputFileName
     << "\n" << m_option_dataOutputAllowAll       << " = " << m_dataOutputAllowAll
     << "\n" << m_option_dataOutputAllowedSet     << " = ";
  for (std::set<unsigned int>::iterator setIt = m_dataOutputAllowedSet.begin(); setIt != m_dataOutputAllowedSet.end(); ++setIt) {
    os << *setIt << " ";
  }
  os << "\n" << m_option_loadBalanceAlgorithmId                     << " = " << m_loadBalanceAlgorithmId
     << "\n" << m_option_loadBalanceTreshold                        << " = " << m_loadBalanceTreshold
     << "\n" << m_option_minEffectiveSizeRatio                      << " = " << m_minEffectiveSizeRatio
     << "\n" << m_option_maxEffectiveSizeRatio                      << " = " << m_maxEffectiveSizeRatio
     << "\n" << m_option_scaleCovMatrix                             << " = " << m_scaleCovMatrix
     << "\n" << m_option_minRejectionRate                           << " = " << m_minRejectionRate
     << "\n" << m_option_maxRejectionRate                           << " = " << m_maxRejectionRate
     << "\n" << m_option_covRejectionRate                           << " = " << m_covRejectionRate
     << "\n" << m_option_minAcceptableEta                           << " = " << m_minAcceptableEta // gpmsa1
     << "\n" << m_option_totallyMute                                << " = " << m_totallyMute
     << "\n" << m_option_initialPosition_dataInputFileName          << " = " << m_initialPositionDataInputFileName
     << "\n" << m_option_initialPosition_dataInputFileType          << " = " << m_initialPositionDataInputFileType
     << "\n" << m_option_initialProposalCovMatrix_dataInputFileName << " = " << m_initialProposalCovMatrixDataInputFileName
     << "\n" << m_option_initialProposalCovMatrix_dataInputFileType << " = " << m_initialProposalCovMatrixDataInputFileType
     << "\n" << m_option_initialPositionUsePreviousLevelLikelihood  << " = " << m_initialPositionUsePreviousLevelLikelihood
     << "\n" << m_option_listOfDisabledParameters                   << " = "; // gpmsa2
  for (std::set<unsigned int>::iterator setIt = m_parameterDisabledSet.begin(); setIt != m_parameterDisabledSet.end(); ++setIt) {
    os << *setIt << " ";
  }
  os << "\n" << m_option_initialValuesOfDisabledParameters          << " = "; // gpmsa2
  for (unsigned int i = 0; i < m_initialValuesOfDisabledParameters.size(); ++i) {
    os << m_initialValuesOfDisabledParameters[i] << " ";
  }
  os << "\n" << m_option_rawChain_dataInputFileName                 << " = " << m_rawChainDataInputFileName
     << "\n" << m_option_rawChain_dataInputFileType                 << " = " << m_rawChainDataInputFileType
     << "\n" << m_option_rawChain_size                              << " = " << m_rawChainSize
     << "\n" << m_option_rawChain_generateExtra                     << " = " << m_rawChainGenerateExtra
     << "\n" << m_option_rawChain_displayPeriod                     << " = " << m_rawChainDisplayPeriod
     << "\n" << m_option_rawChain_measureRunTimes                   << " = " << m_rawChainMeasureRunTimes
     << "\n" << m_option_rawChain_dataOutputPeriod                  << " = " << m_rawChainDataOutputPeriod
     << "\n" << m_option_rawChain_dataOutputFileName                << " = " << m_rawChainDataOutputFileName
     << "\n" << m_option_rawChain_dataOutputFileType                << " = " << m_rawChainDataOutputFileType
     << "\n" << m_option_rawChain_dataOutputAllowAll                << " = " << m_rawChainDataOutputAllowAll
     << "\n" << m_option_rawChain_dataOutputAllowedSet              << " = ";
  for (std::set<unsigned int>::iterator setIt = m_rawChainDataOutputAllowedSet.begin(); setIt != m_rawChainDataOutputAllowedSet.end(); ++setIt) {
    os << *setIt << " ";
