1 | /*! |
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2 | \file |
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3 | \brief Probability distributions for Exponential Family models. |
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4 | \author Vaclav Smidl. |
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5 | |
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6 | ----------------------------------- |
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7 | BDM++ - C++ library for Bayesian Decision Making under Uncertainty |
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8 | |
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9 | Using IT++ for numerical operations |
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10 | ----------------------------------- |
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11 | */ |
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12 | |
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13 | #ifndef EF_H |
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14 | #define EF_H |
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15 | |
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16 | |
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17 | #include "../base/bdmbase.h" |
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18 | #include "../math/chmat.h" |
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19 | |
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20 | namespace bdm |
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21 | { |
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22 | |
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23 | |
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24 | //! Global Uniform_RNG |
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25 | extern Uniform_RNG UniRNG; |
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26 | //! Global Normal_RNG |
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27 | extern Normal_RNG NorRNG; |
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28 | //! Global Gamma_RNG |
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29 | extern Gamma_RNG GamRNG; |
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30 | |
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31 | /*! |
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32 | * \brief General conjugate exponential family posterior density. |
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33 | |
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34 | * More?... |
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35 | */ |
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36 | |
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37 | class eEF : public epdf |
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38 | { |
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39 | public: |
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40 | // eEF() :epdf() {}; |
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41 | //! default constructor |
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42 | eEF ( ) :epdf ( ) {}; |
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43 | //! logarithm of the normalizing constant, \f$\mathcal{I}\f$ |
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44 | virtual double lognc() const =0; |
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45 | //!TODO decide if it is really needed |
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46 | virtual void dupdate ( mat &v ) {it_error ( "Not implemented" );}; |
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47 | //!Evaluate normalized log-probability |
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48 | virtual double evallog_nn ( const vec &val ) const{it_error ( "Not implemented" );return 0.0;}; |
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49 | //!Evaluate normalized log-probability |
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50 | virtual double evallog ( const vec &val ) const { |
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51 | double tmp; |
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52 | tmp= evallog_nn ( val )-lognc(); |
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53 | // it_assert_debug ( std::isfinite ( tmp ),"Infinite value" ); |
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54 | return tmp;} |
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55 | //!Evaluate normalized log-probability for many samples |
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56 | virtual vec evallog ( const mat &Val ) const |
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57 | { |
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58 | vec x ( Val.cols() ); |
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59 | for ( int i=0;i<Val.cols();i++ ) {x ( i ) =evallog_nn ( Val.get_col ( i ) ) ;} |
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60 | return x-lognc(); |
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61 | } |
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62 | //!Power of the density, used e.g. to flatten the density |
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63 | virtual void pow ( double p ) {it_error ( "Not implemented" );}; |
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64 | }; |
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65 | |
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66 | /*! |
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67 | * \brief Exponential family model. |
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68 | |
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69 | * More?... |
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70 | */ |
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71 | |
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72 | class mEF : public mpdf |
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73 | { |
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74 | |
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75 | public: |
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76 | //! Default constructor |
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77 | mEF ( ) :mpdf ( ) {}; |
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78 | }; |
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79 | |
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80 | //! Estimator for Exponential family |
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81 | class BMEF : public BM |
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82 | { |
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83 | protected: |
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84 | //! forgetting factor |
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85 | double frg; |
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86 | //! cached value of lognc() in the previous step (used in evaluation of \c ll ) |
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87 | double last_lognc; |
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88 | public: |
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89 | //! Default constructor (=empty constructor) |
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90 | BMEF ( double frg0=1.0 ) :BM ( ), frg ( frg0 ) {} |
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91 | //! Copy constructor |
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92 | BMEF ( const BMEF &B ) :BM ( B ), frg ( B.frg ), last_lognc ( B.last_lognc ) {} |
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93 | //!get statistics from another model |
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94 | virtual void set_statistics ( const BMEF* BM0 ) {it_error ( "Not implemented" );}; |
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95 | //! Weighted update of sufficient statistics (Bayes rule) |
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96 | virtual void bayes ( const vec &data, const double w ) {}; |
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97 | //original Bayes |
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98 | void bayes ( const vec &dt ); |
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99 | //!Flatten the posterior according to the given BMEF (of the same type!) |
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100 | virtual void flatten ( const BMEF * B ) {it_error ( "Not implemented" );} |
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101 | //!Flatten the posterior as if to keep nu0 data |
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102 | // virtual void flatten ( double nu0 ) {it_error ( "Not implemented" );} |
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103 | |
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104 | BMEF* _copy_ () const {it_error ( "function _copy_ not implemented for this BM" ); return NULL;}; |
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105 | }; |
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106 | |
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107 | template<class sq_T> |
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108 | class mlnorm; |
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109 | |
