model::Analyzer Class Reference
[The PCG model layer]

#include <Analyzer.h>

Collaboration diagram for model::Analyzer:

[legend]List of all members.

Public Types
enum	e_PCAMode { ALL, JACOBI, HOUSEHOLDER, OTHER }
Public Member Functions
	Analyzer ()
	Constructor for the PCA.
	~Analyzer ()
	Analyzer (const Analyzer &other)
Analyzer &	operator= (const Analyzer &other)
void	mergeData (ReferenceModel refModel, vector< ExampleModel * > lmodels, int size)
void	mergeData (ReferenceModel refModel, vector< ExampleModel * > lmodels)
void	mean ()
	Calculates the emperical mean of a matrix.
void	adjust ()
void	covariance ()
void	findComponents ()
void	findComponents (e_PCAMode mode)
void	selectComponents ()
void	computeEnergy ()
void	setData (Matrix data)
void	transformation ()
int	getInputDimension ()
ReferenceModel	getModel ()
ReferenceModel	getModel (Matrix input)
bool	save (char *filename)
bool	load (char *filename)
Private Attributes
Matrix	m_ExampleData
Matrix	m_mean
Matrix	m_AdjustedData
Matrix	m_Covariance
SymmetricMatrix	m_EigenValues
Matrix	m_EigenVectors
Matrix	m_TotalEnergy
Matrix	m_Components
Matrix	m_Transformation
int	N
int	M
ReferenceModel	m_refModel

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Detailed Description

Write brief comment for Analyzer here.

Write detailed description for Analyzer here.

Remarks:

Write remarks for Analyzer here.

See also:

Separate items with the '|' character.

Definition at line 33 of file Analyzer.h.

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Member Enumeration Documentation

enum model::Analyzer::e_PCAMode

Write brief comment for e_PCAMode here. Write detailed description for e_PCAMode here. Remarks: Write remarks for e_PCAMode here. See also: Separate items with the '|' character. Enumeration values: ALL  All methods JACOBI  Jacobi method HOUSEHOLDER  Householder method OTHER  Other methods Definition at line 63 of file Analyzer.h. { ALL, JACOBI, HOUSEHOLDER, OTHER };

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Constructor & Destructor Documentation

Analyzer::Analyzer (   )

Constructor for the PCA. This default constructer does stuff and initiates a PCA process Definition at line 9 of file Analyzer.cpp. References log::write(). { log::write("Analyzer Init"); }

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Analyzer::~Analyzer (   )

Write brief comment for ~Analyzer here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for ~Analyzer here. Remarks: Write remarks for ~Analyzer here. See also: Separate items with the '|' character. Definition at line 29 of file Analyzer.cpp. References m_AdjustedData, m_Covariance, m_EigenValues, m_EigenVectors, m_ExampleData, and m_mean. { m_ExampleData = 0; m_mean = 0; m_AdjustedData = 0; m_Covariance = 0; m_EigenValues = 0; m_EigenVectors = 0; }

Analyzer::Analyzer (  const Analyzer &  other  )

Write brief comment for Analyzer here. Parameters: other  Description of parameter other. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for Analyzer here. Remarks: Write remarks for Analyzer here. See also: Separate items with the '|' character. Definition at line 583 of file Analyzer.cpp. References M, m_AdjustedData, m_Components, m_Covariance, m_EigenValues, m_EigenVectors, m_ExampleData, m_mean, m_refModel, m_TotalEnergy, m_Transformation, and N. { m_ExampleData = other.m_ExampleData; m_mean = other.m_mean; m_AdjustedData = other.m_AdjustedData; m_Covariance = other.m_Covariance; m_EigenValues = other.m_EigenValues; m_EigenVectors = other.m_EigenVectors; m_TotalEnergy = other.m_TotalEnergy; m_Components = other.m_Components; m_Transformation = other.m_Transformation; N = other.N; M = other.M; m_refModel = other.m_refModel; }

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Member Function Documentation

void Analyzer::adjust (   )

Write brief comment for adjust here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for adjust here. Remarks: Write remarks for adjust here. See also: Separate items with the '|' character. Definition at line 179 of file Analyzer.cpp. References m_AdjustedData, m_ExampleData, m_mean, N, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { log::write("Analyzer adjust"); Matrix h = Matrix(1,N); h = 1; /*cout << setw(10) << setprecision(5) << m_ExampleData; cout << setw(10) << setprecision(5) << m_mean; cout << setw(10) << setprecision(5) << h; cout << setw(10) << setprecision(5) << (m_mean * h);*/ m_AdjustedData = m_ExampleData - (m_mean * h); log::write("Adjusted Data",m_AdjustedData); }

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void Analyzer::computeEnergy (   )

