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<div class="title">Tomato.h</div> </div>
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<div class="contents">
<a href="_tomato_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_Tomato_H</span></div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="preprocessor"></span><span class="preprocessor">#define Tomato_Tomato_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">#include "tomatolib_export.h"</span></div>
<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="preprocessor">#ifdef USE_ITK</span></div>
<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="preprocessor">#include "<a class="code" href="_tomato_options_8h.html">TomatoOptions.h</a>"</span></div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="preprocessor">#include "<a class="code" href="_tomato_colormap_8h.html">TomatoColormap.h</a>"</span></div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> </div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="preprocessor">#include "itkReadFileListFilter.h"</span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> <span class="preprocessor">#include "itkSortInvTimesImageFilter.h"</span></div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="preprocessor">#include "<a class="code" href="itk_calculator_t1_image_filter_8h.html">itkCalculatorT1ImageFilter.h</a>"</span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="preprocessor">#include "itkColorbar2DImageFilter.h"</span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> <span class="preprocessor">#include "itkNShmolliSamplesUsedTo123ImageFilter.h"</span></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="preprocessor">#include "itkTimeProbe.h"</span></div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span> </div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> <span class="keyword">namespace </span>Ox {</div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span> </div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span>  <span class="keyword">template</span>< <span class="keyword">typename</span> MeasureType ></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span>  <span class="keyword">class </span>Tomato {</div>
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> </div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span>  <span class="keyword">public</span>:</div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span>  <span class="comment">// typedefs primitive data types</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span>  <span class="keyword">typedef</span> MeasureType InputPixelType;</div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span>  <span class="keyword">typedef</span> int16_t OutputPixelType; <span class="comment">// int does not work with some dicom viewers, be sure to use short (int16)</span></div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> </div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span>  <span class="comment">// typedefs image data types</span></div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span>  <span class="keyword">typedef</span> itk::Image<InputPixelType, 3> ImageType3D;</div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span>  <span class="keyword">typedef</span> itk::Image<InputPixelType, 2> ImageType2D;</div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span>  <span class="keyword">typedef</span> itk::Image<OutputPixelType, 2> OutputImageType;</div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span>  <span class="keyword">typedef</span> itk::ReadFileListFilter<ImageType3D> ReadFileListFilterType;</div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span>  <span class="keyword">typedef</span> itk::SortInvTimesImageFilter<ImageType3D, ImageType3D> SortInvTimesImageFilterType;</div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span>  <span class="keyword">typedef</span> itk::CalculatorT1ImageFilter<ImageType3D, ImageType2D> CalculatorT1ImageFilterType;</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span>  <span class="keyword">typedef</span> itk::MetaDataDictionary DictionaryType;</div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> </div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span>  <span class="comment">// member variables</span></div>
<div class="line"><a name="l00049"></a><span class="lineno"> 49</span>  TomatoOptions<InputPixelType> *_opts;</div>
<div class="line"><a name="l00050"></a><span class="lineno"> 50</span>  InputPixelType *_invTimes;</div>
<div class="line"><a name="l00051"></a><span class="lineno"> 51</span>  InputPixelType *_echoTimes;</div>
<div class="line"><a name="l00052"></a><span class="lineno"> 52</span>  <span class="keywordtype">int</span> _nSamples;</div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span>  <span class="keyword">typename</span> ImageType3D::Pointer _imageMag;</div>
<div class="line"><a name="l00054"></a><span class="lineno"> 54</span>  <span class="keyword">typename</span> ImageType3D::Pointer _imagePha;</div>
<div class="line"><a name="l00055"></a><span class="lineno"> 55</span> </div>
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  <span class="keyword">typename</span> CalculatorT1ImageFilterType::Pointer _imageCalculatorItk;</div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  <span class="comment">//SortInvTimesImageFilterType::Pointer _sorterMag;</span></div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  <span class="comment">//SortInvTimesImageFilterType::Pointer _sorterPha;</span></div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span> </div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span>  DictionaryType _dictionaryInput;</div>
<div class="line"><a name="l00061"></a><span class="lineno"> 61</span> </div>
<div class="line"><a name="l00066"></a><span class="lineno"> 66</span>  <span class="keywordtype">int</span> readAndSort();</div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span> </div>
<div class="line"><a name="l00072"></a><span class="lineno"> 72</span>  <span class="keywordtype">int</span> calculate();</div>
<div class="line"><a name="l00073"></a><span class="lineno"> 73</span> </div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span>  <span class="keywordtype">int</span> exportToDicom();</div>
<div class="line"><a name="l00079"></a><span class="lineno"> 79</span> </div>
<div class="line"><a name="l00084"></a><span class="lineno"> 84</span>  Tomato(std::string inputFileName);</div>
<div class="line"><a name="l00085"></a><span class="lineno"> 85</span> </div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  <span class="keyword">virtual</span> ~Tomato();</div>
<div class="line"><a name="l00091"></a><span class="lineno"> 91</span> </div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  <span class="keyword">private</span>:</div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  Tomato(){};</div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span> </div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  <span class="keywordtype">int</span> exportT1ToDicom();</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span> </div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  <span class="keywordtype">int</span> exportT2ToDicom();</div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span> </div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  };</div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span> </div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span> } <span class="comment">// namespace Ox</span></div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span> </div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span> <span class="preprocessor">#ifndef TOMATOLIB_COMPILED</span></div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span> <span class="preprocessor"></span><span class="preprocessor">#include "Tomato.hxx"</span></div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span> <span class="preprocessor">#include "<a class="code" href="_tomato__export_t1_8hxx.html">Tomato_exportT1.hxx</a>"</span></div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span> <span class="preprocessor">#include "<a class="code" href="_tomato__export_t2_8hxx.html">Tomato_exportT2.hxx</a>"</span></div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span> <span class="preprocessor">#endif // TOMATOLIB_COMPILED</span></div>
<div class="line"><a name="l00120"></a><span class="lineno"> 120</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span> <span class="preprocessor">#endif // USE_ITK</span></div>
<div class="line"><a name="l00122"></a><span class="lineno"> 122</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> <span class="preprocessor">#endif // Tomato_Tomato_H</span></div>
<div class="ttc" id="itk_calculator_t1_image_filter_8h_html"><div class="ttname"><a href="itk_calculator_t1_image_filter_8h.html">itkCalculatorT1ImageFilter.h</a></div></div>
<div class="ttc" id="_tomato_colormap_8h_html"><div class="ttname"><a href="_tomato_colormap_8h.html">TomatoColormap.h</a></div></div>
<div class="ttc" id="_tomato__export_t1_8hxx_html"><div class="ttname"><a href="_tomato__export_t1_8hxx.html">Tomato_exportT1.hxx</a></div></div>
<div class="ttc" id="_tomato_options_8h_html"><div class="ttname"><a href="_tomato_options_8h.html">TomatoOptions.h</a></div></div>
<div class="ttc" id="_tomato__export_t2_8hxx_html"><div class="ttname"><a href="_tomato__export_t2_8hxx.html">Tomato_exportT2.hxx</a></div></div>
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