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110 | /*! |
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111 | * \brief Gaussian density with positive definite (decomposed) covariance matrix. |
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112 | |
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113 | * More?... |
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114 | */ |
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115 | template<class sq_T> |
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116 | class enorm : public eEF |
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117 | { |
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118 | protected: |
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119 | //! mean value |
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120 | vec mu; |
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121 | //! Covariance matrix in decomposed form |
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122 | sq_T R; |
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123 | public: |
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124 | //!\name Constructors |
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125 | //!@{ |
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126 | |
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127 | enorm ( ) :eEF ( ), mu ( ),R ( ) {}; |
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128 | enorm ( const vec &mu,const sq_T &R ) {set_parameters ( mu,R );} |
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129 | void set_parameters ( const vec &mu,const sq_T &R ); |
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130 | void from_setting(const Setting &root); |
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131 | void validate() { |
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132 | it_assert(mu.length()==R.rows(),"parameters mismatch"); |
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133 | dim = mu.length(); |
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134 | } |
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135 | //!@} |
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136 | |
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137 | //! \name Mathematical operations |
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138 | //!@{ |
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139 | |
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140 | //! dupdate in exponential form (not really handy) |
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141 | void dupdate ( mat &v,double nu=1.0 ); |
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142 | |
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143 | vec sample() const; |
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144 | |
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145 | double evallog_nn ( const vec &val ) const; |
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146 | double lognc () const; |
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147 | vec mean() const {return mu;} |
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148 | vec variance() const {return diag ( R.to_mat() );} |
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149 | // mlnorm<sq_T>* condition ( const RV &rvn ) const ; <=========== fails to cmpile. Why? |
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150 | mpdf* condition ( const RV &rvn ) const ; |
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151 | enorm<sq_T>* marginal ( const RV &rv ) const; |
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152 | // epdf* marginal ( const RV &rv ) const; |
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153 | //!@} |
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154 | |
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155 | //! \name Access to attributes |
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156 | //!@{ |
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157 | |
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158 | vec& _mu() {return mu;} |
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159 | void set_mu ( const vec mu0 ) { mu=mu0;} |
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160 | sq_T& _R() {return R;} |
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161 | const sq_T& _R() const {return R;} |
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162 | //!@} |
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163 | |
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164 | }; |
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165 | UIREGISTER(enorm<chmat>); |
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166 | UIREGISTER(enorm<ldmat>); |
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167 | UIREGISTER(enorm<fsqmat>); |
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168 | |
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169 | |
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170 | /*! |
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171 | * \brief Gauss-inverse-Wishart density stored in LD form |
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172 | |
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173 | * For \f$p\f$-variate densities, given rv.count() should be \f$p\times\f$ V.rows(). |
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174 | * |
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175 | */ |
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176 | class egiw : public eEF |
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177 | { |
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178 | protected: |
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179 | //! Extended information matrix of sufficient statistics |
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180 | ldmat V; |
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181 | //! Number of data records (degrees of freedom) of sufficient statistics |
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182 | double nu; |
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183 | //! Dimension of the output |
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184 | int dimx; |
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185 | //! Dimension of the regressor |
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186 | int nPsi; |
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187 | public: |
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188 | //!\name Constructors |
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189 | //!@{ |
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190 | egiw() :eEF() {}; |
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191 | egiw ( int dimx0, ldmat V0, double nu0=-1.0 ) :eEF() {set_parameters ( dimx0,V0, nu0 );}; |
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192 | |
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193 | void set_parameters ( int dimx0, ldmat V0, double nu0=-1.0 ) |
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194 | { |
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195 | dimx=dimx0; |
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196 | nPsi = V0.rows()-dimx; |
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197 | dim = dimx* ( dimx+nPsi ); // size(R) + size(Theta) |
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198 | |
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199 | V=V0; |
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200 | if ( nu0<0 ) |
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201 | { |
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202 | nu = 0.1 +nPsi +2*dimx +2; // +2 assures finite expected value of R |
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203 | // terms before that are sufficient for finite normalization |
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204 | } |
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205 | else |
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206 | { |
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207 | nu=nu0; |
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208 | } |
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209 | } |
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210 | //!@} |
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211 | |
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212 | vec sample() const; |
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213 | vec mean() const; |
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214 | vec variance() const; |
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215 | |
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216 | //! LS estimate of \f$\theta\f$ |
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217 | vec est_theta() const; |
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218 | |
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219 | //! Covariance of the LS estimate |
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220 | ldmat est_theta_cov() const; |
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221 | |