  }
  os
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
     << "\n" << m_option_rawChain_computeStats                      << " = " << m_rawChainComputeStats
#endif
     << "\n" << m_option_filteredChain_generate                     << " = " << m_filteredChainGenerate
     << "\n" << m_option_filteredChain_discardedPortion             << " = " << m_filteredChainDiscardedPortion
     << "\n" << m_option_filteredChain_lag                          << " = " << m_filteredChainLag
     << "\n" << m_option_filteredChain_dataOutputFileName           << " = " << m_filteredChainDataOutputFileName
     << "\n" << m_option_filteredChain_dataOutputFileType           << " = " << m_filteredChainDataOutputFileType
     << "\n" << m_option_filteredChain_dataOutputAllowAll           << " = " << m_filteredChainDataOutputAllowAll
     << "\n" << m_option_filteredChain_dataOutputAllowedSet         << " = ";
  for (std::set<unsigned int>::iterator setIt = m_filteredChainDataOutputAllowedSet.begin(); setIt != m_filteredChainDataOutputAllowedSet.end(); ++setIt) {
    os << *setIt << " ";
  }
  os
#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
     << "\n" << m_option_filteredChain_computeStats                 << " = " << m_filteredChainComputeStats
#endif
     << "\n" << m_option_displayCandidates                          << " = " << m_displayCandidates
     << "\n" << m_option_putOutOfBoundsInChain                      << " = " << m_putOutOfBoundsInChain
     << "\n" << m_option_tk_useLocalHessian                         << " = " << m_tkUseLocalHessian
     << "\n" << m_option_tk_useNewtonComponent                      << " = " << m_tkUseNewtonComponent
     << "\n" << m_option_dr_maxNumExtraStages                       << " = " << m_drMaxNumExtraStages
     << "\n" << m_option_dr_listOfScalesForExtraStages              << " = ";
  for (unsigned int i = 0; i < m_drScalesForExtraStages.size(); ++i) {
    os << m_drScalesForExtraStages[i] << " ";
  }
  os << "\n" << m_option_dr_duringAmNonAdaptiveInt                  << " = " << m_drDuringAmNonAdaptiveInt
     << "\n" << m_option_am_keepInitialMatrix                       << " = " << m_amKeepInitialMatrix
     << "\n" << m_option_am_initialNonAdaptInterval                 << " = " << m_amInitialNonAdaptInterval
     << "\n" << m_option_am_adaptInterval                           << " = " << m_amAdaptInterval
     << "\n" << m_option_am_adaptedMatrices_dataOutputPeriod        << " = " << m_amAdaptedMatricesDataOutputPeriod
     << "\n" << m_option_am_adaptedMatrices_dataOutputFileName      << " = " << m_amAdaptedMatricesDataOutputFileName
     << "\n" << m_option_am_adaptedMatrices_dataOutputFileType      << " = " << m_amAdaptedMatricesDataOutputFileType
     << "\n" << m_option_am_adaptedMatrices_dataOutputAllowAll      << " = " << m_amAdaptedMatricesDataOutputAllowAll
     << "\n" << m_option_am_adaptedMatrices_dataOutputAllowedSet    << " = ";
  for (std::set<unsigned int>::iterator setIt = m_amAdaptedMatricesDataOutputAllowedSet.begin(); setIt != m_amAdaptedMatricesDataOutputAllowedSet.end(); ++setIt) {
    os << *setIt << " ";
  }
  os << "\n" << m_option_am_eta                                     << " = " << m_amEta
     << "\n" << m_option_am_epsilon                                 << " = " << m_amEpsilon
     << "\n" << m_option_doLogitTransform                           << " = " << m_doLogitTransform
     << "\n" << m_option_algorithm                                  << " = " << m_algorithm
     << "\n" << m_option_tk                                         << " = " << m_tk
     << "\n" << m_option_updateInterval                             << " = " << m_updateInterval
     << std::endl;

