#include <DgGarpBestSubsets.hh>

Inheritance diagram for DgGarpBestSubsets:

Collaboration diagram for DgGarpBestSubsets:

Public Member Functions
	DgGarpBestSubsets ()

virtual	~DgGarpBestSubsets ()

	DgGarpBestSubsets ()

virtual	~DgGarpBestSubsets ()

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 ()

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 ()

Public Member Functions inherited from AbstractBestSubsets
	AbstractBestSubsets (AlgMetadata const *)

virtual	~AbstractBestSubsets ()=0

int	needNormalization ()

int	initialize ()

int	iterate ()

int	done () const

float	getProgress () const

Scalar	getValue (const Sample &x) const

int	getConvergence (Scalar *const val) const

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 Member Functions inherited from AbstractBestSubsets
virtual void	_getConfiguration (ConfigurationPtr &) const

virtual void	_setConfiguration (const ConstConfigurationPtr &)

Protected Attributes inherited from BestSubsets
int	_nparam

AlgParameter *	_alg_params

Protected Attributes inherited from AlgorithmImpl
SamplerPtr	_samp

Normalizer *	_normalizerPtr

ParamSetType	_param

Protected Attributes inherited from AbstractBestSubsets
std::string	_subAlgorithm

Detailed Description

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.

Declaration of DG GARP with Best Subsets Procedure

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

Date: 2004-12-10

Id:: dg_garp_bs.hh 3382 2007-07-19 19:09:18Z 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 54 of file DgGarpBestSubsets.hh.

Constructor & Destructor Documentation

DgGarpBestSubsets::DgGarpBestSubsets ( )

Definition at line 315 of file DgGarpBestSubsets.cpp.

References AbstractBestSubsets::_subAlgorithm.

DgGarpBestSubsets::~DgGarpBestSubsets ( )

virtual

Definition at line 322 of file DgGarpBestSubsets.cpp.

DgGarpBestSubsets::DgGarpBestSubsets ( )

virtual DgGarpBestSubsets::~DgGarpBestSubsets ( )

virtual

Member Function Documentation

AlgorithmImpl * DgGarpBestSubsets::getBSAlgorithm ( )

privatevirtual

Implements BestSubsets.

Definition at line 334 of file dg_garp_bs.cpp.

int DgGarpBestSubsets::transferParametersToAlgorithm ( )

privatevirtual

Implements BestSubsets.

Definition at line 342 of file dg_garp_bs.cpp.

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

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Member Data Documentation

double DgGarpBestSubsets::_conv_limit

private

Minimum value for convergence that triggers termination of execution

Definition at line 77 of file dg_garp_bs.hh.

Referenced by transferParametersToAlgorithm().

int DgGarpBestSubsets::_max_gen

private

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

Definition at line 68 of file dg_garp_bs.hh.

Referenced by transferParametersToAlgorithm().

int DgGarpBestSubsets::_popsize

private

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

Definition at line 71 of file dg_garp_bs.hh.

Referenced by transferParametersToAlgorithm().

int DgGarpBestSubsets::_resamples

private

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

Definition at line 74 of file dg_garp_bs.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