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222 | void mean_mat ( mat &M, mat&R ) const; |
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223 | //! In this instance, val= [theta, r]. For multivariate instances, it is stored columnwise val = [theta_1 theta_2 ... r_1 r_2 ] |
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224 | double evallog_nn ( const vec &val ) const; |
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225 | double lognc () const; |
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226 | void pow ( double p ) {V*=p;nu*=p;}; |
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227 | |
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228 | //! \name Access attributes |
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229 | //!@{ |
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230 | |
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231 | ldmat& _V() {return V;} |
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232 | const ldmat& _V() const {return V;} |
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233 | double& _nu() {return nu;} |
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234 | const double& _nu() const {return nu;} |
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235 | void from_setting(const Setting &set){ |
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236 | set.lookupValue("nu",nu); |
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237 | set.lookupValue("dimx",dimx); |
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238 | mat V; |
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239 | UI::get(V,set,"V"); |
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240 | set_parameters(dimx, V, nu); |
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241 | RV* rv=UI::build<RV>(set,"rv"); |
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242 | set_rv(*rv); |
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243 | delete rv; |
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244 | } |
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245 | //!@} |
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246 | }; |
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247 | UIREGISTER(egiw); |
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248 | |
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249 | /*! \brief Dirichlet posterior density |
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250 | |
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251 | Continuous Dirichlet density of \f$n\f$-dimensional variable \f$x\f$ |
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252 | \f[ |
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253 | f(x|\beta) = \frac{\Gamma[\gamma]}{\prod_{i=1}^{n}\Gamma(\beta_i)} \prod_{i=1}^{n}x_i^{\beta_i-1} |
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254 | \f] |
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255 | where \f$\gamma=\sum_i \beta_i\f$. |
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256 | */ |
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257 | class eDirich: public eEF |
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258 | { |
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259 | protected: |
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260 | //!sufficient statistics |
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261 | vec beta; |
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262 | public: |
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263 | //!\name Constructors |
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264 | //!@{ |
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265 | |
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266 | eDirich () : eEF ( ) {}; |
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267 | eDirich ( const eDirich &D0 ) : eEF () {set_parameters ( D0.beta );}; |
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268 | eDirich ( const vec &beta0 ) {set_parameters ( beta0 );}; |
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269 | void set_parameters ( const vec &beta0 ) |
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270 | { |
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271 | beta= beta0; |
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272 | dim = beta.length(); |
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273 | } |
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274 | //!@} |
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275 | |
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276 | vec sample() const {it_error ( "Not implemented" );return vec_1 ( 0.0 );}; |
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277 | vec mean() const {return beta/sum(beta);}; |
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278 | vec variance() const {double gamma =sum(beta); return elem_mult ( beta, ( beta+1 ) ) / ( gamma* ( gamma+1 ) );} |
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279 | //! In this instance, val is ... |
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280 | double evallog_nn ( const vec &val ) const |
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281 | { |
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282 | double tmp; tmp= ( beta-1 ) *log ( val ); |
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283 | // it_assert_debug ( std::isfinite ( tmp ),"Infinite value" ); |
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284 | return tmp; |
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285 | }; |
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286 | double lognc () const |
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287 | { |
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288 | double tmp; |
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289 | double gam=sum ( beta ); |
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290 | double lgb=0.0; |
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291 | for ( int i=0;i<beta.length();i++ ) {lgb+=lgamma ( beta ( i ) );} |
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292 | tmp= lgb-lgamma ( gam ); |
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293 | // it_assert_debug ( std::isfinite ( tmp ),"Infinite value" ); |
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294 | return tmp; |
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295 | }; |
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296 | //!access function |
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297 | vec& _beta() {return beta;} |
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298 | //!Set internal parameters |
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299 | }; |
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300 | |
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301 | //! \brief Estimator for Multinomial density |
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302 | class multiBM : public BMEF |
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303 | { |
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304 | protected: |
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305 | //! Conjugate prior and posterior |
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306 | eDirich est; |
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307 | //! Pointer inside est to sufficient statistics |
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308 | vec β |
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309 | public: |
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310 | //!Default constructor |
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311 | multiBM ( ) : BMEF ( ),est ( ),beta ( est._beta() ) |
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312 | { |
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313 | if ( beta.length() >0 ) {last_lognc=est.lognc();} |
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314 | else{last_lognc=0.0;} |
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315 | } |
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316 | //!Copy constructor |
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317 | multiBM ( const multiBM &B ) : BMEF ( B ),est ( B.est ),beta ( est._beta() ) {} |
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318 | //! Sets sufficient statistics to match that of givefrom mB0 |
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319 | void set_statistics ( const BM* mB0 ) {const multiBM* mB=dynamic_cast<const multiBM*> ( mB0 ); beta=mB->beta;} |
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320 | void bayes ( const vec &dt ) |
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321 | { |
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322 | if ( frg<1.0 ) {beta*=frg;last_lognc=est.lognc();} |
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323 | beta+=dt; |
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324 | if ( evalll ) {ll=est.lognc()-last_lognc;} |
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325 | } |
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326 | double logpred ( const vec &dt ) const |
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327 | { |
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328 | eDirich pred ( est ); |