Write brief comment for computeEnergy here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for computeEnergy here. Remarks: Write remarks for computeEnergy here. See also: Separate items with the '|' character. Definition at line 301 of file Analyzer.cpp. References M, m_EigenValues, m_TotalEnergy, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { log::write("Analyzer compute energy"); //Requires that EigenVectors and Values are sorted pair-wise. Should be done //by the matrix library i believe (this should be tested somehow) m_TotalEnergy = Matrix(M,1); // [ M x 1 ] m_EigenValues = m_EigenValues.Reverse(); m_TotalEnergy(1,1) = m_EigenValues(1,1); for(int i=2;i<=M;i++) { m_TotalEnergy(i,1) = m_TotalEnergy(i-1,1) + m_EigenValues(i,i); } log::write("Total Energy",m_TotalEnergy); }

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void Analyzer::covariance (   )

Write brief comment for covariance here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for covariance here. Remarks: Write remarks for covariance here. See also: Separate items with the '|' character. Definition at line 207 of file Analyzer.cpp. References m_AdjustedData, m_Covariance, N, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { log::write("Analyzer covariance"); m_Covariance = m_AdjustedData/(N-1) * m_AdjustedData.t(); log::write("Covariance",m_Covariance); }

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void Analyzer::findComponents (  e_PCAMode  mode  )

Write brief comment for findComponents here. Parameters: mode  Description of parameter mode. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for findComponents here. Remarks: Write remarks for findComponents here. See also: Separate items with the '|' character. Definition at line 252 of file Analyzer.cpp. References HOUSEHOLDER, JACOBI, M, m_EigenValues, m_EigenVectors, OTHER, and log::write(). { log::write("Analyzer find components"); DiagonalMatrix dm(M); SymmetricMatrix test; test << m_Covariance; switch (mode) { case JACOBI: log::write("Calculating with Jacobi"); Jacobi(test, dm, m_EigenVectors); break; case HOUSEHOLDER: log::write("Calculating with Householder"); EigenValues(test, dm, m_EigenVectors); break; case OTHER: log::write("Calculating with Jacobi (matched OTHER)"); Jacobi(test, dm, m_EigenVectors); break; default: log::write("Calculating with Jacobi (matched default)"); Jacobi(test, dm, m_EigenVectors); break; } //Jacobi(test, dm, m_EigenVectors); //EigenValues(test, dm, m_EigenVectors); m_EigenValues << dm; log::write("Eigen Vectors",m_EigenVectors); log::write("Eigen Values",m_EigenValues); }

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void Analyzer::findComponents (   )

Write brief comment for findComponents here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for findComponents here. Remarks: Write remarks for findComponents here. See also: Separate items with the '|' character. Definition at line 229 of file Analyzer.cpp. References JACOBI. Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { findComponents(JACOBI); }

int Analyzer::getInputDimension (   )

Write brief comment for getInputDimension here. Returns: Write description of return value here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for getInputDimension here. Remarks: Write remarks for getInputDimension here. See also: Separate items with the '|' character. Definition at line 450 of file Analyzer.cpp. References m_Components. Referenced by Batch::getRandomModels(). { return m_Components.Ncols(); }

ReferenceModel Analyzer::getModel (  Matrix  input  )

Write brief comment for getModel here. Parameters: input  Description of parameter input. Returns: Write description of return value here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for getModel here. Remarks: Write remarks for getModel here. See also: Separate items with the '|' character. Definition at line 421 of file Analyzer.cpp. References m_Components, m_mean, m_refModel, N, model::Model::updateVertices(), and log::write(). { log::write("Analyzer::getModel\n"); Matrix h = Matrix(1,N); h = 1; Matrix in = m_Components*input+(m_mean * h); log::write("Analyzer-in",in); m_refModel.updateVertices(in); log::write("Analyzer-refModel",m_refModel); return m_refModel; }

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ReferenceModel Analyzer::getModel (   )

Write brief comment for getModel here. Returns: Write description of return value here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for getModel here. Remarks: Write remarks for getModel here. See also: Separate items with the '|' character. Definition at line 393 of file Analyzer.cpp. References m_Components, m_mean, m_refModel, m_Transformation, N, and model::Model::updateVertices(). Referenced by Batch::getRandomModels(). { Matrix h = Matrix(1,N); h = 1; m_refModel.updateVertices(m_Components*m_Transformation+(m_mean*h)); return m_refModel; }

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bool Analyzer::load (  char *  filename  )