  return;
}

void QUESO::MLSamplingLevelOptions::scanOptionsValues

(

const MLSamplingLevelOptions *

defaultOptions

)

It prints the option values. It scans the option values from the options input file.

Definition at line 591 of file MLSamplingLevelOptions.C.

References copyOptionsValues(), defineAllOptions(), getAllOptions(), m_env, m_filteredChainComputeStats, m_filteredChainStatisticalOptionsObj, m_filteredChainStatOptsInstantiated, m_parser, m_prefix, m_rawChainComputeStats, m_rawChainStatisticalOptionsObj, m_rawChainStatOptsInstantiated, QUESO::BaseEnvironment::optionsInputFileName(), and QUESO::BoostInputOptionsParser::scanInputFile().

Referenced by QUESO::MLSampling< P_V, P_M >::generateSequence().

{
  queso_deprecated();

  // FIXME
  if (defaultOptions) this->copyOptionsValues(*defaultOptions);

#ifndef QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  // Replace the parser since default values changed
  if (m_parser) {
    delete m_parser;
    m_parser = new BoostInputOptionsParser(m_env.optionsInputFileName());
  }

  // FIXME: Does this work with GetPot?
  this->defineAllOptions();
  m_parser->scanInputFile();
#endif  // QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  this->getAllOptions();

#ifdef QUESO_USES_SEQUENCE_STATISTICAL_OPTIONS
  if (m_rawChainComputeStats) {
    m_rawChainStatisticalOptionsObj = new SequenceStatisticalOptions(m_env,m_prefix + "rawChain_");
    m_rawChainStatOptsInstantiated  = true;
  }
  if (m_filteredChainComputeStats) {
    m_filteredChainStatisticalOptionsObj = new SequenceStatisticalOptions(m_env,m_prefix + "filteredChain_");
    m_filteredChainStatOptsInstantiated  = true;
  }
#endif
}

Friends And Related Function Documentation

std::ostream& operator<< ( std::ostream &  os, const MLSamplingLevelOptions &  obj  )

friend

Definition at line 842 of file MLSamplingLevelOptions.C.

{
#ifndef QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  os << (*(obj.m_parser)) << std::endl;
#endif  // QUESO_DISABLE_BOOST_PROGRAM_OPTIONS
  obj.print(os);
  return os;
}

Member Data Documentation

std::string QUESO::MLSamplingLevelOptions::m_algorithm

Which algorithm to use for sampling.

Definition at line 364 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_amAdaptedMatricesDataOutputAllowAll

Whether or not subEnvs will write to output file for 'am' adapted matrices.

Definition at line 346 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::set<unsigned int> QUESO::MLSamplingLevelOptions::m_amAdaptedMatricesDataOutputAllowedSet

subEnvs that will write to output file for 'am' adapted matrices.

Definition at line 349 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_amAdaptedMatricesDataOutputFileName

Name of output file for 'am' adapted matrices.

Definition at line 340 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_amAdaptedMatricesDataOutputFileType

Type of output file for 'am' adapted matrices.

Definition at line 343 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_amAdaptedMatricesDataOutputPeriod

Period for outputing 'am' adapted matrices.

Definition at line 337 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_amAdaptInterval

'am' adaptation interval.

Definition at line 334 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_amEpsilon

'am' epsilon.

Definition at line 358 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_amEta

'am' eta.

Definition at line 355 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_amInitialNonAdaptInterval

'am' initial non adaptation interval

Definition at line 331 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_amKeepInitialMatrix

Whether or not 'am' will keep initial (given) matrix.

Definition at line 328 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_checkpointOutputFileName

Name of checkpoint output file.

Definition at line 164 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_covRejectionRate

c.o.v. for judging attempted rejection rate at current level.

Definition at line 203 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), getAllOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_dataOutputAllowAll

subEnvs that will write to generic output file.

Definition at line 173 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::set<unsigned int> QUESO::MLSamplingLevelOptions::m_dataOutputAllowedSet

subEnvs that will write to generic output file.

Definition at line 176 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_dataOutputFileName

Name of generic output file.

Definition at line 170 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_displayCandidates

Display candidates generated in the core MH algorithm.

Definition at line 306 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_doLogitTransform

Whether or not a logit transform will be done for bounded domains.

Definition at line 361 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_drDuringAmNonAdaptiveInt

Whether or not 'dr' is used during 'am' non adaptive interval.

Definition at line 325 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_drMaxNumExtraStages

'dr' maximum number of extra stages.

