segmentation/clitkExtractLymphStation_3A.txx

   1
   2 //--------------------------------------------------------------------
   3 template <class ImageType>
   4 void
   5 clitk::ExtractLymphStationsFilter<ImageType>::
   6 ExtractStation_3A_SetDefaultValues()
   7 {
   8   SetFuzzyThreshold("3A", "Sternum", 0.5);
   9   SetFuzzyThreshold("3A", "SubclavianArtery", 0.5);
  10 }
  11 //--------------------------------------------------------------------
  12
  13
  14 //--------------------------------------------------------------------
  15 template <class ImageType>
  16 void
  17 clitk::ExtractLymphStationsFilter<ImageType>::
  18 ExtractStation_3A_SI_Limits()
  19 {
  20   // Apex of the chest or Sternum & Carina.
  21   StartNewStep("[Station 3A] Inf/Sup limits with Sternum and Carina");
  22
  23   // Get Carina position (has been determined in Station8)
  24   m_CarinaZ = GetAFDB()->GetDouble("CarinaZ");
  25
  26   // Get Sternum and search for the upper position
  27   MaskImagePointer Sternum = GetAFDB()->template GetImage<MaskImageType>("Sternum");
  28
  29   // Search most sup point
  30   MaskImagePointType ps = Sternum->GetOrigin(); // initialise to avoid warning
  31   clitk::FindExtremaPointInAGivenDirection<MaskImageType>(Sternum, GetBackgroundValue(), 2, false, ps);
  32   double m_SternumZ = ps[2]+Sternum->GetSpacing()[2]; // One more slice, because it is below this point
  33
  34   //* Crop support :
  35   m_Working_Support =
  36     clitk::CropImageAlongOneAxis<MaskImageType>(m_Working_Support, 2,
  37                                                 m_CarinaZ, m_SternumZ, true,
  38                                                 GetBackgroundValue());
  39
  40   StopCurrentStep<MaskImageType>(m_Working_Support);
  41   m_ListOfStations["3A"] = m_Working_Support;
  42 }
  43 //--------------------------------------------------------------------
  44
  45
  46 //--------------------------------------------------------------------
  47 template <class ImageType>
  48 void
  49 clitk::ExtractLymphStationsFilter<ImageType>::
  50 ExtractStation_3A_Ant_Limits()
  51 {
  52   StartNewStep("[Station 3A] Ant limits with Sternum");
  53
  54   // Get Sternum, keep posterior part.
  55   MaskImagePointer Sternum = GetAFDB()->template GetImage<MaskImageType>("Sternum");
  56   m_Working_Support =
  57     clitk::SliceBySliceRelativePosition<MaskImageType>(m_Working_Support, Sternum, 2,
  58                                                        GetFuzzyThreshold("3A", "Sternum"), "PostTo",
  59                                                        false, 3, true, false);
  60   StopCurrentStep<MaskImageType>(m_Working_Support);
  61   m_ListOfStations["3A"] = m_Working_Support;
  62 }
  63 //--------------------------------------------------------------------
  64
  65
  66 //--------------------------------------------------------------------
  67 template <class ImageType>
  68 void
  69 clitk::ExtractLymphStationsFilter<ImageType>::
  70 ExtractStation_3A_Post_Limits()
  71 {
  72   StartNewStep("[Station 3A] Post limits with SubclavianArtery");
  73
  74   // Get Sternum, keep posterior part.
  75   MaskImagePointer SubclavianArtery = GetAFDB()->template GetImage<MaskImageType>("SubclavianArtery");
  76   m_Working_Support =
  77     clitk::SliceBySliceRelativePosition<MaskImageType>(m_Working_Support, SubclavianArtery, 2,
  78                                                        GetFuzzyThreshold("3A", "SubclavianArtery"), "AntTo",
  79                                                        false, 3, true, false);
  80   StopCurrentStep<MaskImageType>(m_Working_Support);
  81   m_ListOfStations["3A"] = m_Working_Support;
  82 }
  83 //--------------------------------------------------------------------
  84
  85