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">Tomato_exportT2.hxx</div> </div>
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<a href="_tomato__export_t2_8hxx.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_EXPORTT2_HXX</span></div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="preprocessor"></span><span class="preprocessor">#define TOMATO_TOMATO_EXPORTT2_HXX</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_ITK</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 "gdcmUIDGenerator.h"</span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="preprocessor">#include "itkGDCMImageIO.h"</span></div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="preprocessor">#include "itkGDCMSeriesFileNames.h"</span></div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> <span class="preprocessor">#include "itkMultiplyImageFilter.h"</span></div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="preprocessor">#include "itkImageFileWriter.h"</span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> <span class="preprocessor">#include "itkFileTools.h"</span></div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="preprocessor">#include "itkAdaptImageFilter.h"</span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="preprocessor">#include "itkThresholdImageFilter.h"</span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> </div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> <span class="keyword">namespace </span>Ox {</div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span> </div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span>  <span class="keyword">template</span>< <span class="keyword">typename</span> MeasureType ></div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span>  <span class="keywordtype">int</span></div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span>  Tomato<MeasureType></div>
<div class="line"><a name="l00027"></a><span class="lineno"> 27</span>  ::exportT2ToDicom(){</div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span> </div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span>  <span class="keywordflow">if</span> (_opts->dir_output_map.empty()){</div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span>  printf(<span class="stringliteral">"No DICOM export, dir_output_map not given.\n"</span>);</div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span>  <span class="keywordflow">return</span> EXIT_FAILURE;</div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span>  }</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="comment">// some typedefs</span></div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span>  <span class="keyword">typedef</span> itk::Colorbar2DImageFilter< ImageType2D > OxColorbarImageFilterType;</div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span>  <span class="keyword">typedef</span> itk::AdaptImageFilter < ImageType2D, OutputImageType, CastPixelAccessor< InputPixelType, OutputPixelType > > ImageAdaptorType;</div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span>  <span class="keyword">typedef</span> itk::ImageFileWriter<OutputImageType> WriterType;</div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span>  <span class="keyword">typedef</span> itk::MultiplyImageFilter< ImageType2D, ImageType2D, ImageType2D > MultiplyImageFilterType;</div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span>  <span class="keyword">typedef</span> itk::ThresholdImageFilter<ImageType2D> ThresholdImageFilterType;</div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> </div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> </div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span>  <span class="comment">// OxColorbarImageFilter</span></div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span>  <span class="keyword">typename</span> OxColorbarImageFilterType::Pointer OxColorbarFilter = OxColorbarImageFilterType::New();</div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span>  OxColorbarFilter->SetInput(_imageCalculatorItk->GetT2Image());</div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span>  OxColorbarFilter->SetAddColorbar(_opts->use_colorbar);</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> </div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span>  <span class="comment">// T2 map with color</span></div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span>  DictionaryType dictionaryOutput_T2(_dictionaryInput);</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">// UIDs</span></div>
<div class="line"><a name="l00051"></a><span class="lineno"> 51</span>  gdcm::UIDGenerator sopuid;</div>
<div class="line"><a name="l00052"></a><span class="lineno"> 52</span>  std::string sopInstanceUID_T2 = sopuid.Generate();</div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span>  gdcm::UIDGenerator suid;</div>