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329 | vec &beta = pred._beta(); |
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330 | |
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331 | double lll; |
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332 | if ( frg<1.0 ) |
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333 | {beta*=frg;lll=pred.lognc();} |
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334 | else |
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335 | if ( evalll ) {lll=last_lognc;} |
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336 | else{lll=pred.lognc();} |
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337 | |
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338 | beta+=dt; |
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339 | return pred.lognc()-lll; |
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340 | } |
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341 | void flatten ( const BMEF* B ) |
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342 | { |
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343 | const multiBM* E=dynamic_cast<const multiBM*> ( B ); |
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344 | // sum(beta) should be equal to sum(B.beta) |
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345 | const vec &Eb=E->beta;//const_cast<multiBM*> ( E )->_beta(); |
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346 | beta*= ( sum ( Eb ) /sum ( beta ) ); |
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347 | if ( evalll ) {last_lognc=est.lognc();} |
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348 | } |
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349 | const epdf& posterior() const {return est;}; |
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350 | const eDirich* _e() const {return &est;}; |
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351 | void set_parameters ( const vec &beta0 ) |
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352 | { |
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353 | est.set_parameters ( beta0 ); |
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354 | if ( evalll ) {last_lognc=est.lognc();} |
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355 | } |
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356 | }; |
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357 | |
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358 | /*! |
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359 | \brief Gamma posterior density |
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360 | |
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361 | Multivariate Gamma density as product of independent univariate densities. |
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362 | \f[ |
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363 | f(x|\alpha,\beta) = \prod f(x_i|\alpha_i,\beta_i) |
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364 | \f] |
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365 | */ |
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366 | |
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367 | class egamma : public eEF |
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368 | { |
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369 | protected: |
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370 | //! Vector \f$\alpha\f$ |
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371 | vec alpha; |
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372 | //! Vector \f$\beta\f$ |
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373 | vec beta; |
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374 | public : |
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375 | //! \name Constructors |
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376 | //!@{ |
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377 | egamma ( ) :eEF ( ), alpha ( 0 ), beta ( 0 ) {}; |
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378 | egamma ( const vec &a, const vec &b ) {set_parameters ( a, b );}; |
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379 | void set_parameters ( const vec &a, const vec &b ) {alpha=a,beta=b;dim = alpha.length();}; |
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380 | //!@} |
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381 | |
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382 | vec sample() const; |
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383 | //! TODO: is it used anywhere? |
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384 | // mat sample ( int N ) const; |
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385 | double evallog ( const vec &val ) const; |
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386 | double lognc () const; |
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387 | //! Returns poiter to alpha and beta. Potentially dengerous: use with care! |
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388 | vec& _alpha() {return alpha;} |
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389 | vec& _beta() {return beta;} |
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390 | vec mean() const {return elem_div ( alpha,beta );} |
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391 | vec variance() const {return elem_div ( alpha,elem_mult ( beta,beta ) ); } |
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392 | |
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393 | //! Load from structure with elements: |
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394 | //! \code |
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395 | //! { alpha = [...]; // vector of alpha |
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396 | //! beta = [...]; // vector of beta |
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397 | //! rv = {class="RV",...} // description |
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398 | //! } |
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399 | //! \endcode |
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400 | //!@} |
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401 | void from_setting(const Setting &set){ |
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402 | epdf::from_setting(set); // reads rv |
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403 | UI::get(alpha,set,"alpha"); |
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404 | UI::get(beta,set,"beta"); |
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405 | validate(); |
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406 | } |
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407 | void validate(){ |
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408 | it_assert(alpha.length() ==beta.length(), "parameters do not match"); |
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409 | dim =alpha.length(); |
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410 | } |
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411 | }; |
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412 | UIREGISTER(egamma); |
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413 | /*! |
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414 | \brief Inverse-Gamma posterior density |
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415 | |
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416 | Multivariate inverse-Gamma density as product of independent univariate densities. |
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417 | \f[ |
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418 | f(x|\alpha,\beta) = \prod f(x_i|\alpha_i,\beta_i) |
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419 | \f] |
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420 | |
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421 | Vector \f$\beta\f$ has different meaning (in fact it is 1/beta as used in definition of iG) |
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422 | |
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423 | Inverse Gamma can be converted to Gamma using \f[ |
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424 | x\sim iG(a,b) => 1/x\sim G(a,1/b) |
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425 | \f] |
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426 | This relation is used in sampling. |
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427 | */ |
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428 | |
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429 | class eigamma : public egamma |
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430 | { |
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431 | protected: |
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432 | public : |
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433 | //! \name Constructors |
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434 | //! All constructors are inherited |
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435 | //!@{ |
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436 | //!@} |
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437 | |
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438 | vec sample() const {return 1.0/egamma::sample();}; |
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439 | //! Returns poiter to alpha and beta. Potentially dangerous: use with care! |
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440 | vec mean() const {return elem_div ( beta,alpha-1 );} |
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441 | vec variance() const {vec mea=mean(); return elem_div ( elem_mult ( mea,mea ),alpha-2 );} |
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442 | }; |
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443 | /* |
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444 | //! Weighted mixture of epdfs with external owned components. |
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445 | class emix : public epdf { |
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446 | protected: |
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447 | int n; |
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448 | vec &w; |
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449 | Array<epdf*> Coms; |
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450 | public: |
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451 | //! Default constructor |
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452 | emix ( const RV &rv, vec &w0): epdf(rv), n(w0.length()), w(w0), Coms(n) {}; |
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453 | void set_parameters( int &i, double wi, epdf* ep){w(i)=wi;Coms(i)=ep;} |
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454 | vec mean(){vec pom; for(int i=0;i<n;i++){pom+=Coms(i)->mean()*w(i);} return pom;}; |
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455 | vec sample() {it_error ( "Not implemented" );return 0;} |
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456 | }; |
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457 | */ |
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458 | |
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459 | //! Uniform distributed density on a rectangular support |
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460 | |
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461 | class euni: public epdf |
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462 | { |
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463 | protected: |
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464 | //! lower bound on support |
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465 | vec low; |
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466 | //! upper bound on support |
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467 | vec high; |
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468 | //! internal |
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469 | vec distance; |
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470 | //! normalizing coefficients |
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471 | double nk; |
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472 | //! cache of log( \c nk ) |
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473 | double lnk; |
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474 | public: |
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475 | //! \name Constructors |
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476 | //!@{ |
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477 | euni ( ) :epdf ( ) {} |
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478 | euni ( const vec &low0, const vec &high0 ) {set_parameters ( low0,high0 );} |
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479 | void set_parameters ( const vec &low0, const vec &high0 ) |
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480 | { |
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481 | distance = high0-low0; |
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482 | it_assert_debug ( min ( distance ) >0.0,"bad support" ); |
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483 | low = low0; |
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484 | high = high0; |
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485 | nk = prod ( 1.0/distance ); |
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486 | lnk = log ( nk ); |
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487 | dim = low.length(); |
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488 | } |
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489 | //!@} |
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490 | |
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491 | double eval ( const vec &val ) const {return nk;} |
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492 | double evallog ( const vec &val ) const { |
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493 | if (any(val<low) && any(val>high)) {return inf;} |
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494 | else return lnk; |
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495 | } |
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496 | vec sample() const |
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497 | { |
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498 | vec smp ( dim ); |
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499 | #pragma omp critical |
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500 | UniRNG.sample_vector ( dim ,smp ); |
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501 | return low+elem_mult ( distance,smp ); |
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502 | } |
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503 | //! set values of \c low and \c high |
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504 | vec mean() const {return ( high-low ) /2.0;} |
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505 | vec variance() const {return ( pow ( high,2 ) +pow ( low,2 ) +elem_mult ( high,low ) ) /3.0;} |
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506 | //! Load from structure with elements: |
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507 | //! \code |
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508 | //! { high = [...]; // vector of upper bounds |
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509 | //! low = [...]; // vector of lower bounds |
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510 | //! rv = {class="RV",...} // description of RV |
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511 | //! } |
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512 | //! \endcode |
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513 | //!@} |
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514 | void from_setting(const Setting &set){ |
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515 | epdf::from_setting(set); // reads rv and rvc |
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516 | UI::get(high,set,"high"); |
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517 | UI::get(low,set,"low"); |
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518 | } |
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519 | }; |
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520 | |
---|
521 | |
---|
522 | /*! |
---|
523 | \brief Normal distributed linear function with linear function of mean value; |
---|
524 | |
---|
525 | Mean value \f$mu=A*rvc+mu_0\f$. |
---|
526 | */ |
---|
527 | template<class sq_T> |
---|
528 | class mlnorm : public mEF |
---|
529 | { |
---|
530 | protected: |
---|
531 | //! Internal epdf that arise by conditioning on \c rvc |
---|
532 | enorm<sq_T> epdf; |
---|
533 | mat A; |
---|
534 | vec mu_const; |
---|
535 | vec& _mu; //cached epdf.mu; |
---|
536 | public: |
---|
537 | //! \name Constructors |
---|
538 | //!@{ |
---|
539 | mlnorm ( ) :mEF (),epdf ( ),A ( ),_mu ( epdf._mu() ) {ep =&epdf; }; |
---|
540 | mlnorm ( const mat &A, const vec &mu0, const sq_T &R ) :epdf ( ),_mu ( epdf._mu() ) |
---|
541 | { |
---|
542 | ep =&epdf; set_parameters ( A,mu0,R ); |
---|
543 | }; |
---|
544 | //! Set \c A and \c R |
---|
545 | void set_parameters ( const mat &A, const vec &mu0, const sq_T &R ); |
---|
546 | //!@} |
---|
547 | //! Set value of \c rvc . Result of this operation is stored in \c epdf use function \c _ep to access it. |
---|
548 | void condition ( const vec &cond ); |
---|
549 | |
---|
550 | //!access function |
---|
551 | vec& _mu_const() {return mu_const;} |
---|
552 | //!access function |
---|
553 | mat& _A() {return A;} |
---|
554 | //!access function |
---|
555 | mat _R() {return epdf._R().to_mat();} |
---|
556 | |
---|
557 | template<class sq_M> |
---|
558 | friend std::ostream &operator<< ( std::ostream &os, mlnorm<sq_M> &ml ); |
---|
559 | |
---|
560 | void from_setting(const Setting &set){ |
---|
561 | mpdf::from_setting(set); |
---|
562 | UI::get(A,set,"A"); |
---|
563 | UI::get(mu_const,set,"const"); |
---|
564 | mat R0; |
---|
565 | UI::get(R0,set,"R"); |
---|
566 | set_parameters(A,mu_const,R0); |
---|
567 | }; |
---|
568 | }; |
---|
569 | UIREGISTER(mlnorm<ldmat>); |
---|
570 | UIREGISTER(mlnorm<fsqmat>); |
---|
571 | UIREGISTER(mlnorm<chmat>); |
---|
572 | |
---|
573 | //! Mpdf with general function for mean value |
---|
574 | template<class sq_T> |
---|
575 | class mgnorm : public mEF |
---|
576 | { |
---|
577 | protected: |
---|
578 | //! Internal epdf that arise by conditioning on \c rvc |
---|
579 | enorm<sq_T> epdf; |
---|
580 | vec μ |
---|
581 | fnc* g; |
---|
582 | public: |
---|
583 | //!default constructor |
---|
584 | mgnorm() :mu ( epdf._mu() ) {ep=&epdf;} |
---|
585 | //!set mean function |
---|
586 | void set_parameters ( fnc* g0, const sq_T &R0 ) {g=g0; epdf.set_parameters ( zeros ( g->dimension() ), R0 );} |
---|
587 | void condition ( const vec &cond ) {mu=g->eval ( cond );}; |
---|
588 | |
---|
589 | |
---|
590 | /*! UI for mgnorm |
---|
591 | |
---|
592 | The mgnorm is constructed from a structure with fields: |
---|
593 | \code |
---|
594 | system = { |
---|
595 | type = "mgnorm"; |
---|
596 | // function for mean value evolution |
---|
597 | g = {type="fnc"; ... } |
---|
598 | |
---|
599 | // variance |
---|
600 | R = [1, 0, |
---|
601 | 0, 1]; |
---|
602 | // --OR -- |
---|
603 | dR = [1, 1]; |
---|
604 | |
---|
605 | // == OPTIONAL == |
---|
606 | |
---|
607 | // description of y variables |
---|
608 | y = {type="rv"; names=["y", "u"];}; |
---|
609 | // description of u variable |
---|
610 | u = {type="rv"; names=[];} |
---|
611 | }; |
---|
612 | \endcode |
---|
613 | |
---|
614 | Result if |
---|
615 | */ |
---|
616 | |
---|
617 | void from_setting( const Setting &set ) |
---|
618 | { |
---|
619 | fnc* g = UI::build<fnc>( set, "g" ); |
---|
620 | |
---|
621 | mat R; |
---|
622 | if ( set.exists( "dR" ) ) |
---|
623 | { |
---|
624 | vec dR; |
---|
625 | UI::get( dR, set, "dR" ); |
---|
626 | R=diag(dR); |
---|
627 | } |
---|
628 | else |
---|
629 | UI::get( R, set, "R"); |
---|
630 | |
---|
631 | set_parameters(g,R); |
---|
632 | } |
---|
633 | |
---|
634 | /*void mgnorm::to_setting( Setting &set ) const |
---|
635 | { |
---|
636 | Transport::to_setting( set ); |
---|
637 | |
---|
638 | Setting &kilometers_setting = set.add("kilometers", Setting::TypeInt ); |
---|
639 | kilometers_setting = kilometers; |
---|
640 | |
---|
641 | UI::save( passengers, set, "passengers" ); |
---|
642 | }*/ |
---|
643 | |
---|
644 | }; |
---|
645 | |
---|
646 | UIREGISTER(mgnorm<chmat>); |
---|
647 | |
---|
648 | |
---|
649 | /*! (Approximate) Student t density with linear function of mean value |
---|
650 | |
---|
651 | The internal epdf of this class is of the type of a Gaussian (enorm). |
---|
652 | However, each conditioning is trying to assure the best possible approximation by taking into account the zeta function. See [] for reference. |
---|
653 | |
---|
654 | Perhaps a moment-matching technique? |
---|
655 | */ |
---|
656 | class mlstudent : public mlnorm<ldmat> |
---|
657 | { |
---|
658 | protected: |
---|
659 | ldmat Lambda; |
---|
660 | ldmat &_R; |
---|
661 | ldmat Re; |
---|
662 | public: |
---|
663 | mlstudent ( ) :mlnorm<ldmat> (), |
---|
664 | Lambda (), _R ( epdf._R() ) {} |
---|
665 | void set_parameters ( const mat &A0, const vec &mu0, const ldmat &R0, const ldmat& Lambda0 ) |
---|
666 | { |
---|
667 | it_assert_debug ( A0.rows() ==mu0.length(),"" ); |
---|
668 | it_assert_debug ( R0.rows() ==A0.rows(),"" ); |
---|
669 | |
---|
670 | epdf.set_parameters ( mu0,Lambda ); // |
---|
671 | A = A0; |
---|
672 | mu_const = mu0; |
---|
673 | Re=R0; |
---|
674 | Lambda = Lambda0; |
---|
675 | } |
---|
676 | void condition ( const vec &cond ) |
---|
677 | { |
---|
678 | _mu = A*cond + mu_const; |
---|
679 | double zeta; |
---|
680 | //ugly hack! |
---|
681 | if ( ( cond.length() +1 ) ==Lambda.rows() ) |
---|
682 | { |
---|
683 | zeta = Lambda.invqform ( concat ( cond, vec_1 ( 1.0 ) ) ); |
---|
684 | } |
---|
685 | else |
---|
686 | { |
---|
687 | zeta = Lambda.invqform ( cond ); |
---|
688 | } |
---|
689 | _R = Re; |
---|
690 | _R*= ( 1+zeta );// / ( nu ); << nu is in Re!!!!!! |
---|
691 | }; |
---|
692 | |
---|
693 | }; |
---|
694 | /*! |
---|
695 | \brief Gamma random walk |
---|
696 | |
---|
697 | Mean value, \f$\mu\f$, of this density is given by \c rvc . |
---|
698 | Standard deviation of the random walk is proportional to one \f$k\f$-th the mean. |
---|
699 | This is achieved by setting \f$\alpha=k\f$ and \f$\beta=k/\mu\f$. |
---|
700 | |
---|
701 | The standard deviation of the walk is then: \f$\mu/\sqrt(k)\f$. |
---|
702 | */ |
---|
703 | class mgamma : public mEF |
---|
704 | { |
---|
705 | protected: |
---|
706 | //! Internal epdf that arise by conditioning on \c rvc |
---|
707 | egamma epdf; |
---|
708 | //! Constant \f$k\f$ |
---|
709 | double k; |
---|
710 | //! cache of epdf.beta |
---|
711 | vec &_beta; |
---|
712 | |
---|
713 | public: |
---|
714 | //! Constructor |
---|
715 | mgamma ( ) : mEF ( ), epdf (), _beta ( epdf._beta() ) {ep=&epdf;}; |
---|
716 | //! Set value of \c k |
---|
717 | void set_parameters ( double k, const vec &beta0 ); |
---|
718 | void condition ( const vec &val ) {_beta=k/val;}; |
---|
719 | //! Load from structure with elements: |
---|
720 | //! \code |
---|
721 | //! { alpha = [...]; // vector of alpha |
---|
722 | //! k = 1.1; // multiplicative constant k |
---|
723 | //! rv = {class="RV",...} // description of RV |
---|
724 | //! rvc = {class="RV",...} // description of RV in condition |
---|
725 | //! } |
---|
726 | //! \endcode |
---|
727 | //!@} |
---|
728 | void from_setting(const Setting &set){ |
---|
729 | mpdf::from_setting(set); // reads rv and rvc |
---|
730 | vec betatmp; // ugly but necessary |
---|
731 | UI::get(betatmp,set,"beta"); |
---|
732 | set.lookupValue("k",k); |
---|
733 | set_parameters(k,betatmp); |
---|
734 | } |
---|
735 | }; |
---|
736 | UIREGISTER(mgamma); |
---|
737 | |
---|
738 | /*! |
---|
739 | \brief Inverse-Gamma random walk |
---|
740 | |
---|
741 | Mean value, \f$ \mu \f$, of this density is given by \c rvc . |
---|
742 | Standard deviation of the random walk is proportional to one \f$ k \f$-th the mean. |
---|
743 | This is achieved by setting \f$ \alpha=\mu/k^2+2 \f$ and \f$ \beta=\mu(\alpha-1)\f$. |
---|
744 | |
---|
745 | The standard deviation of the walk is then: \f$ \mu/\sqrt(k)\f$. |
---|
746 | */ |
---|
747 | class migamma : public mEF |
---|
748 | { |
---|
749 | protected: |
---|
750 | //! Internal epdf that arise by conditioning on \c rvc |
---|
751 | eigamma epdf; |
---|
752 | //! Constant \f$k\f$ |
---|
753 | double k; |
---|
754 | //! cache of epdf.alpha |
---|
755 | vec &_alpha; |
---|
756 | //! cache of epdf.beta |
---|
757 | vec &_beta; |
---|
758 | |
---|
759 | public: |
---|
760 | //! \name Constructors |
---|
761 | //!@{ |
---|
762 | migamma ( ) : mEF (), epdf ( ), _alpha ( epdf._alpha() ), _beta ( epdf._beta() ) {ep=&epdf;}; |
---|
763 | migamma ( const migamma &m ) : mEF (), epdf ( m.epdf ), _alpha ( epdf._alpha() ), _beta ( epdf._beta() ) {ep=&epdf;}; |
---|
764 | //!@} |
---|
765 | |
---|
766 | //! Set value of \c k |
---|
767 | void set_parameters ( int len, double k0 ) |
---|
768 | { |
---|
769 | k=k0; |
---|
770 | epdf.set_parameters ( ( 1.0/ ( k*k ) +2.0 ) *ones ( len ) /*alpha*/, ones ( len ) /*beta*/ ); |
---|
771 | dimc = dimension(); |
---|
772 | }; |
---|
773 | void condition ( const vec &val ) |
---|
774 | { |
---|
775 | _beta=elem_mult ( val, ( _alpha-1.0 ) ); |
---|
776 | }; |
---|
777 | }; |
---|
778 | |
---|
779 | |
---|
780 | /*! |
---|
781 | \brief Gamma random walk around a fixed point |
---|
782 | |
---|
783 | Mean value, \f$\mu\f$, of this density is given by a geometric combination of \c rvc and given fixed point, \f$p\f$. \f$l\f$ is the coefficient of the geometric combimation |
---|
784 | \f[ \mu = \mu_{t-1} ^{l} p^{1-l}\f] |
---|
785 | |
---|
786 | Standard deviation of the random walk is proportional to one \f$k\f$-th the mean. |
---|
787 | This is achieved by setting \f$\alpha=k\f$ and \f$\beta=k/\mu\f$. |
---|
788 | |
---|
789 | The standard deviation of the walk is then: \f$\mu/\sqrt(k)\f$. |
---|
790 | */ |
---|
791 | class mgamma_fix : public mgamma |
---|
792 | { |
---|
793 | protected: |
---|
794 | //! parameter l |
---|
795 | double l; |
---|
796 | //! reference vector |
---|
797 | vec refl; |
---|
798 | public: |
---|
799 | //! Constructor |
---|
800 | mgamma_fix ( ) : mgamma ( ),refl () {}; |
---|
801 | //! Set value of \c k |
---|
802 | void set_parameters ( double k0 , vec ref0, double l0 ) |
---|
803 | { |
---|
804 | mgamma::set_parameters ( k0, ref0 ); |
---|
805 | refl=pow ( ref0,1.0-l0 );l=l0; |
---|
806 | dimc=dimension(); |
---|
807 | }; |
---|
808 | |
---|
809 | void condition ( const vec &val ) {vec mean=elem_mult ( refl,pow ( val,l ) ); _beta=k/mean;}; |
---|
810 | }; |
---|
811 | |
---|
812 | |
---|
813 | /*! |
---|
814 | \brief Inverse-Gamma random walk around a fixed point |
---|
815 | |
---|
816 | Mean value, \f$\mu\f$, of this density is given by a geometric combination of \c rvc and given fixed point, \f$p\f$. \f$l\f$ is the coefficient of the geometric combimation |
---|
817 | \f[ \mu = \mu_{t-1} ^{l} p^{1-l}\f] |
---|
818 | |
---|
819 | ==== Check == vv = |
---|
820 | Standard deviation of the random walk is proportional to one \f$k\f$-th the mean. |
---|
821 | This is achieved by setting \f$\alpha=k\f$ and \f$\beta=k/\mu\f$. |
---|
822 | |
---|
823 | The standard deviation of the walk is then: \f$\mu/\sqrt(k)\f$. |
---|
824 | */ |
---|
825 | class migamma_ref : public migamma |
---|
826 | { |
---|
827 | protected: |
---|
828 | //! parameter l |
---|
829 | double l; |
---|
830 | //! reference vector |
---|
831 | vec refl; |
---|
832 | public: |
---|
833 | //! Constructor |
---|
834 | migamma_ref ( ) : migamma (),refl ( ) {}; |
---|
835 | //! Set value of \c k |
---|
836 | void set_parameters ( double k0 , vec ref0, double l0 ) |
---|
837 | { |
---|
838 | migamma::set_parameters ( ref0.length(), k0 ); |
---|
839 | refl=pow ( ref0,1.0-l0 ); |
---|
840 | l=l0; |
---|
841 | dimc = dimension(); |
---|
842 | }; |
---|
843 | |
---|
844 | void condition ( const vec &val ) |
---|
845 | { |
---|
846 | vec mean=elem_mult ( refl,pow ( val,l ) ); |
---|
847 | migamma::condition ( mean ); |
---|
848 | }; |
---|
849 | |
---|
850 | /*! UI for migamma_ref |
---|
851 | |
---|
852 | The migamma_ref is constructed from a structure with fields: |
---|
853 | \code |
---|
854 | system = { |
---|
855 | type = "migamma_ref"; |
---|
856 | ref = [1e-5; 1e-5; 1e-2 1e-3]; // reference vector |
---|
857 | l = 0.999; // constant l |
---|
858 | k = 0.1; // constant k |
---|
859 | |
---|
860 | // == OPTIONAL == |
---|
861 | // description of y variables |
---|
862 | y = {type="rv"; names=["y", "u"];}; |
---|
863 | // description of u variable |
---|
864 | u = {type="rv"; names=[];} |
---|
865 | }; |
---|
866 | \endcode |
---|
867 | |
---|
868 | Result if |
---|
869 | */ |
---|
870 | void from_setting( const Setting &set ); |
---|
871 | |
---|
872 | // TODO dodelat void to_setting( Setting &set ) const; |
---|
873 | }; |
---|
874 | |
---|
875 | |
---|
876 | UIREGISTER(migamma_ref); |
---|
877 | |
---|
878 | /*! Log-Normal probability density |
---|
879 | only allow diagonal covariances! |
---|
880 | |
---|
881 | Density of the form \f$ \log(x)\sim \mathcal{N}(\mu,\sigma^2) \f$ , i.e. |
---|
882 | \f[ |
---|
883 | x \sim \frac{1}{x\sigma\sqrt{2\pi}}\exp{-\frac{1}{2\sigma^2}(\log(x)-\mu)} |
---|
884 | \f] |
---|
885 | |
---|
886 | */ |
---|
887 | class elognorm: public enorm<ldmat> |
---|
888 | { |
---|
889 | public: |
---|
890 | vec sample() const {return exp ( enorm<ldmat>::sample() );}; |
---|
891 | vec mean() const {vec var=enorm<ldmat>::variance();return exp ( mu - 0.5*var );}; |
---|
892 | |
---|
893 | }; |
---|
894 | |
---|
895 | /*! |
---|
896 | \brief Log-Normal random walk |
---|
897 | |
---|
898 | Mean value, \f$\mu\f$, is... |
---|
899 | |
---|
900 | ==== Check == vv = |
---|
901 | Standard deviation of the random walk is proportional to one \f$k\f$-th the mean. |
---|
902 | This is achieved by setting \f$\alpha=k\f$ and \f$\beta=k/\mu\f$. |
---|
903 | |
---|
904 | The standard deviation of the walk is then: \f$\mu/\sqrt(k)\f$. |
---|
905 | */ |
---|
906 | class mlognorm : public mpdf |
---|
907 | { |
---|
908 | protected: |
---|
909 | elognorm eno; |
---|
910 | //! parameter 1/2*sigma^2 |
---|
911 | double sig2; |
---|
912 | //! access |
---|
913 | vec μ |
---|
914 | public: |
---|
915 | //! Constructor |
---|
916 | mlognorm ( ) : eno (), mu ( eno._mu() ) {ep=&eno;}; |
---|
917 | //! Set value of \c k |
---|
918 | void set_parameters ( int size, double k ) |
---|
919 | { |
---|
920 | sig2 = 0.5*log ( k*k+1 ); |
---|
921 | eno.set_parameters ( zeros ( size ),2*sig2*eye ( size ) ); |
---|
922 | |
---|
923 | dimc = size; |
---|
924 | }; |
---|
925 | |
---|
926 | void condition ( const vec &val ) |
---|
927 | { |
---|
928 | mu=log ( val )-sig2;//elem_mult ( refl,pow ( val,l ) ); |
---|
929 | }; |
---|
930 | |
---|
931 | /*! UI for mlognorm |
---|
932 | |
---|
933 | The mlognorm is constructed from a structure with fields: |
---|
934 | \code |
---|
935 | system = { |
---|
936 | type = "mlognorm"; |
---|
937 | k = 0.1; // constant k |
---|
938 | mu0 = [1., 1.]; |
---|
939 | |
---|
940 | // == OPTIONAL == |
---|
941 | // description of y variables |
---|
942 | y = {type="rv"; names=["y", "u"];}; |
---|
943 | // description of u variable |
---|
944 | u = {type="rv"; names=[];} |
---|
945 | }; |
---|
946 | \endcode |
---|
947 | |
---|
948 | */ |
---|
949 | void from_setting( const Setting &set ); |
---|
950 | |
---|
951 | // TODO dodelat void to_setting( Setting &set ) const; |
---|
952 | |
---|
953 | }; |
---|
954 | |
---|
955 | UIREGISTER(mlognorm); |
---|
956 | |
---|
957 | /*! inverse Wishart density defined on Choleski decomposition |
---|
958 | |
---|
959 | */ |
---|
960 | class eWishartCh : public epdf |
---|
961 | { |
---|
962 | protected: |
---|
963 | //! Upper-Triagle of Choleski decomposition of \f$ \Psi \f$ |
---|
964 | chmat Y; |
---|
965 | //! dimension of matrix \f$ \Psi \f$ |
---|
966 | int p; |
---|
967 | //! degrees of freedom \f$ \nu \f$ |
---|
968 | double delta; |
---|
969 | public: |
---|
970 | void set_parameters ( const mat &Y0, const double delta0 ) {Y=chmat ( Y0 );delta=delta0; p=Y.rows(); dim = p*p; } |
---|
971 | mat sample_mat() const |
---|
972 | { |
---|
973 | mat X=zeros ( p,p ); |
---|
974 | |
---|
975 | //sample diagonal |
---|
976 | for ( int i=0;i<p;i++ ) |
---|
977 | { |
---|
978 | GamRNG.setup ( 0.5* ( delta-i ) , 0.5 ); // no +1 !! index if from 0 |
---|
979 | #pragma omp critical |
---|
980 | X ( i,i ) =sqrt ( GamRNG() ); |
---|
981 | } |
---|
982 | //do the rest |
---|
983 | for ( int i=0;i<p;i++ ) |
---|
984 | { |
---|
985 | for ( int j=i+1;j<p;j++ ) |
---|
986 | { |
---|
987 | #pragma omp critical |
---|
988 | X ( i,j ) =NorRNG.sample(); |
---|
989 | } |
---|
990 | } |
---|
991 | return X*Y._Ch();// return upper triangular part of the decomposition |
---|
992 | } |
---|
993 | vec sample () const |
---|
994 | { |
---|
995 | return vec ( sample_mat()._data(),p*p ); |
---|
996 | } |
---|
997 | //! fast access function y0 will be copied into Y.Ch. |
---|
998 | void setY ( const mat &Ch0 ) {copy_vector ( dim,Ch0._data(), Y._Ch()._data() );} |
---|
999 | //! fast access function y0 will be copied into Y.Ch. |
---|
1000 | void _setY ( const vec &ch0 ) {copy_vector ( dim, ch0._data(), Y._Ch()._data() ); } |
---|
1001 | //! access function |
---|
1002 | const chmat& getY()const {return Y;} |
---|
1003 | }; |
---|
1004 | |
---|
1005 | class eiWishartCh: public epdf |
---|
1006 | { |
---|
1007 | protected: |
---|
1008 | eWishartCh W; |
---|
1009 | int p; |
---|
1010 | double delta; |
---|
1011 | public: |
---|
1012 | void set_parameters ( const mat &Y0, const double delta0) { |
---|
1013 | delta = delta0; |
---|
1014 | W.set_parameters ( inv ( Y0 ),delta0 ); |
---|
1015 | dim = W.dimension(); p=Y0.rows(); |
---|
1016 | } |
---|
1017 | vec sample() const {mat iCh; iCh=inv ( W.sample_mat() ); return vec ( iCh._data(),dim );} |
---|
1018 | void _setY ( const vec &y0 ) |
---|
1019 | { |
---|
1020 | mat Ch ( p,p ); |
---|
1021 | mat iCh ( p,p ); |
---|
1022 | copy_vector ( dim, y0._data(), Ch._data() ); |
---|
1023 | |
---|
1024 | iCh=inv ( Ch ); |
---|
1025 | W.setY ( iCh ); |
---|
1026 | } |
---|
1027 | virtual double evallog ( const vec &val ) const { |
---|
1028 | chmat X(p); |
---|
1029 | const chmat& Y=W.getY(); |
---|
1030 | |
---|
1031 | copy_vector(p*p,val._data(),X._Ch()._data()); |
---|
1032 | chmat iX(p);X.inv(iX); |
---|
1033 | // compute |
---|
1034 | // \frac{ |\Psi|^{m/2}|X|^{-(m+p+1)/2}e^{-tr(\Psi X^{-1})/2} }{ 2^{mp/2}\Gamma_p(m/2)}, |
---|
1035 | mat M=Y.to_mat()*iX.to_mat(); |
---|
1036 | |
---|
1037 | double log1 = 0.5*p*(2*Y.logdet())-0.5*(delta+p+1)*(2*X.logdet())-0.5*trace(M); |
---|
1038 | //Fixme! Multivariate gamma omitted!! it is ok for sampling, but not otherwise!! |
---|
1039 | |
---|
1040 | /* if (0) { |
---|
1041 | mat XX=X.to_mat(); |
---|
1042 | mat YY=Y.to_mat(); |
---|
1043 | |
---|
1044 | double log2 = 0.5*p*log(det(YY))-0.5*(delta+p+1)*log(det(XX))-0.5*trace(YY*inv(XX)); |
---|
1045 | cout << log1 << "," << log2 << endl; |
---|
1046 | }*/ |
---|
1047 | return log1; |
---|
1048 | }; |
---|
1049 | |
---|
1050 | }; |
---|
1051 | |
---|
1052 | class rwiWishartCh : public mpdf |
---|
1053 | { |
---|
1054 | protected: |
---|
1055 | eiWishartCh eiW; |
---|
1056 | //!square root of \f$ \nu-p-1 \f$ - needed for computation of \f$ \Psi \f$ from conditions |
---|
1057 | double sqd; |
---|
1058 | //reference point for diagonal |
---|
1059 | vec refl; |
---|
1060 | double l; |
---|
1061 | int p; |
---|
1062 | public: |
---|
1063 | void set_parameters ( int p0, double k, vec ref0, double l0 ) |
---|
1064 | { |
---|
1065 | p=p0; |
---|
1066 | double delta = 2/(k*k)+p+3; |
---|
1067 | sqd=sqrt ( delta-p-1 ); |
---|
1068 | l=l0; |
---|
1069 | refl=pow(ref0,1-l); |
---|
1070 | |
---|
1071 | eiW.set_parameters ( eye ( p ),delta ); |
---|
1072 | ep=&eiW; |
---|
1073 | dimc=eiW.dimension(); |
---|
1074 | } |
---|
1075 | void condition ( const vec &c ) { |
---|
1076 | vec z=c; |
---|
1077 | int ri=0; |
---|
1078 | for(int i=0;i<p*p;i+=(p+1)){//trace diagonal element |
---|
1079 | z(i) = pow(z(i),l)*refl(ri); |
---|
1080 | ri++; |
---|
1081 | } |
---|
1082 | |
---|
1083 | eiW._setY ( sqd*z ); |
---|
1084 | } |
---|
1085 | }; |
---|
1086 | |
---|
1087 | //! Switch between various resampling methods. |
---|
1088 | enum RESAMPLING_METHOD { MULTINOMIAL = 0, STRATIFIED = 1, SYSTEMATIC = 3 }; |
---|
1089 | /*! |
---|
1090 | \brief Weighted empirical density |
---|
1091 | |
---|
1092 | Used e.g. in particle filters. |
---|
1093 | */ |
---|
1094 | class eEmp: public epdf |
---|
1095 | { |
---|
1096 | protected : |
---|
1097 | //! Number of particles |
---|
1098 | int n; |
---|
1099 | //! Sample weights \f$w\f$ |
---|
1100 | vec w; |
---|
1101 | //! Samples \f$x^{(i)}, i=1..n\f$ |
---|
1102 | Array<vec> samples; |
---|
1103 | public: |
---|
1104 | //! \name Constructors |
---|
1105 | //!@{ |
---|
1106 | eEmp ( ) :epdf ( ),w ( ),samples ( ) {}; |
---|
1107 | //! copy constructor |
---|
1108 | eEmp ( const eEmp &e ) : epdf ( e ), w ( e.w ), samples ( e.samples ) {}; |
---|
1109 | //!@} |
---|
1110 | |
---|
1111 | //! Set samples and weights |
---|
1112 | void set_statistics ( const vec &w0, const epdf* pdf0 ); |
---|
1113 | //! Set samples and weights |
---|
1114 | void set_statistics ( const epdf* pdf0 , int n ) {set_statistics ( ones ( n ) /n,pdf0 );}; |
---|
1115 | //! Set sample |
---|
1116 | void set_samples ( const epdf* pdf0 ); |
---|
1117 | //! Set sample |
---|
1118 | void set_parameters ( int n0, bool copy=true ) {n=n0; w.set_size ( n0,copy );samples.set_size ( n0,copy );}; |
---|
1119 | //! Potentially dangerous, use with care. |
---|
1120 | vec& _w() {return w;}; |
---|
1121 | //! Potentially dangerous, use with care. |
---|
1122 | const vec& _w() const {return w;}; |
---|
1123 | //! access function |
---|
1124 | Array<vec>& _samples() {return samples;}; |
---|
1125 | //! access function |
---|
1126 | const Array<vec>& _samples() const {return samples;}; |
---|
1127 | //! Function performs resampling, i.e. removal of low-weight samples and duplication of high-weight samples such that the new samples represent the same density. |
---|
1128 | ivec resample ( RESAMPLING_METHOD method=SYSTEMATIC ); |
---|
1129 | //! inherited operation : NOT implemneted |
---|
1130 | vec sample() const {it_error ( "Not implemented" );return 0;} |
---|
1131 | //! inherited operation : NOT implemneted |
---|
1132 | double evallog ( const vec &val ) const {it_error ( "Not implemented" );return 0.0;} |
---|
1133 | vec mean() const |
---|
1134 | { |
---|
1135 | vec pom=zeros ( dim ); |
---|
1136 | for ( int i=0;i<n;i++ ) {pom+=samples ( i ) *w ( i );} |
---|
1137 | return pom; |
---|
1138 | } |
---|
1139 | vec variance() const |
---|
1140 | { |
---|
1141 | vec pom=zeros ( dim ); |
---|
1142 | for ( int i=0;i<n;i++ ) {pom+=pow ( samples ( i ),2 ) *w ( i );} |
---|
1143 | return pom-pow ( mean(),2 ); |
---|
1144 | } |
---|
1145 | //! For this class, qbounds are minimum and maximum value of the population! |
---|
1146 | void qbounds ( vec &lb, vec &ub, double perc=0.95 ) const |
---|
1147 | { |
---|
1148 | // lb in inf so than it will be pushed below; |
---|
1149 | lb.set_size ( dim ); |
---|
1150 | ub.set_size ( dim ); |
---|
1151 | lb = std::numeric_limits<double>::infinity(); |
---|
1152 | ub = -std::numeric_limits<double>::infinity(); |
---|
1153 | int j; |
---|
1154 | for ( int i=0;i<n;i++ ) |
---|
1155 | { |
---|
1156 | for ( j=0;j<dim; j++ ) |
---|
1157 | { |
---|
1158 | if ( samples ( i ) ( j ) <lb ( j ) ) {lb ( j ) =samples ( i ) ( j );} |
---|
1159 | if ( samples ( i ) ( j ) >ub ( j ) ) {ub ( j ) =samples ( i ) ( j );} |
---|
1160 | } |
---|
1161 | } |
---|
1162 | } |
---|
1163 | }; |
---|
1164 | |
---|
1165 | |
---|
1166 | //////////////////////// |
---|
1167 | |
---|
1168 | template<class sq_T> |
---|
1169 | void enorm<sq_T>::set_parameters ( const vec &mu0, const sq_T &R0 ) |
---|
1170 | { |
---|
1171 | //Fixme test dimensions of mu0 and R0; |
---|
1172 | mu = mu0; |
---|
1173 | R = R0; |
---|
1174 | validate(); |
---|
1175 | }; |
---|
1176 | |
---|
1177 | template<class sq_T> |
---|
1178 | void enorm<sq_T>::from_setting(const Setting &set){ |
---|
1179 | epdf::from_setting(set); //reads rv |
---|
1180 | |
---|
1181 | UI::get(mu,set,"mu"); |
---|
1182 | mat Rtmp;// necessary for conversion |
---|
1183 | UI::get(Rtmp,set,"R"); |
---|
1184 | R=Rtmp; // conversion |
---|
1185 | validate(); |
---|
1186 | } |
---|
1187 | |
---|
1188 | template<class sq_T> |
---|
1189 | void enorm<sq_T>::dupdate ( mat &v, double nu ) |
---|
1190 | { |
---|
1191 | // |
---|
1192 | }; |
---|
1193 | |
---|
1194 | // template<class sq_T> |
---|
1195 | // void enorm<sq_T>::tupdate ( double phi, mat &vbar, double nubar ) { |
---|
1196 | // // |
---|
1197 | // }; |
---|
1198 | |
---|
1199 | template<class sq_T> |
---|
1200 | vec enorm<sq_T>::sample() const |
---|
1201 | { |
---|
1202 | vec x ( dim ); |
---|
1203 | #pragma omp critical |
---|
1204 | NorRNG.sample_vector ( dim,x ); |
---|
1205 | vec smp = R.sqrt_mult ( x ); |
---|
1206 | |
---|
1207 | smp += mu; |
---|
1208 | return smp; |
---|
1209 | }; |
---|
1210 | |
---|
1211 | // template<class sq_T> |
---|
1212 | // double enorm<sq_T>::eval ( const vec &val ) const { |
---|
1213 | // double pdfl,e; |
---|
1214 | // pdfl = evallog ( val ); |
---|
1215 | // e = exp ( pdfl ); |
---|
1216 | // return e; |
---|
1217 | // }; |
---|
1218 | |
---|
1219 | template<class sq_T> |
---|
1220 | double enorm<sq_T>::evallog_nn ( const vec &val ) const |
---|
1221 | { |
---|
1222 | // 1.83787706640935 = log(2pi) |
---|
1223 | double tmp=-0.5* ( R.invqform ( mu-val ) );// - lognc(); |
---|
1224 | return tmp; |
---|
1225 | }; |
---|
1226 | |
---|
1227 | template<class sq_T> |
---|
1228 | inline double enorm<sq_T>::lognc () const |
---|
1229 | { |
---|
1230 | // 1.83787706640935 = log(2pi) |
---|
1231 | double tmp=0.5* ( R.cols() * 1.83787706640935 +R.logdet() ); |
---|
1232 | return tmp; |
---|
1233 | }; |
---|
1234 | |
---|
1235 | template<class sq_T> |
---|
1236 | void mlnorm<sq_T>::set_parameters ( const mat &A0, const vec &mu0, const sq_T &R0 ) |
---|
1237 | { |
---|
1238 | it_assert_debug ( A0.rows() ==mu0.length(),"" ); |
---|
1239 | it_assert_debug ( A0.rows() ==R0.rows(),"" ); |
---|
1240 | |
---|
1241 | epdf.set_parameters ( zeros ( A0.rows() ),R0 ); |
---|
1242 | A = A0; |
---|
1243 | mu_const = mu0; |
---|
1244 | dimc=A0.cols(); |
---|
1245 | } |
---|
1246 | |
---|
1247 | // template<class sq_T> |
---|
1248 | // vec mlnorm<sq_T>::samplecond (const vec &cond, double &lik ) { |
---|
1249 | // this->condition ( cond ); |
---|
1250 | // vec smp = epdf.sample(); |
---|
1251 | // lik = epdf.eval ( smp ); |
---|
1252 | // return smp; |
---|
1253 | // } |
---|
1254 | |
---|
1255 | // template<class sq_T> |
---|
1256 | // mat mlnorm<sq_T>::samplecond (const vec &cond, vec &lik, int n ) { |
---|
1257 | // int i; |
---|
1258 | // int dim = rv.count(); |
---|
1259 | // mat Smp ( dim,n ); |
---|
1260 | // vec smp ( dim ); |
---|
1261 | // this->condition ( cond ); |
---|
1262 | // |
---|
1263 | // for ( i=0; i<n; i++ ) { |
---|
1264 | // smp = epdf.sample(); |
---|
1265 | // lik ( i ) = epdf.eval ( smp ); |
---|
1266 | // Smp.set_col ( i ,smp ); |
---|
1267 | // } |
---|
1268 | // |
---|
1269 | // return Smp; |
---|
1270 | // } |
---|
1271 | |
---|
1272 | template<class sq_T> |
---|
1273 | void mlnorm<sq_T>::condition ( const vec &cond ) |
---|
1274 | { |
---|
1275 | _mu = A*cond + mu_const; |
---|
1276 | //R is already assigned; |
---|
1277 | } |
---|
1278 | |
---|
1279 | template<class sq_T> |
---|
1280 | enorm<sq_T>* enorm<sq_T>::marginal ( const RV &rvn ) const |
---|
1281 | { |
---|
1282 | it_assert_debug ( isnamed(), "rv description is not assigned" ); |
---|
1283 | ivec irvn = rvn.dataind ( rv ); |
---|
1284 | |
---|
1285 | sq_T Rn ( R,irvn ); //select rows and columns of R |
---|
1286 | |
---|
1287 | enorm<sq_T>* tmp = new enorm<sq_T>; |
---|
1288 | tmp->set_rv ( rvn ); |
---|
1289 | tmp->set_parameters ( mu ( irvn ), Rn ); |
---|
1290 | return tmp; |
---|
1291 | } |
---|
1292 | |
---|
1293 | template<class sq_T> |
---|
1294 | mpdf* enorm<sq_T>::condition ( const RV &rvn ) const |
---|
1295 | { |
---|
1296 | |
---|
1297 | it_assert_debug ( isnamed(),"rvs are not assigned" ); |
---|
1298 | |
---|
1299 | RV rvc = rv.subt ( rvn ); |
---|
1300 | it_assert_debug ( ( rvc._dsize() +rvn._dsize() ==rv._dsize() ),"wrong rvn" ); |
---|
1301 | //Permutation vector of the new R |
---|
1302 | ivec irvn = rvn.dataind ( rv ); |
---|
1303 | ivec irvc = rvc.dataind ( rv ); |
---|
1304 | ivec perm=concat ( irvn , irvc ); |
---|
1305 | sq_T Rn ( R,perm ); |
---|
1306 | |
---|
1307 | //fixme - could this be done in general for all sq_T? |
---|
1308 | mat S=Rn.to_mat(); |
---|
1309 | //fixme |
---|
1310 | int n=rvn._dsize()-1; |
---|
1311 | int end=R.rows()-1; |
---|
1312 | mat S11 = S.get ( 0,n, 0, n ); |
---|
1313 | mat S12 = S.get ( 0, n , rvn._dsize(), end ); |
---|
1314 | mat S22 = S.get ( rvn._dsize(), end, rvn._dsize(), end ); |
---|
1315 | |
---|
1316 | vec mu1 = mu ( irvn ); |
---|
1317 | vec mu2 = mu ( irvc ); |
---|
1318 | mat A=S12*inv ( S22 ); |
---|
1319 | sq_T R_n ( S11 - A *S12.T() ); |
---|
1320 | |
---|
1321 | mlnorm<sq_T>* tmp=new mlnorm<sq_T> ( ); |
---|
1322 | tmp->set_rv ( rvn ); tmp->set_rvc ( rvc ); |
---|
1323 | tmp->set_parameters ( A,mu1-A*mu2,R_n ); |
---|
1324 | return tmp; |
---|
1325 | } |
---|
1326 | |
---|
1327 | /////////// |
---|
1328 | |
---|
1329 | template<class sq_T> |
---|
1330 | std::ostream &operator<< ( std::ostream &os, mlnorm<sq_T> &ml ) |
---|
1331 | { |
---|
1332 | os << "A:"<< ml.A<<endl; |
---|
1333 | os << "mu:"<< ml.mu_const<<endl; |
---|
1334 | os << "R:" << ml.epdf._R().to_mat() <<endl; |
---|
1335 | return os; |
---|
1336 | }; |
---|
1337 | |
---|
1338 | } |
---|
1339 | #endif //EF_H |
---|