Write brief comment for load here. Parameters: filename  Description of parameter filename. Returns: Write description of return value here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for load here. Remarks: Write remarks for load here. See also: Separate items with the '|' character. Definition at line 513 of file Analyzer.cpp. References model::ReferenceModel::load(), m_Components, m_mean, m_refModel, and Tokenize(). Referenced by pcggui::LoadAnalyzer(). { m_mean.CleanUp(); m_Components.CleanUp(); m_refModel = model::ReferenceModel(); string line; vector<string> tokens; vector<string> coords; ifstream loadFile(filename); if(loadFile.is_open()) { getline(loadFile,line);//Mean Dim getline(loadFile,line);//Dim tokens.clear(); Tokenize(line,tokens,","); m_mean = Matrix(convertTo<int>(tokens[0]),convertTo<int>(tokens[1])); for(int i=0;i<m_mean.Nrows();i++) { getline(loadFile,line);//Data tokens.clear(); Tokenize(line,tokens," "); for(int n=0;n<m_mean.Ncols();n++) { m_mean(i+1,n+1) = convertTo<float>(tokens[n]); } } getline(loadFile,line);// getline(loadFile,line);//Components Dim getline(loadFile,line);//Dim tokens.clear(); Tokenize(line,tokens,","); m_Components = Matrix(convertTo<int>(tokens[0]),convertTo<int>(tokens[1])); for(int i=0;i<m_Components.Nrows();i++) { getline(loadFile,line);//Data tokens.clear(); Tokenize(line,tokens," "); for(int n=0;n<m_Components.Ncols();n++) { m_Components(i+1,n+1) = convertTo<float>(tokens[n]); } } getline(loadFile,line);// m_refModel.load(&loadFile); loadFile.close(); return true; } else { return false; } }

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void Analyzer::mean (   )

Calculates the emperical mean of a matrix. Write brief comment for mean here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for mean here. Remarks: Write remarks for mean here. See also: Separate items with the '|' character. Definition at line 150 of file Analyzer.cpp. References M, m_ExampleData, m_mean, N, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { log::write("Analyzer mean"); m_mean = Matrix(M,1); //[M x 1] for(int i=1;i <= M; i++) { /* printf("Integer %d\n", i); printf("Cols: %d\n", data.Ncols()); printf("Sum: %f\n", data.Row(i).Sum());*/ m_mean(i,1) = 1.0/N * m_ExampleData.Row(i).Sum(); } log::write("Mean",m_mean); }

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void Analyzer::mergeData (  ReferenceModel  refModel, vector< ExampleModel * >  lmodels )

Write brief comment for mergeData here. Parameters: refModel  Description of parameter refModel. lmodels  Description of parameter lmodels. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for mergeData here. Remarks: Write remarks for mergeData here. See also: Separate items with the '|' character. Definition at line 60 of file Analyzer.cpp. References mergeData(). { mergeData(refModel, lmodels,(int)lmodels.size()); }

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void Analyzer::mergeData (  ReferenceModel  refModel, vector< ExampleModel * >  lmodels, int  size )

Write brief comment for mergeData here. Parameters: refModel  Description of parameter refModel. lmodels  Description of parameter lmodels. size  Description of parameter size. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for mergeData here. Remarks: Write remarks for mergeData here. See also: Separate items with the '|' character. Definition at line 88 of file Analyzer.cpp. References model::Model::getModelVertexs(), M, m_ExampleData, m_refModel, N, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), mergeData(), and Batch::TestAnalyzer(). { log::write("Analyzer merge data"); log::write("Number of models",size); m_refModel = refModel; for(int i=0;i<size;i++) { Matrix mv = lmodels[i]->getModelVertexs(); if(i==0) { m_ExampleData = mv; } else { m_ExampleData = m_ExampleData | mv; } } N = m_ExampleData.Ncols(); M = m_ExampleData.Nrows(); log::write("N",N); log::write("M",M); log::write("Example Data",m_ExampleData); }

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Analyzer & Analyzer::operator= (  const Analyzer &  other  )

Write brief comment for operator = here. Parameters: other  Description of parameter other. Returns: Write description of return value here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for operator = here. Remarks: Write remarks for operator = here. See also: Separate items with the '|' character. Definition at line 620 of file Analyzer.cpp. References M, m_AdjustedData, m_Components, m_Covariance, m_EigenValues, m_EigenVectors, m_ExampleData, m_mean, m_refModel, m_TotalEnergy, m_Transformation, and N. { // if same object if ( this == &other ) return *this; m_ExampleData = other.m_ExampleData; m_mean = other.m_mean; m_AdjustedData = other.m_AdjustedData; m_Covariance = other.m_Covariance; m_EigenValues = other.m_EigenValues; m_EigenVectors = other.m_EigenVectors; m_TotalEnergy = other.m_TotalEnergy; m_Components = other.m_Components; m_Transformation = other.m_Transformation; N = other.N; M = other.M; m_refModel = other.m_refModel; return *this; }

bool Analyzer::save (  char *  filename  )

Write brief comment for save here. Parameters: filename  Description of parameter filename. Returns: Write description of return value here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for save here. Remarks: Write remarks for save here. See also: Separate items with the '|' character. Definition at line 475 of file Analyzer.cpp. References m_Components, m_mean, m_refModel, and model::ReferenceModel::save(). Referenced by pcggui::SaveAnalyzer(). { ofstream saveFile(filename); if(saveFile.is_open()) { saveFile << "Mean Dim\n"; saveFile << m_mean.Nrows() << "," << m_mean.Ncols() << "\n"; saveFile << m_mean << "\n"; saveFile << "Components Dim\n"; saveFile << m_Components.Nrows() << "," << m_Components.Ncols() << "\n"; saveFile << m_Components << "\n"; m_refModel.save(&saveFile); saveFile.close(); return true; } else { return false; } }

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void Analyzer::selectComponents (   )

Write brief comment for selectComponents here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for selectComponents here. Remarks: Write remarks for selectComponents here. See also: Separate items with the '|' character. Definition at line 333 of file Analyzer.cpp. References m_Components, m_EigenVectors, m_TotalEnergy, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { log::write("Analyzer select Components"); int index = 1; float percent = 0.0; do { percent = ((m_TotalEnergy(1,m_TotalEnergy.Ncols()) - m_TotalEnergy(1,index)) * m_TotalEnergy(1,m_TotalEnergy.Ncols()))/100.0; log::write("Percent calc",percent); index++; } while(percent <= 90.0 && percent > 0.0); m_Components = m_EigenVectors.Reverse().Columns(1,index-1).Reverse(); log::write("Components",m_Components); }

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void Analyzer::setData (  Matrix  data  )

Write brief comment for setData here. Parameters: data  Description of parameter data. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for setData here. Remarks: Write remarks for setData here. See also: Separate items with the '|' character. Definition at line 126 of file Analyzer.cpp. References m_ExampleData. { m_ExampleData = data; }

void Analyzer::transformation (   )

Write brief comment for transformation here. Exceptions: <exception  class> Description of criteria for throwing this exception. Write detailed description for transformation here. Remarks: Write remarks for transformation here. See also: Separate items with the '|' character. Definition at line 367 of file Analyzer.cpp. References m_Components, m_Transformation, and log::write(). Referenced by pcggui::Analyze(), Batch::analyzeModel(), and Batch::TestAnalyzer(). { log::write("Analyzer Transformation Matrix"); // m_Covariance should perhaps be normalized - see wikipedia for info. m_Transformation = m_Components.t() * m_AdjustedData; log::write("Transformation",m_Transformation); }

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Member Data Documentation

int model::Analyzer::M [private]

Definition at line 44 of file Analyzer.h. Referenced by Analyzer(), computeEnergy(), findComponents(), mean(), mergeData(), and operator=().

Matrix model::Analyzer::m_AdjustedData [private]

Definition at line 37 of file Analyzer.h. Referenced by adjust(), Analyzer(), covariance(), operator=(), and ~Analyzer().

Matrix model::Analyzer::m_Components [private]

Definition at line 42 of file Analyzer.h. Referenced by Analyzer(), getInputDimension(), getModel(), load(), operator=(), save(), selectComponents(), and transformation().

Matrix model::Analyzer::m_Covariance [private]

Definition at line 38 of file Analyzer.h. Referenced by Analyzer(), covariance(), operator=(), and ~Analyzer().

SymmetricMatrix model::Analyzer::m_EigenValues [private]

Definition at line 39 of file Analyzer.h. Referenced by Analyzer(), computeEnergy(), findComponents(), operator=(), and ~Analyzer().

Matrix model::Analyzer::m_EigenVectors [private]

Definition at line 40 of file Analyzer.h. Referenced by Analyzer(), findComponents(), operator=(), selectComponents(), and ~Analyzer().

Matrix model::Analyzer::m_ExampleData [private]

Definition at line 35 of file Analyzer.h. Referenced by adjust(), Analyzer(), mean(), mergeData(), operator=(), setData(), and ~Analyzer().

Matrix model::Analyzer::m_mean [private]

Definition at line 36 of file Analyzer.h. Referenced by adjust(), Analyzer(), getModel(), load(), mean(), operator=(), save(), and ~Analyzer().

ReferenceModel model::Analyzer::m_refModel [private]

Definition at line 45 of file Analyzer.h. Referenced by Analyzer(), getModel(), load(), mergeData(), operator=(), and save().

Matrix model::Analyzer::m_TotalEnergy [private]

Definition at line 41 of file Analyzer.h. Referenced by Analyzer(), computeEnergy(), operator=(), and selectComponents().

Matrix model::Analyzer::m_Transformation [private]

Definition at line 43 of file Analyzer.h. Referenced by Analyzer(), getModel(), operator=(), and transformation().

int model::Analyzer::N [private]

Definition at line 44 of file Analyzer.h. Referenced by adjust(), Analyzer(), covariance(), getModel(), mean(), mergeData(), and operator=().

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

• model/Analyzer.h
• model/Analyzer.cpp

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