<div class="line"><a name="l00054"></a><span class="lineno"> 54</span>  std::string seriesUID_T2 = suid.Generate();</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="comment">// seriesNumber</span></div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  std::string seriesNumber;</div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  itk::ExposeMetaData<std::string>(_dictionaryInput, <span class="stringliteral">"0020|0011"</span>, seriesNumber);</div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span>  <span class="keywordflow">if</span> (_opts->output_map_series_number == 0) {</div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span>  _opts->output_map_series_number = KWUtil::StringToNumber<int>(seriesNumber) + 10002;</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>  std::string newSeriesNumber_T2 = KWUtil::NumberToString(_opts->output_map_series_number);</div>
<div class="line"><a name="l00063"></a><span class="lineno"> 63</span> </div>
<div class="line"><a name="l00064"></a><span class="lineno"> 64</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string(<span class="stringliteral">"0008|0018"</span>), sopInstanceUID_T2);</div>
<div class="line"><a name="l00065"></a><span class="lineno"> 65</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string(<span class="stringliteral">"0002|0003"</span>), sopInstanceUID_T2);</div>
<div class="line"><a name="l00066"></a><span class="lineno"> 66</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string(<span class="stringliteral">"0020|000e"</span>), seriesUID_T2);</div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span> </div>
<div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string(<span class="stringliteral">"0020|0011"</span>), newSeriesNumber_T2); <span class="comment">// series number</span></div>
<div class="line"><a name="l00069"></a><span class="lineno"> 69</span> <span class="comment">// itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string("0028|1052"), "0"); // rescale intercept</span></div>
<div class="line"><a name="l00070"></a><span class="lineno"> 70</span> <span class="comment">// itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string("0028|1053"), "10"); // rescale slope. Matlab is interpreting it the wrong way</span></div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span> </div>
<div class="line"><a name="l00072"></a><span class="lineno"> 72</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string(<span class="stringliteral">"0020|4000"</span>), <span class="stringliteral">"T2*10 map"</span>); <span class="comment">// series number</span></div>
<div class="line"><a name="l00073"></a><span class="lineno"> 73</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2, std::string(<span class="stringliteral">"0020|0013"</span>), std::string(<span class="stringliteral">"1"</span>)); <span class="comment">// instance number</span></div>
<div class="line"><a name="l00074"></a><span class="lineno"> 74</span> </div>
<div class="line"><a name="l00075"></a><span class="lineno"> 75</span>  <span class="comment">// R2 map</span></div>
<div class="line"><a name="l00076"></a><span class="lineno"> 76</span>  DictionaryType dictionaryOutput_R2(_dictionaryInput);</div>
<div class="line"><a name="l00077"></a><span class="lineno"> 77</span> </div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span>  std::string sopInstanceUID_R2 = sopuid.Generate();</div>
<div class="line"><a name="l00079"></a><span class="lineno"> 79</span>  std::string seriesUID_R2 = suid.Generate();</div>
<div class="line"><a name="l00080"></a><span class="lineno"> 80</span> </div>
<div class="line"><a name="l00081"></a><span class="lineno"> 81</span>  itk::ExposeMetaData<std::string>(_dictionaryInput, <span class="stringliteral">"0020|0011"</span>, seriesNumber);</div>
<div class="line"><a name="l00082"></a><span class="lineno"> 82</span>  <span class="keywordflow">if</span> (_opts->output_fitparams_series_number == 0) {</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  _opts->output_fitparams_series_number = KWUtil::StringToNumber<int>(seriesNumber) + 10003;</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>  std::string newSeriesNumber_R2 = KWUtil::NumberToString(_opts->output_fitparams_series_number);</div>
<div class="line"><a name="l00086"></a><span class="lineno"> 86</span> </div>
<div class="line"><a name="l00087"></a><span class="lineno"> 87</span> </div>
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0008|0018"</span>), sopInstanceUID_R2);</div>
<div class="line"><a name="l00089"></a><span class="lineno"> 89</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0002|0003"</span>), sopInstanceUID_R2);</div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0020|000e"</span>), seriesUID_R2);</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>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0020|0011"</span>), newSeriesNumber_R2); <span class="comment">// series number</span></div>
<div class="line"><a name="l00093"></a><span class="lineno"> 93</span> </div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0020|4000"</span>), std::string(<span class="stringliteral">"Rsquare*4000 Map"</span>)); <span class="comment">// series number</span></div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0020|0013"</span>), std::string(<span class="stringliteral">"3"</span>)); <span class="comment">// instance number</span></div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0028|0106"</span>), std::string(<span class="stringliteral">"0"</span>)); <span class="comment">// smallest pixel</span></div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0028|0107"</span>), std::string(<span class="stringliteral">"4096"</span>)); <span class="comment">// largest pixel</span></div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0028|1050"</span>), std::string(<span class="stringliteral">"3900"</span>)); <span class="comment">// window center</span></div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_R2, std::string(<span class="stringliteral">"0028|1051"</span>), std::string(<span class="stringliteral">"200"</span>)); <span class="comment">// window width</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">// A map</span></div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  DictionaryType dictionaryOutput_A(_dictionaryInput);</div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span> </div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  std::string sopInstanceUID_A = sopuid.Generate();</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>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0008|0018"</span>), sopInstanceUID_A);</div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0002|0003"</span>), sopInstanceUID_A);</div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0020|000e"</span>), seriesUID_R2);</div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span> </div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0020|0011"</span>), newSeriesNumber_R2); <span class="comment">// series number</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>  <span class="comment">// itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string("0020|4000"), std::string("Signal(TI)=[___AMap___]-B*exp(-TI/T2star)"));</span></div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0020|4000"</span>), std::string(<span class="stringliteral">"A"</span>));</div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0020|0013"</span>), std::string(<span class="stringliteral">"4"</span>)); <span class="comment">// instance number</span></div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0028|0106"</span>), std::string(<span class="stringliteral">"0"</span>)); <span class="comment">// smallest pixel</span></div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0028|0107"</span>), std::string(<span class="stringliteral">"4096"</span>)); <span class="comment">// largest pixel</span></div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0028|1050"</span>), std::string(<span class="stringliteral">"2000"</span>)); <span class="comment">// window center</span></div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_A, std::string(<span class="stringliteral">"0028|1051"</span>), std::string(<span class="stringliteral">"4000"</span>)); <span class="comment">// window width</span></div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span> </div>
<div class="line"><a name="l00120"></a><span class="lineno"> 120</span>  <span class="comment">// B map</span></div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span>  DictionaryType dictionaryOutput_B(_dictionaryInput);</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>  std::string sopInstanceUID_B = sopuid.Generate();</div>
<div class="line"><a name="l00124"></a><span class="lineno"> 124</span> </div>
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0008|0018"</span>), sopInstanceUID_B);</div>
<div class="line"><a name="l00126"></a><span class="lineno"> 126</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0002|0003"</span>), sopInstanceUID_B);</div>
<div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0020|000e"</span>), seriesUID_R2);</div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span> </div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0020|0011"</span>), newSeriesNumber_R2); <span class="comment">// series number</span></div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span> </div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  <span class="comment">// itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string("0020|4000"), std::string("Signal(TI)=A-[___BMap___]*exp(-TI/T2star)"));</span></div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0020|4000"</span>), std::string(<span class="stringliteral">"B"</span>));</div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0020|0013"</span>), std::string(<span class="stringliteral">"5"</span>)); <span class="comment">// instance number</span></div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0028|0106"</span>), std::string(<span class="stringliteral">"0"</span>)); <span class="comment">// smallest pixel</span></div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0028|0107"</span>), std::string(<span class="stringliteral">"4096"</span>)); <span class="comment">// largest pixel</span></div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0028|1050"</span>), std::string(<span class="stringliteral">"2000"</span>)); <span class="comment">// window center</span></div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_B, std::string(<span class="stringliteral">"0028|1051"</span>), std::string(<span class="stringliteral">"4000"</span>)); <span class="comment">// window width</span></div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span> </div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <span class="comment">// T2star map</span></div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  DictionaryType dictionaryOutput_T2star(_dictionaryInput);</div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span> </div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  std::string sopInstanceUID_T2star = sopuid.Generate();</div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span> </div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0008|0018"</span>), sopInstanceUID_T2star);</div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0002|0003"</span>), sopInstanceUID_T2star);</div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0020|000e"</span>), seriesUID_R2);</div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span> </div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0020|0011"</span>), newSeriesNumber_R2); <span class="comment">// series number</span></div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span> </div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span>  <span class="comment">// itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string("0020|4000"), std::string("Signal(TI)=A-B*exp(-TI/[___T2starMap___])")); // series number</span></div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0020|0013"</span>), std::string(<span class="stringliteral">"6"</span>)); <span class="comment">// instance number</span></div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0028|0106"</span>), std::string(<span class="stringliteral">"0"</span>)); <span class="comment">// smallest pixel</span></div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0028|0107"</span>), std::string(<span class="stringliteral">"4096"</span>)); <span class="comment">// largest pixel</span></div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0028|1050"</span>), std::string(<span class="stringliteral">"2000"</span>)); <span class="comment">// window center</span></div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_T2star, std::string(<span class="stringliteral">"0028|1051"</span>), std::string(<span class="stringliteral">"4000"</span>)); <span class="comment">// window width</span></div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span> </div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  <span class="comment">// _RelSNRFinal map</span></div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  DictionaryType dictionaryOutput_RelSNRFinal(_dictionaryInput);</div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span> </div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  std::string sopInstanceUID_RelSNRFinal = sopuid.Generate();</div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span> </div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0008|0018"</span>), sopInstanceUID_RelSNRFinal);</div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0002|0003"</span>), sopInstanceUID_RelSNRFinal);</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0020|000e"</span>), seriesUID_R2);</div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span> </div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0020|0011"</span>), newSeriesNumber_R2); <span class="comment">// series number</span></div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span> </div>
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0020|4000"</span>), std::string(<span class="stringliteral">"_RelSNRFinal"</span>)); <span class="comment">// series number</span></div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0020|0013"</span>), std::string(<span class="stringliteral">"9"</span>)); <span class="comment">// instance number</span></div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0028|0106"</span>), std::string(<span class="stringliteral">"0"</span>)); <span class="comment">// smallest pixel</span></div>
<div class="line"><a name="l00171"></a><span class="lineno"> 171</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0028|0107"</span>), std::string(<span class="stringliteral">"4096"</span>)); <span class="comment">// largest pixel</span></div>
<div class="line"><a name="l00172"></a><span class="lineno"> 172</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0028|1050"</span>), std::string(<span class="stringliteral">"2000"</span>)); <span class="comment">// window center</span></div>
<div class="line"><a name="l00173"></a><span class="lineno"> 173</span>  itk::EncapsulateMetaData<std::string>( dictionaryOutput_RelSNRFinal, std::string(<span class="stringliteral">"0028|1051"</span>), std::string(<span class="stringliteral">"4000"</span>)); <span class="comment">// window width</span></div>
<div class="line"><a name="l00174"></a><span class="lineno"> 174</span> </div>
<div class="line"><a name="l00175"></a><span class="lineno"> 175</span>  <span class="comment">// get GDCMImageIO ready before export</span></div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span>  <span class="keyword">typedef</span> itk::GDCMImageIO ImageIOType;</div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span>  ImageIOType::Pointer gdcmImageIO = ImageIOType::New();</div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span>  gdcmImageIO->KeepOriginalUIDOn();</div>
<div class="line"><a name="l00179"></a><span class="lineno"> 179</span> </div>
<div class="line"><a name="l00180"></a><span class="lineno"> 180</span>  <span class="comment">// to cast</span></div>
<div class="line"><a name="l00181"></a><span class="lineno"> 181</span>  <span class="keyword">typename</span> ImageAdaptorType::Pointer adaptor = ImageAdaptorType::New();</div>
<div class="line"><a name="l00182"></a><span class="lineno"> 182</span> </div>
<div class="line"><a name="l00183"></a><span class="lineno"> 183</span>  <span class="comment">// get the writer ready before export</span></div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span>  <span class="keyword">typename</span> WriterType::Pointer writer = WriterType::New();</div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span>  writer->SetUseInputMetaDataDictionary(<span class="keyword">false</span>);</div>
<div class="line"><a name="l00186"></a><span class="lineno"> 186</span> </div>
<div class="line"><a name="l00187"></a><span class="lineno"> 187</span>  <span class="comment">// maybe this? http://www.cplusplus.com/reference/string/string/find_last_of/</span></div>
<div class="line"><a name="l00188"></a><span class="lineno"> 188</span>  <span class="keywordflow">if</span> (!_opts->dir_output_map.empty()) {</div>
<div class="line"><a name="l00189"></a><span class="lineno"> 189</span> </div>
<div class="line"><a name="l00190"></a><span class="lineno"> 190</span>  printf(<span class="stringliteral">"Saving to: %s "</span>, _opts->dir_output_map.c_str());</div>
<div class="line"><a name="l00191"></a><span class="lineno"> 191</span>  <span class="comment">//std::cout << "Saving to: " << _opts->dir_output_map << std::flush;</span></div>
<div class="line"><a name="l00192"></a><span class="lineno"> 192</span> </div>
<div class="line"><a name="l00193"></a><span class="lineno"> 193</span>  itk::FileTools::CreateDirectory(_opts->dir_output_map);</div>
<div class="line"><a name="l00194"></a><span class="lineno"> 194</span> </div>
<div class="line"><a name="l00195"></a><span class="lineno"> 195</span>  <span class="comment">// scaling T2 * 10</span></div>
<div class="line"><a name="l00196"></a><span class="lineno"> 196</span>  <span class="keyword">typename</span> MultiplyImageFilterType::Pointer multiplyT2Filter = MultiplyImageFilterType::New();</div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span>  multiplyT2Filter->SetInput(OxColorbarFilter->GetOutput() );</div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span>  multiplyT2Filter->SetConstant( 10. );</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span> </div>
<div class="line"><a name="l00200"></a><span class="lineno"> 200</span>  <span class="keyword">typename</span> ThresholdImageFilterType::Pointer thresholdFilter = ThresholdImageFilterType::New();</div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  thresholdFilter->SetInput(multiplyT2Filter->GetOutput());</div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span>  <span class="comment">// thresholdFilter->SetUpper(pow(2, 16) - 1);</span></div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  thresholdFilter->SetUpper(powl(2, 12) - 1);</div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span>  thresholdFilter->SetOutsideValue(thresholdFilter->GetUpper());</div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span> </div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span>  <span class="comment">// export T2 color</span></div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span>  gdcmImageIO->SetMetaDataDictionary(dictionaryOutput_T2);</div>
<div class="line"><a name="l00208"></a><span class="lineno"> 208</span> </div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  <span class="comment">// export to dicom</span></div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  adaptor->SetInput(thresholdFilter->GetOutput());</div>
<div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  writer->SetFileName(_opts->dir_output_map + KWUtil::PathSeparator() + newSeriesNumber_T2 + <span class="stringliteral">"_T2.dcm"</span>);</div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  writer->SetInput(adaptor->GetOutput());</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  writer->SetImageIO(gdcmImageIO);</div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span>  writer->Update();</div>
<div class="line"><a name="l00216"></a><span class="lineno"> 216</span>  } <span class="keywordflow">catch</span> (itk::ExceptionObject &e) {</div>
<div class="line"><a name="l00217"></a><span class="lineno"> 217</span>  std::cerr << <span class="stringliteral">"Exception in file writer "</span> << std::endl;</div>
<div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  std::cerr << e << std::endl;</div>
<div class="line"><a name="l00219"></a><span class="lineno"> 219</span>  }</div>
<div class="line"><a name="l00220"></a><span class="lineno"> 220</span> </div>
<div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  std::cout << <span class="stringliteral">" Saved!"</span> << std::endl;</div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  }</div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span> </div>
<div class="line"><a name="l00224"></a><span class="lineno"> 224</span>  <span class="keywordflow">if</span> (!_opts->dir_output_fitparams.empty()) {</div>
<div class="line"><a name="l00225"></a><span class="lineno"> 225</span> </div>
<div class="line"><a name="l00226"></a><span class="lineno"> 226</span>  printf(<span class="stringliteral">"Saving to: %s "</span>, _opts->dir_output_fitparams.c_str());</div>
<div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  <span class="comment">//std::cout << "Saving to: " << _opts->dir_output_fitparams << std::flush;</span></div>
<div class="line"><a name="l00228"></a><span class="lineno"> 228</span> </div>
<div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  <span class="comment">// scaling R2 * 4000</span></div>
<div class="line"><a name="l00230"></a><span class="lineno"> 230</span>  <span class="keyword">typename</span> MultiplyImageFilterType::Pointer multiplyR2Filter = MultiplyImageFilterType::New();</div>
<div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  multiplyR2Filter->SetInput(_imageCalculatorItk->GetR2Image() );</div>
<div class="line"><a name="l00232"></a><span class="lineno"> 232</span>  multiplyR2Filter->SetConstant(4000 );</div>
<div class="line"><a name="l00233"></a><span class="lineno"> 233</span> </div>
<div class="line"><a name="l00234"></a><span class="lineno"> 234</span>  OxColorbarFilter->SetInput(multiplyR2Filter->GetOutput());</div>
<div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  OxColorbarFilter->SetZerosInsteadOfColorbar(<span class="keyword">true</span>);</div>
<div class="line"><a name="l00236"></a><span class="lineno"> 236</span> </div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  <span class="comment">// mkdir</span></div>
<div class="line"><a name="l00238"></a><span class="lineno"> 238</span>  itk::FileTools::CreateDirectory(_opts->dir_output_fitparams);</div>
<div class="line"><a name="l00239"></a><span class="lineno"> 239</span> </div>
<div class="line"><a name="l00240"></a><span class="lineno"> 240</span>  <span class="comment">// export R2</span></div>
<div class="line"><a name="l00241"></a><span class="lineno"> 241</span>  gdcmImageIO->SetMetaDataDictionary(dictionaryOutput_R2);</div>
<div class="line"><a name="l00242"></a><span class="lineno"> 242</span> </div>
<div class="line"><a name="l00243"></a><span class="lineno"> 243</span>  <span class="comment">// export to dicom</span></div>
<div class="line"><a name="l00244"></a><span class="lineno"> 244</span>  adaptor->SetInput(OxColorbarFilter->GetOutput());</div>
<div class="line"><a name="l00245"></a><span class="lineno"> 245</span>  writer->SetFileName(_opts->dir_output_fitparams + KWUtil::PathSeparator() + newSeriesNumber_R2 + <span class="stringliteral">"_R2.dcm"</span>);</div>
<div class="line"><a name="l00246"></a><span class="lineno"> 246</span>  writer->SetInput(adaptor->GetOutput());</div>
<div class="line"><a name="l00247"></a><span class="lineno"> 247</span>  writer->SetImageIO(gdcmImageIO);</div>
<div class="line"><a name="l00248"></a><span class="lineno"> 248</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00249"></a><span class="lineno"> 249</span>  writer->Update();</div>
<div class="line"><a name="l00250"></a><span class="lineno"> 250</span>  } <span class="keywordflow">catch</span> (itk::ExceptionObject &e) {</div>
<div class="line"><a name="l00251"></a><span class="lineno"> 251</span>  std::cerr << <span class="stringliteral">"Exception in file writer "</span> << std::endl;</div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  std::cerr << e << std::endl;</div>
<div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  }</div>
<div class="line"><a name="l00254"></a><span class="lineno"> 254</span> </div>
<div class="line"><a name="l00255"></a><span class="lineno"> 255</span>  <span class="comment">// export A</span></div>
<div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  gdcmImageIO->SetMetaDataDictionary(dictionaryOutput_A);</div>
<div class="line"><a name="l00257"></a><span class="lineno"> 257</span> </div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  OxColorbarFilter->SetInput(_imageCalculatorItk->GetAImage());</div>
<div class="line"><a name="l00259"></a><span class="lineno"> 259</span>  OxColorbarFilter->SetZerosInsteadOfColorbar(<span class="keyword">true</span>);</div>
<div class="line"><a name="l00260"></a><span class="lineno"> 260</span> </div>
<div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  <span class="comment">// export to dicom</span></div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  adaptor->SetInput(OxColorbarFilter->GetOutput());</div>
<div class="line"><a name="l00263"></a><span class="lineno"> 263</span>  writer->SetFileName(_opts->dir_output_fitparams + KWUtil::PathSeparator() + newSeriesNumber_R2 + <span class="stringliteral">"_A.dcm"</span>);</div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  writer->SetInput(adaptor->GetOutput());</div>
<div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  writer->SetImageIO(gdcmImageIO);</div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  writer->Update();</div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  } <span class="keywordflow">catch</span> (itk::ExceptionObject &e) {</div>
<div class="line"><a name="l00269"></a><span class="lineno"> 269</span>  std::cerr << <span class="stringliteral">"Exception in file writer "</span> << std::endl;</div>
<div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  std::cerr << e << std::endl;</div>
<div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  }</div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span> </div>
<div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  <span class="comment">// export B</span></div>
<div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  gdcmImageIO->SetMetaDataDictionary(dictionaryOutput_B);</div>
<div class="line"><a name="l00275"></a><span class="lineno"> 275</span> </div>
<div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  OxColorbarFilter->SetInput(_imageCalculatorItk->GetBImage());</div>
<div class="line"><a name="l00277"></a><span class="lineno"> 277</span>  OxColorbarFilter->SetZerosInsteadOfColorbar(<span class="keyword">true</span>);</div>
<div class="line"><a name="l00278"></a><span class="lineno"> 278</span> </div>
<div class="line"><a name="l00279"></a><span class="lineno"> 279</span>  <span class="comment">// export to dicom</span></div>
<div class="line"><a name="l00280"></a><span class="lineno"> 280</span>  adaptor->SetInput(OxColorbarFilter->GetOutput());</div>
<div class="line"><a name="l00281"></a><span class="lineno"> 281</span>  writer->SetFileName(_opts->dir_output_fitparams + KWUtil::PathSeparator() + newSeriesNumber_R2 + <span class="stringliteral">"_B.dcm"</span>);</div>
<div class="line"><a name="l00282"></a><span class="lineno"> 282</span>  writer->SetInput(adaptor->GetOutput());</div>
<div class="line"><a name="l00283"></a><span class="lineno"> 283</span>  writer->SetImageIO(gdcmImageIO);</div>
<div class="line"><a name="l00284"></a><span class="lineno"> 284</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00285"></a><span class="lineno"> 285</span>  writer->Update();</div>
<div class="line"><a name="l00286"></a><span class="lineno"> 286</span>  } <span class="keywordflow">catch</span> (itk::ExceptionObject &e) {</div>
<div class="line"><a name="l00287"></a><span class="lineno"> 287</span>  std::cerr << <span class="stringliteral">"Exception in file writer "</span> << std::endl;</div>
<div class="line"><a name="l00288"></a><span class="lineno"> 288</span>  std::cerr << e << std::endl;</div>
<div class="line"><a name="l00289"></a><span class="lineno"> 289</span>  }</div>
<div class="line"><a name="l00290"></a><span class="lineno"> 290</span> </div>
<div class="line"><a name="l00291"></a><span class="lineno"> 291</span>  <span class="comment">// export T2star</span></div>
<div class="line"><a name="l00292"></a><span class="lineno"> 292</span>  gdcmImageIO->SetMetaDataDictionary(dictionaryOutput_T2star);</div>
<div class="line"><a name="l00293"></a><span class="lineno"> 293</span> </div>
<div class="line"><a name="l00294"></a><span class="lineno"> 294</span>  OxColorbarFilter->SetInput(_imageCalculatorItk->GetT1starImage());</div>
<div class="line"><a name="l00295"></a><span class="lineno"> 295</span>  OxColorbarFilter->SetZerosInsteadOfColorbar(<span class="keyword">true</span>);</div>
<div class="line"><a name="l00296"></a><span class="lineno"> 296</span> </div>
<div class="line"><a name="l00297"></a><span class="lineno"> 297</span>  <span class="comment">// export to dicom</span></div>
<div class="line"><a name="l00298"></a><span class="lineno"> 298</span>  adaptor->SetInput(OxColorbarFilter->GetOutput());</div>
<div class="line"><a name="l00299"></a><span class="lineno"> 299</span>  writer->SetFileName(_opts->dir_output_fitparams + KWUtil::PathSeparator() + newSeriesNumber_R2 + <span class="stringliteral">"_T2star.dcm"</span>);</div>
<div class="line"><a name="l00300"></a><span class="lineno"> 300</span>  writer->SetInput(adaptor->GetOutput());</div>
<div class="line"><a name="l00301"></a><span class="lineno"> 301</span>  writer->SetImageIO(gdcmImageIO);</div>
<div class="line"><a name="l00302"></a><span class="lineno"> 302</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00303"></a><span class="lineno"> 303</span>  writer->Update();</div>
<div class="line"><a name="l00304"></a><span class="lineno"> 304</span>  } <span class="keywordflow">catch</span> (itk::ExceptionObject &e) {</div>
<div class="line"><a name="l00305"></a><span class="lineno"> 305</span>  std::cerr << <span class="stringliteral">"Exception in file writer "</span> << std::endl;</div>
<div class="line"><a name="l00306"></a><span class="lineno"> 306</span>  std::cerr << e << std::endl;</div>
<div class="line"><a name="l00307"></a><span class="lineno"> 307</span>  }</div>
<div class="line"><a name="l00308"></a><span class="lineno"> 308</span> </div>
<div class="line"><a name="l00309"></a><span class="lineno"> 309</span>  <span class="comment">// TODO: check, values seem a little low</span></div>
<div class="line"><a name="l00310"></a><span class="lineno"> 310</span>  <span class="comment">// export RelSNRFinal</span></div>
<div class="line"><a name="l00311"></a><span class="lineno"> 311</span>  gdcmImageIO->SetMetaDataDictionary(dictionaryOutput_RelSNRFinal);</div>
<div class="line"><a name="l00312"></a><span class="lineno"> 312</span> </div>
<div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  OxColorbarFilter->SetInput(_imageCalculatorItk->GetSNRImage());</div>
<div class="line"><a name="l00314"></a><span class="lineno"> 314</span>  OxColorbarFilter->SetZerosInsteadOfColorbar(<span class="keyword">true</span>);</div>
<div class="line"><a name="l00315"></a><span class="lineno"> 315</span> </div>
<div class="line"><a name="l00316"></a><span class="lineno"> 316</span>  <span class="comment">// export to dicom</span></div>
<div class="line"><a name="l00317"></a><span class="lineno"> 317</span>  adaptor->SetInput(OxColorbarFilter->GetOutput());</div>
<div class="line"><a name="l00318"></a><span class="lineno"> 318</span>  writer->SetFileName(_opts->dir_output_fitparams + KWUtil::PathSeparator() + newSeriesNumber_R2 + <span class="stringliteral">"_RelSNRFinal.dcm"</span>);</div>
<div class="line"><a name="l00319"></a><span class="lineno"> 319</span>  writer->SetInput(adaptor->GetOutput());</div>
<div class="line"><a name="l00320"></a><span class="lineno"> 320</span>  writer->SetImageIO(gdcmImageIO);</div>
<div class="line"><a name="l00321"></a><span class="lineno"> 321</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00322"></a><span class="lineno"> 322</span>  writer->Update();</div>
<div class="line"><a name="l00323"></a><span class="lineno"> 323</span>  } <span class="keywordflow">catch</span> (itk::ExceptionObject &e) {</div>
<div class="line"><a name="l00324"></a><span class="lineno"> 324</span>  std::cerr << <span class="stringliteral">"Exception in file writer "</span> << std::endl;</div>
<div class="line"><a name="l00325"></a><span class="lineno"> 325</span>  std::cerr << e << std::endl;</div>
<div class="line"><a name="l00326"></a><span class="lineno"> 326</span>  }</div>
<div class="line"><a name="l00327"></a><span class="lineno"> 327</span>  std::cout << <span class="stringliteral">" Saved!"</span> << std::endl;</div>
<div class="line"><a name="l00328"></a><span class="lineno"> 328</span>  }</div>
<div class="line"><a name="l00329"></a><span class="lineno"> 329</span> </div>
<div class="line"><a name="l00330"></a><span class="lineno"> 330</span>  <span class="keywordflow">return</span> 0; <span class="comment">// EXIT_SUCCESS</span></div>
<div class="line"><a name="l00331"></a><span class="lineno"> 331</span>  }</div>
<div class="line"><a name="l00332"></a><span class="lineno"> 332</span> </div>
<div class="line"><a name="l00333"></a><span class="lineno"> 333</span> } <span class="comment">// namespace Ox</span></div>
<div class="line"><a name="l00334"></a><span class="lineno"> 334</span> </div>
<div class="line"><a name="l00335"></a><span class="lineno"> 335</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00336"></a><span class="lineno"> 336</span> <span class="preprocessor"></span></div>
<div class="line"><a name="l00337"></a><span class="lineno"> 337</span> <span class="preprocessor">#endif //TOMATO_TOMATO_EXPORTT2_HXX</span></div>
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