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Public Member Functions | Protected Member Functions | Private Member Functions | Private Attributes | List of all members
EnvelopeScore Class Reference

#include <envelope_score.hh>

Inheritance diagram for EnvelopeScore:
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Collaboration diagram for EnvelopeScore:
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Public Member Functions

 EnvelopeScore ()
 
 ~EnvelopeScore ()
 
int initialize ()
 
int iterate ()
 
int done () const
 
Scalar getValue (const Sample &x) const
 
int getConvergence (Scalar *const val) const
 
- 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 float getProgress () const
 
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 ()
 

Protected Member Functions

virtual void _getConfiguration (ConfigurationPtr &) const
 
virtual 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)
 

Private Member Functions

void computeStats (const OccurrencesPtr &)
 
void logEnvelope ()
 

Private Attributes

bool _done
 
Sample _minimum
 

is true if the algorithm is finished.

More...
 
Sample _maximum
 

Mininum value for each variable.

More...
 

Additional Inherited Members

- Public Types inherited from AlgorithmImpl
typedef std::map< icstring,
std::string > 		ParamSetType
 
- Protected Attributes inherited from AlgorithmImpl
SamplerPtr _samp
 
Normalizer * _normalizerPtr
 
ParamSetType _param
 

Detailed Description

Declaration of EnvelopeScoreatic Envelope Algorithm - Nix, 1986.

Author
Mauro Muñoz mauro.nosp@m.@cri.nosp@m.a.org.nosp@m..br
EnvelopeScore_or implemantation by Tim Sutton and Chris Yesson
Date
2007-08-22
Id:
envelope_score.hh 4419 2008-06-26 20:07:29Z rdg

LICENSE INFORMATION

Based on Bioclim alg Copyright(c) 2004 by CRIA - Centro de Referência em Informação Ambiental

http://www.cria.org.br

Envelope Score implementation (c) 2007 Chris Yesson and Tim Sutton

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 Bioclimatic Envelope Algorithm with occurrence probability based on the number variables within the min/max range

Definition at line 45 of file envelope_score.hh.

Constructor & Destructor Documentation

EnvelopeScore::EnvelopeScore ( )

Definition at line 131 of file envelope_score.cpp.

EnvelopeScore::~EnvelopeScore ( )

Definition at line 142 of file envelope_score.cpp.

Member Function Documentation

void EnvelopeScore::_getConfiguration ( ConfigurationPtr &  config) const
protectedvirtual

Reimplemented from AlgorithmImpl.

Definition at line 265 of file envelope_score.cpp.

References _done, _maximum, and _minimum.

void EnvelopeScore::_setConfiguration ( const ConstConfigurationPtr &  config)
protectedvirtual

Reimplemented from AlgorithmImpl.

Definition at line 279 of file envelope_score.cpp.

References _done, _maximum, and _minimum.

void EnvelopeScore::computeStats ( const OccurrencesPtr &  occs)
private

compute the statistic member variables based on the data in the OccurrencesPtr

Definition at line 230 of file envelope_score.cpp.

References _maximum, and _minimum.

Referenced by initialize().

int EnvelopeScore::done ( ) const
virtual

Return != 0 if algorithm finished.

Reimplemented from AlgorithmImpl.

Definition at line 186 of file envelope_score.cpp.

References _done.

int EnvelopeScore::getConvergence ( Scalar *const  val) const
virtual

Returns the algorithm's convergence value at the moment

Reimplemented from AlgorithmImpl.

Definition at line 220 of file envelope_score.cpp.

Scalar EnvelopeScore::getValue ( const Sample &  x) const
virtual

The algorithm must return the occurrence probability at the given environment conditions.

Parameters
xEnvironmental conditions.
Returns
The occurrence probability in the range [0,1].

Implements AlgorithmImpl.

Definition at line 196 of file envelope_score.cpp.

References _maximum, _minimum, and Sample::size().

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int EnvelopeScore::initialize ( )
virtual

Initiate a new training.

Implements AlgorithmImpl.

Definition at line 150 of file envelope_score.cpp.

References _done, AlgorithmImpl::_samp, computeStats(), Log::error(), Log::info(), and Log::instance().

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int EnvelopeScore::iterate ( )
virtual

One step further on the training. Return 0 if something wrong happened.

Reimplemented from AlgorithmImpl.

Definition at line 177 of file envelope_score.cpp.

void EnvelopeScore::logEnvelope ( )
private

Log the bioclimatic envelopes information.

Definition at line 297 of file envelope_score.cpp.

References _maximum, _minimum, Log::info(), Log::instance(), and Sample::size().

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Member Data Documentation

bool EnvelopeScore::_done
private

Definition at line 73 of file envelope_score.hh.

Referenced by _getConfiguration(), _setConfiguration(), done(), and initialize().

Sample EnvelopeScore::_maximum
private

Mininum value for each variable.

Definition at line 76 of file envelope_score.hh.

Referenced by _getConfiguration(), _setConfiguration(), computeStats(), getValue(), and logEnvelope().

Sample EnvelopeScore::_minimum
private

is true if the algorithm is finished.

Definition at line 75 of file envelope_score.hh.

Referenced by _getConfiguration(), _setConfiguration(), computeStats(), getValue(), and logEnvelope().

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