Definition at line 318 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::vector<double> QUESO::MLSamplingLevelOptions::m_drScalesForExtraStages

'dr' list of scales for proposal covariance matrices from 2nd stage on.

Definition at line 321 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

const BaseEnvironment& QUESO::MLSamplingLevelOptions::m_env

private

Definition at line 378 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), env(), getAllOptions(), and scanOptionsValues().

bool QUESO::MLSamplingLevelOptions::m_filteredChainComputeStats

Compute statistics on filtered chain.

Definition at line 301 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), print(), and scanOptionsValues().

bool QUESO::MLSamplingLevelOptions::m_filteredChainDataOutputAllowAll

Whether or not subEnvs will write to output file for filtered chain.

Definition at line 293 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::set<unsigned int> QUESO::MLSamplingLevelOptions::m_filteredChainDataOutputAllowedSet

subEnvs that will write to output file for filtered chain.

Definition at line 296 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_filteredChainDataOutputFileName

Name of output file for filtered chain.

Definition at line 287 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_filteredChainDataOutputFileType

Type of output file for filtered chain.

Definition at line 290 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_filteredChainDiscardedPortion

Initial discarded portion for chain filtering.

Definition at line 281 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_filteredChainGenerate

Whether or not to generate filtered chain.

Definition at line 278 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step10_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_filteredChainLag

Spacing for chain filtering.

Definition at line 284 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

SequenceStatisticalOptions* QUESO::MLSamplingLevelOptions::m_filteredChainStatisticalOptionsObj

Definition at line 302 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), scanOptionsValues(), and ~MLSamplingLevelOptions().

bool QUESO::MLSamplingLevelOptions::m_filteredChainStatOptsInstantiated

Definition at line 303 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), scanOptionsValues(), and ~MLSamplingLevelOptions().

std::string QUESO::MLSamplingLevelOptions::m_help

If non-empty string, print options and values to output file.

Definition at line 159 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), and getAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_initialPositionDataInputFileName

Name of input file for initial position.

Definition at line 213 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_initialPositionDataInputFileType

Type of input file for initial position.

Definition at line 216 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_initialPositionUsePreviousLevelLikelihood

Use previous level likelihood for initial chain position instead of re-computing it from target pdf.

Definition at line 225 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateBalLinkedChains_all(), QUESO::MLSampling< P_V, P_M >::generateUnbLinkedChains_all(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_initialProposalCovMatrixDataInputFileName

Name of input file for initial proposal covariance matrix.

Definition at line 219 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_initialProposalCovMatrixDataInputFileType

Type of input file for initial proposal covariance matrix.

Definition at line 222 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::vector<double> QUESO::MLSamplingLevelOptions::m_initialValuesOfDisabledParameters

Definition at line 230 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), getAllOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_loadBalanceAlgorithmId

Perform load balancing with chosen algorithm (0 = no balancing).

Definition at line 182 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::decideOnBalancedChains_all(), defineAllOptions(), getAllOptions(), QUESO::MLSampling< P_V, P_M >::prepareBalLinkedChains_inter0(), and print().

double QUESO::MLSamplingLevelOptions::m_loadBalanceTreshold

Perform load balancing if load unbalancing ratio > threshold.

Definition at line 185 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::decideOnBalancedChains_all(), defineAllOptions(), getAllOptions(), QUESO::MLSampling< P_V, P_M >::justBalance_proc0(), and print().

double QUESO::MLSamplingLevelOptions::m_maxEffectiveSizeRatio

Maximum allowed effective size ratio wrt previous level.

Definition at line 191 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step03_inter0(), getAllOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_maxRejectionRate

maximum allowed attempted rejection rate at current level.

Definition at line 200 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), getAllOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_minAcceptableEta

minimum acceptable eta,

Used in the GPMSA code.

Definition at line 207 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence(), getAllOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_minEffectiveSizeRatio

Minimum allowed effective size ratio wrt previous level.

