#include <garp_best_subsets.hh>

Inheritance diagram for GarpBestSubsets:

Collaboration diagram for GarpBestSubsets:

Public Member Functions
	GarpBestSubsets ()

virtual	~GarpBestSubsets ()

Public Member Functions inherited from BestSubsets
	BestSubsets (AlgMetadata *metadata)

virtual	~BestSubsets ()

int	initialize ()

int	iterate ()

int	done () const

float	getProgress () const

Scalar	getValue (const Sample &x) const

int	getConvergence (Scalar *const val) const

void	printListOfRuns (string msg, AlgorithmRun **runs, int numOfRuns)

Public Member Functions inherited from AlgorithmImpl
	AlgorithmImpl (AlgMetadata const *metadata)

virtual	~AlgorithmImpl ()

void	setParameters (int nparam, AlgParameter const *param)

void	setParameters (const ParamSetType &)

std::string const	getID () const

AlgMetadata const *	getMetadata () const

AlgorithmPtr	getFreshCopy ()

virtual int	supportsModelProjection () const

Model	createModel (const SamplerPtr &samp, CallbackWrapper *func=0)

void	setSampler (const SamplerPtr &samp)

virtual int	finalize ()

virtual int	needNormalization ()

Normalizer *	getNormalizer () const

void	setNormalization (const SamplerPtr &samp) const

void	setNormalization (const EnvironmentPtr &env) const

virtual Model	getModel () const

ConfigurationPtr	getConfiguration () const

void	setConfiguration (const ConstConfigurationPtr &)

Public Member Functions inherited from Configurable
virtual	~Configurable ()

Public Member Functions inherited from BSAlgorithmFactory
virtual	~BSAlgorithmFactory ()

Private Member Functions
AlgorithmImpl *	getBSAlgorithm ()

int	transferParametersToAlgorithm ()

Private Attributes
int	_max_gen

int	_popsize

int	_resamples

double	_conv_limit

Additional Inherited Members
Public Types inherited from AlgorithmImpl
typedef std::map< icstring, std::string >	ParamSetType

Protected Member Functions inherited from BestSubsets
void	_getConfiguration (ConfigurationPtr &) const

void	_setConfiguration (const ConstConfigurationPtr &)

Protected Member Functions inherited from AlgorithmImpl
int	dimDomain ()

int	getParameter (std::string const &name, std::string *value)

int	getParameter (std::string const &name, double *value)

int	getParameter (std::string const &name, float *value)

int	getParameter (std::string const &name, int *value)

Protected Attributes inherited from BestSubsets
int	_nparam

AlgParameter *	_alg_params

Protected Attributes inherited from AlgorithmImpl
SamplerPtr	_samp

Normalizer *	_normalizerPtr

ParamSetType	_param

Detailed Description

Declaration of GARP with Best Subsets Procedure

Author: Ricardo Scachetti Pereira (rpere.nosp@m.ira@.nosp@m.ku.ed.nosp@m.u)

Date: 2004-08-24

Id:: garp_best_subsets.hh 5844 2013-08-22 15:16:12Z rdg

LICENSE INFORMATION

Copyright(c), The Center for Research, University of Kansas, 2385 Irving Hill Road, Lawrence, KS 66044-4755, USA.

http://www.nhm.ku.edu

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details:

http://www.gnu.org/copyleft/gpl.html Implements GARP with Best Subset Procedure (Anderson et al. 2003).

It runs "n" Garp models, filter the best ones based on the procedure defined by Anderson et al. 2003 and sum them to obtain a probability map for the species distribution.

Current implementation uses multi-threading to run multiple Garp runs in parallel. Takes advantage of multi-processor servers and workstations.

Definition at line 53 of file garp_best_subsets.hh.

Constructor & Destructor Documentation

GarpBestSubsets::GarpBestSubsets ( )

Definition at line 332 of file garp_best_subsets.cpp.

References AlgorithmImpl::_normalizerPtr.

GarpBestSubsets::~GarpBestSubsets ( )

virtual

Definition at line 339 of file garp_best_subsets.cpp.

Member Function Documentation

AlgorithmImpl * GarpBestSubsets::getBSAlgorithm ( )

privatevirtual

Implements BestSubsets.

Definition at line 344 of file garp_best_subsets.cpp.

int GarpBestSubsets::transferParametersToAlgorithm ( )

privatevirtual

Implements BestSubsets.

Definition at line 352 of file garp_best_subsets.cpp.

References BestSubsets::_alg_params, _conv_limit, _max_gen, BestSubsets::_nparam, _popsize, _resamples, Log::error(), AlgorithmImpl::getParameter(), Log::instance(), AlgParameter::setId(), and AlgParameter::setValue().

Here is the call graph for this function:

Member Data Documentation

double GarpBestSubsets::_conv_limit

private

Minimum value for convergence that triggers termination of execution

Definition at line 78 of file garp_best_subsets.hh.

Referenced by transferParametersToAlgorithm().

int GarpBestSubsets::_max_gen

private

Maximum number of iterations to be executed (if convergence is not reached)

Definition at line 69 of file garp_best_subsets.hh.

Referenced by transferParametersToAlgorithm().

int GarpBestSubsets::_popsize

private

Number of points to be considered after resampling (with replacement)

Definition at line 72 of file garp_best_subsets.hh.

Referenced by transferParametersToAlgorithm().

int GarpBestSubsets::_resamples

private

Number of points to be considered after resampling (with replacement)

Definition at line 75 of file garp_best_subsets.hh.

Referenced by transferParametersToAlgorithm().

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

Public Member Functions

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation