swh:1:snp:e6d42e6731ce66e3c09de07ac49964c03139e990
Tip revision: 26b818c8be2be41dd673d938b403c5c7562635de authored by Travis CI on 28 November 2019, 13:55:12 UTC
Deploy code docs to GitHub Pages Travis build: 305
Deploy code docs to GitHub Pages Travis build: 305
Tip revision: 26b818c
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<div class="title">OxFitterAmoebaNr2.h</div> </div>
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<a href="_ox_fitter_amoeba_nr2_8h.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno"> 1</span> </div>
<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="preprocessor">#ifndef Tomato_OXFITTERAMOEBANr2_H</span></div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="preprocessor"></span><span class="preprocessor">#define Tomato_OXFITTERAMOEBANr2_H</span></div>
<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> <span class="preprocessor">#include "CmakeConfigForTomato.h"</span></div>
<div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <span class="preprocessor">#ifdef USE_NR2</span></div>
<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="preprocessor">#include "<a class="code" href="_ox_fitter_8h.html">OxFitter.h</a>"</span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> </div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="keyword">extern</span> <span class="stringliteral">"C"</span>{</div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> <span class="preprocessor">#include "nr_modified.h"</span></div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="preprocessor">#include "nrutil.h"</span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> };</div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> </div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> </div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> <span class="keyword">namespace </span>Ox {</div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> </div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span>  <span class="keyword">namespace </span>Ugly {</div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span>  <span class="comment">/*****************/</span></div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span>  <span class="comment">/*****************/</span></div>
<div class="line"><a name="l00027"></a><span class="lineno"> 27</span>  <span class="comment">// if you want to increase it beyond, you have to add more lines</span></div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span>  <span class="keyword">const</span> <span class="keywordtype">int</span> NR_MAX_THREADS = 8;</div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> </div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span>  <span class="comment">// Numerical Recipes Amoeba needs a pointer to a function to be passed with just one argument - minimization</span></div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span>  <span class="comment">// parameters. We need some more</span></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span>  <span class="comment">// solution taken from https://isocpp.org/wiki/faq/pointers-to-members</span></div>
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span>  <span class="comment">// it needs declaring globals, so I am using an arrays to have separate global for each thread</span></div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> </div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span>  <span class="comment">// static because https://stackoverflow.com/questions/14425262/why-include-guards-do-not-prevent-multiple-function-definitions</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> </div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span>  <span class="comment">// global array of pointers to OxFunctorT1adapterNr3</span></div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span>  <span class="keyword">static</span> Model<float> *globalFunctonsT1Nr2Array[NR_MAX_THREADS]; <span class="comment">// could possibly go up to ITK_MAX_THREADS</span></div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> </div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span>  <span class="comment">// global wrapper functions. Exactly as in https://isocpp.org/wiki/faq/pointers-to-members</span></div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper0(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[0]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper1(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[1]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper2(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[2]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper3(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[3]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper4(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[4]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper5(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[5]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper6(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[6]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span>  <span class="keyword">static</span> <span class="keywordtype">float</span> f_wrapper7(<span class="keywordtype">float</span> *params) { <span class="keywordflow">return</span> globalFunctonsT1Nr2Array[7]->calcCostValue(params+1); }</div>
<div class="line"><a name="l00049"></a><span class="lineno"> 49</span> </div>
<div class="line"><a name="l00050"></a><span class="lineno"> 50</span>  <span class="comment">// for convenience I put the wrapper functions into an array</span></div>
<div class="line"><a name="l00051"></a><span class="lineno"> 51</span>  <span class="keyword">static</span> float (*f_wrapperArray[NR_MAX_THREADS])(<span class="keywordtype">float</span> *params) = {</div>
<div class="line"><a name="l00052"></a><span class="lineno"> 52</span>  f_wrapper0,</div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span>  f_wrapper1,</div>
<div class="line"><a name="l00054"></a><span class="lineno"> 54</span>  f_wrapper2,</div>
<div class="line"><a name="l00055"></a><span class="lineno"> 55</span>  f_wrapper3,</div>
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  f_wrapper4,</div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  f_wrapper5,</div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  f_wrapper6,</div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span>  f_wrapper7,</div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span>  };</div>
<div class="line"><a name="l00061"></a><span class="lineno"> 61</span>  }</div>
<div class="line"><a name="l00062"></a><span class="lineno"> 62</span> </div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span>  <span class="keyword">template</span><<span class="keyword">typename</span> MeasureType></div>
<div class="line"><a name="l00072"></a><span class="lineno"> 72</span>  <span class="keyword">class </span>FitterAmoebaNr2 : <span class="keyword">public</span> Fitter<MeasureType> {</div>
<div class="line"><a name="l00073"></a><span class="lineno"> 73</span> </div>
<div class="line"><a name="l00074"></a><span class="lineno"> 74</span>  <span class="keyword">public</span>:</div>
<div class="line"><a name="l00075"></a><span class="lineno"> 75</span> </div>
<div class="line"><a name="l00080"></a><span class="lineno"> 80</span>  <span class="keyword">virtual</span> Fitter<MeasureType> *newByCloning() { <span class="keywordflow">return</span> <span class="keyword">new</span> FitterAmoebaNr2<MeasureType>(*this); }</div>
<div class="line"><a name="l00081"></a><span class="lineno"> 81</span> </div>
<div class="line"><a name="l00082"></a><span class="lineno"> 82</span> </div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  <span class="keywordtype">int</span> performFitting() {</div>
<div class="line"><a name="l00084"></a><span class="lineno"> 84</span> </div>
<div class="line"><a name="l00085"></a><span class="lineno"> 85</span>  <span class="comment">// from now on everything depends on the thread we are currently using</span></div>
<div class="line"><a name="l00086"></a><span class="lineno"> 86</span>  <span class="keywordtype">int</span> threadId = this->_ThreadId;</div>
<div class="line"><a name="l00087"></a><span class="lineno"> 87</span>  <span class="keywordflow">if</span> (threadId < 0 || threadId >= Ugly::NR_MAX_THREADS){</div>
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span>  <span class="keywordflow">throw</span> std::runtime_error(<span class="stringliteral">"Incorrect threadID"</span>);</div>
<div class="line"><a name="l00089"></a><span class="lineno"> 89</span>  }</div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span> </div>
<div class="line"><a name="l00091"></a><span class="lineno"> 91</span>  <span class="comment">// use global ugliness</span></div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  Ugly::globalFunctonsT1Nr2Array[threadId] = this->_Model;</div>
<div class="line"><a name="l00093"></a><span class="lineno"> 93</span>  float(*func)(<span class="keywordtype">float</span>*) = Ugly::f_wrapperArray[threadId];</div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span>  <span class="keywordtype">int</span> nDims = this->_Model->getNDims();</div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span> </div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  <span class="comment">// store start point</span></div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  <span class="keywordtype">float</span> *startPoint = <span class="keyword">new</span> <span class="keywordtype">float</span>[nDims];</div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span>  KWUtil::copyArrayToArray(nDims, startPoint, this->getParameters());</div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span> </div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span> </div>
<div class="line"><a name="l00101"></a><span class="lineno"> 101</span>  <span class="comment">// modified NR example code</span></div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  <span class="keywordtype">int</span> MP = nDims + 1;</div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  <span class="keywordtype">int</span> NP = nDims;</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  <span class="keywordtype">float</span> FTOL = this->getFTolerance();</div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span> </div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span>  <span class="keywordtype">int</span> i, nfunc, j, ndim = NP;</div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  <span class="keywordtype">float</span> *x, *y, **p;</div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span> </div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  <span class="comment">// alloc</span></div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  x = vector(1, NP);</div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  y = vector(1, MP);</div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  p = matrix(1, MP, 1, NP);</div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span> </div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span>  <span class="comment">// init the simples</span></div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span>  <span class="keywordflow">for</span> (i = 1; i <= MP; i++) {</div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  <span class="keywordflow">for</span> (j = 1; j <= NP; j++)</div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span>  <span class="keywordflow">if</span> (i != j+1)</div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span>  x[j] = p[i][j] = startPoint[j-1];</div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span>  <span class="keywordflow">else</span></div>
<div class="line"><a name="l00120"></a><span class="lineno"> 120</span>  x[j] = p[i][j] = startPoint[j-1] * 1.4;</div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span>  y[i] = func(x);</div>
<div class="line"><a name="l00122"></a><span class="lineno"> 122</span>  }</div>
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> </div>
<div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  <span class="comment">// printing</span></div>
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span>  <span class="keywordflow">if</span> (this->_Verbose) {</div>
<div class="line"><a name="l00126"></a><span class="lineno"> 126</span>  printf(<span class="stringliteral">"\n%3s %10s %12s %12s %14s\n\n"</span>,</div>
<div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  <span class="stringliteral">"i"</span>, <span class="stringliteral">"x[i]"</span>, <span class="stringliteral">"y[i]"</span>, <span class="stringliteral">"z[i]"</span>, <span class="stringliteral">"function"</span>);</div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span>  <span class="keywordflow">for</span> (i = 1; i <= MP; i++) {</div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  printf(<span class="stringliteral">"%3d "</span>, i);</div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  <span class="keywordflow">for</span> (j = 1; j <= NP; j++) printf(<span class="stringliteral">"%12.6f "</span>, p[i][j]);</div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  printf(<span class="stringliteral">"%12.6f\n"</span>, y[i]);</div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  }</div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  }</div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span> </div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span>  <span class="comment">// minimise</span></div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  amoeba(p, y, ndim, FTOL, func, &nfunc);</div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span> </div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span>  <span class="comment">// copy results</span></div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  this->copyToParameters(p[1]+1);</div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span> </div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span>  <span class="comment">// printing</span></div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  <span class="keywordflow">if</span> (this->_Verbose) {</div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span>  printf(<span class="stringliteral">"\nNumber of function evaluations: %3d\n"</span>, nfunc);</div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  printf(<span class="stringliteral">"Vertices of final 3-d simplex and\n"</span>);</div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  printf(<span class="stringliteral">"function values at the vertices:\n\n"</span>);</div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  printf(<span class="stringliteral">"%3s %10s %12s %12s %14s\n\n"</span>,</div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  <span class="stringliteral">"i"</span>, <span class="stringliteral">"x[i]"</span>, <span class="stringliteral">"y[i]"</span>, <span class="stringliteral">"z[i]"</span>, <span class="stringliteral">"function"</span>);</div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span>  <span class="keywordflow">for</span> (i = 1; i <= MP; i++) {</div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span>  printf(<span class="stringliteral">"%3d "</span>, i);</div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span>  <span class="keywordflow">for</span> (j = 1; j <= NP; j++) printf(<span class="stringliteral">"%12.6f "</span>, p[i][j]);</div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span>  printf(<span class="stringliteral">"%12.6f\n"</span>, y[i]);</div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span>  }</div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  }</div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span> </div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  <span class="comment">// dealloc</span></div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  free_matrix(p, 1, MP, 1, NP);</div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  free_vector(y, 1, MP);</div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  free_vector(x, 1, NP);</div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  <span class="keyword">delete</span> [] startPoint;</div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span> </div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span>  <span class="keywordflow">return</span> 0; <span class="comment">// EXIT_SUCCESS</span></div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  }</div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  };</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span> </div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span> } <span class="comment">// namespace Ox</span></div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span> </div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span> <span class="preprocessor">#endif //Tomato_OXFITTERAMOEBANr2_H</span></div>
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span> <span class="preprocessor">#endif // USE_NR2</span></div>
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