Definition at line 188 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step03_inter0(), getAllOptions(), and print().

double QUESO::MLSamplingLevelOptions::m_minRejectionRate

minimum allowed attempted rejection rate at current level

Definition at line 197 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_algorithm

private

Definition at line 458 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_adaptedMatrices_dataOutputAllowAll

private

Definition at line 453 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_adaptedMatrices_dataOutputAllowedSet

private

Definition at line 454 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_adaptedMatrices_dataOutputFileName

private

Definition at line 451 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_adaptedMatrices_dataOutputFileType

private

Definition at line 452 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_adaptedMatrices_dataOutputPeriod

private

Definition at line 450 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_adaptInterval

private

Definition at line 449 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_epsilon

private

Definition at line 456 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_eta

private

Definition at line 455 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_initialNonAdaptInterval

private

Definition at line 448 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_am_keepInitialMatrix

private

Definition at line 447 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_checkpointOutputFileName

private

Definition at line 388 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_covRejectionRate

private

Definition at line 401 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_dataOutputAllowAll

private

Definition at line 392 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_dataOutputAllowedSet

private

Definition at line 393 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_dataOutputFileName

private

Definition at line 391 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_displayCandidates

private

Definition at line 440 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_doLogitTransform

private

Definition at line 457 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_dr_duringAmNonAdaptiveInt

private

Definition at line 446 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_dr_listOfScalesForExtraStages

private

Definition at line 445 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_dr_maxNumExtraStages

private

Definition at line 444 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_computeStats

private

Definition at line 437 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_dataOutputAllowAll

private

Definition at line 434 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_dataOutputAllowedSet

private

Definition at line 435 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_dataOutputFileName

private

Definition at line 432 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_dataOutputFileType

private

Definition at line 433 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_discardedPortion

private

Definition at line 430 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_generate

private

Definition at line 429 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_filteredChain_lag

private

Definition at line 431 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_help

private

Definition at line 384 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), and getAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_option_initialPosition_dataInputFileName

private

Definition at line 404 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_initialPosition_dataInputFileType

private

Definition at line 405 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_initialPositionUsePreviousLevelLikelihood

private

Definition at line 408 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_initialProposalCovMatrix_dataInputFileName

private

Definition at line 406 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_initialProposalCovMatrix_dataInputFileType

private

Definition at line 407 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_initialValuesOfDisabledParameters

private

Definition at line 410 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_listOfDisabledParameters

private

Definition at line 409 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_loadBalanceAlgorithmId

private

Definition at line 394 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_loadBalanceTreshold

private

Definition at line 395 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_maxEffectiveSizeRatio

private

Definition at line 397 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_maxRejectionRate

private

Definition at line 400 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_minAcceptableEta

private

Definition at line 402 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_minEffectiveSizeRatio

private

Definition at line 396 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_minRejectionRate

private

Definition at line 399 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_putOutOfBoundsInChain

private

Definition at line 441 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_computeStats

private

Definition at line 426 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataInputFileName

private

Definition at line 411 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataInputFileType

private

Definition at line 412 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataOutputAllowAll

private

Definition at line 423 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataOutputAllowedSet

private

Definition at line 424 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataOutputFileName

private

Definition at line 418 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataOutputFileType

private

Option name for MLSamplingLevelOptions::m_rawChainDataOutputFileType. Option name is m_prefix + "ml_rawChain_dataOutputFileType".

Definition at line 421 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_dataOutputPeriod

private

Definition at line 417 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_displayPeriod

private

Definition at line 415 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_generateExtra

private

Definition at line 414 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_measureRunTimes

private

Definition at line 416 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_rawChain_size

private

Definition at line 413 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_scaleCovMatrix

private

Definition at line 398 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_stopAtEnd

private

Definition at line 390 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_tk

private

Definition at line 459 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_tk_useLocalHessian

private

Definition at line 442 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_tk_useNewtonComponent

private

Definition at line 443 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_totallyMute

private

Definition at line 403 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_option_updateInterval

private

Definition at line 460 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), and print().

std::set<unsigned int> QUESO::MLSamplingLevelOptions::m_parameterDisabledSet

Definition at line 228 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::generateSequence(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

BoostInputOptionsParser* QUESO::MLSamplingLevelOptions::m_parser

private

Definition at line 381 of file MLSamplingLevelOptions.h.

Referenced by defineAllOptions(), getAllOptions(), MLSamplingLevelOptions(), QUESO::operator<<(), and scanOptionsValues().

std::string QUESO::MLSamplingLevelOptions::m_prefix

Definition at line 156 of file MLSamplingLevelOptions.h.

Referenced by QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step02_inter0(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), print(), and scanOptionsValues().

bool QUESO::MLSamplingLevelOptions::m_putOutOfBoundsInChain

Put 'out of bound' candidates in chain as well.

Definition at line 309 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_rawChainComputeStats

Compute statistics on raw chain.

Definition at line 273 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step10_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), print(), and scanOptionsValues().

std::string QUESO::MLSamplingLevelOptions::m_rawChainDataInputFileName

Name of input file for raw chain.

Definition at line 234 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_rawChainDataInputFileType

Type of input file for raw chain.

Definition at line 238 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_rawChainDataOutputAllowAll

Whether or not subEnvs will write to output file for raw chain.

Definition at line 265 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::set<unsigned int> QUESO::MLSamplingLevelOptions::m_rawChainDataOutputAllowedSet

subEnvs that will write to output file for raw chain.

Definition at line 268 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_rawChainDataOutputFileName

Name of output file for raw chain.

Definition at line 256 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_rawChainDataOutputFileType

Type of output file for raw chain.

See MhOptionsValues::m_rawChainDataOutputFileType

Definition at line 262 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_rawChainDataOutputPeriod

Period of message display during raw chain generation.

Definition at line 253 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_rawChainDisplayPeriod

Period of message display during raw chain generation.

Definition at line 247 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_rawChainGenerateExtra

Generate extra information about raw chain.

Definition at line 244 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_rawChainMeasureRunTimes

Whether or not to measure run times.

Definition at line 250 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_rawChainSize

Size of raw chain.

Definition at line 241 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateBalLinkedChains_all(), QUESO::MLSampling< P_V, P_M >::generateSequence(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step01_inter0(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step10_all(), QUESO::MLSampling< P_V, P_M >::generateUnbLinkedChains_all(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

SequenceStatisticalOptions* QUESO::MLSamplingLevelOptions::m_rawChainStatisticalOptionsObj

Definition at line 274 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), QUESO::MLSampling< P_V, P_M >::generateSequence_Level0_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step11_inter0(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), scanOptionsValues(), and ~MLSamplingLevelOptions().

bool QUESO::MLSamplingLevelOptions::m_rawChainStatOptsInstantiated

Definition at line 275 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), scanOptionsValues(), and ~MLSamplingLevelOptions().

bool QUESO::MLSamplingLevelOptions::m_scaleCovMatrix

Whether or not scale proposal covariance matrix.

Definition at line 194 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), getAllOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_stopAtEnd

Stop at end of such level.

Definition at line 167 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence(), getAllOptions(), and print().

std::string QUESO::MLSamplingLevelOptions::m_str1

subEnvs that will write to generic output file.

Definition at line 179 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_str2

Definition at line 229 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_str3

Definition at line 231 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_str4

Definition at line 270 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_str5

Definition at line 297 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_str6

Definition at line 322 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_str7

Definition at line 352 of file MLSamplingLevelOptions.h.

Referenced by checkOptions(), copyOptionsValues(), and defineAllOptions().

std::string QUESO::MLSamplingLevelOptions::m_tk

Which transition kernel to use for sampling.

Definition at line 367 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_tkUseLocalHessian

Whether or not 'proposal' uses local Hessian.

Definition at line 312 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_tkUseNewtonComponent

Whether or not 'proposal' uses Newton component.

Definition at line 315 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

bool QUESO::MLSamplingLevelOptions::m_totallyMute

Whether or not to be totally mute (no printout message).

Definition at line 210 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), defineAllOptions(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step09_all(), QUESO::MLSampling< P_V, P_M >::generateSequence_Step10_all(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

unsigned int QUESO::MLSamplingLevelOptions::m_updateInterval

How often to call the TK's updateTK method.

Definition at line 370 of file MLSamplingLevelOptions.h.

Referenced by copyOptionsValues(), getAllOptions(), QUESO::MetropolisHastingsSGOptions::MetropolisHastingsSGOptions(), and print().

---

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

• src/stats/inc/MLSamplingLevelOptions.h
• src/stats/src/MLSamplingLevelOptions.C