m_ListOfStations["3P"] = m_Working_Support;
StopCurrentStep<MaskImageType>(m_Working_Support);
- /* TODO
- LR_sup -> AzygousVein, Aorta
-
-keep computed object, RelPos then
-
-
- */
-
+ // ExtractStation_3P_LR_inf_Limits(); // <-- done in RelPosList
- ExtractStation_3P_LR_inf_Limits();
+ // Generic RelativePosition processes
+ m_ListOfStations["3P"] = this->ApplyRelativePositionList("Station_3P", m_ListOfStations["3P"]);
+ m_Working_Support = m_ListOfStations["3P"];
ExtractStation_8_Single_CCL_Limits(); // YES 8 !
ExtractStation_3P_Remove_Structures(); // after CCL
+ m_ListOfStations["3P"] = m_Working_Support;
// Old stuff
- // LR limits superiorly => not here for the moment because not
- // clear in the def
+ // LR limits superiorly => not here for the moment because not clear in the def
// ExtractStation_3P_LR_sup_Limits_2(); //TODO
// ExtractStation_3P_LR_sup_Limits(); // old version to change
-
- m_ListOfStations["3P"] = this->ApplyRelativePositionList("Station_3P", m_ListOfStations["3P"]);
// Store image filenames into AFDB
writeImage<MaskImageType>(m_ListOfStations["3P"], "seg/Station3P.mhd");
ExtractStation_3P_Remove_Structures()
{
StartNewStep("[Station 3P] Remove some structures.");
-
- Remove_Structures("3P", "Aorta");
- Remove_Structures("3P", "VertebralBody");
- Remove_Structures("3P", "SubclavianArteryLeft");
- Remove_Structures("3P", "SubclavianArteryRight");
Remove_Structures("3P", "Esophagus");
- Remove_Structures("3P", "AzygousVein");
Remove_Structures("3P", "Thyroid");
- Remove_Structures("3P", "VertebralArtery");
-
+ Remove_Structures("3P", "VertebralArtery"); // (inside the station)
StopCurrentStep<MaskImageType>(m_Working_Support);
m_ListOfStations["3P"] = m_Working_Support;
}
}
//--------------------------------------------------------------------
-//--------------------------------------------------------------------
-template <class ImageType>
-void
-clitk::ExtractLymphStationsFilter<ImageType>::
-ExtractStation_3P_LR_inf_Limits()
-{
- /*
- "On the right side, the limit is defined by the air–soft-tissue
- interface. On the left side, it is defined by the air–tissue
- interface superiorly (Fig. 2A–C) and the aorta inferiorly
- (Figs. 2D–I and 3A–C)."
-
- inf : not Right to Azygousvein
- */
- StartNewStep("[Station 3P] Left/Right limits (inferior part) with Azygousvein and Aorta");
-
- // Load structures
- MaskImagePointer AzygousVein = GetAFDB()->template GetImage<MaskImageType>("AzygousVein");
- MaskImagePointer Aorta = GetAFDB()->template GetImage<MaskImageType>("Aorta");
-
- DD("ici");
- writeImage<MaskImageType>(m_Working_Support, "ws.mhd");
-
- typedef clitk::AddRelativePositionConstraintToLabelImageFilter<MaskImageType> RelPosFilterType;
- typename RelPosFilterType::Pointer relPosFilter = RelPosFilterType::New();
- relPosFilter->VerboseStepFlagOff();
- relPosFilter->WriteStepFlagOff();
- relPosFilter->SetBackgroundValue(GetBackgroundValue());
- relPosFilter->SetInput(m_Working_Support);
- relPosFilter->SetInputObject(AzygousVein);
- relPosFilter->AddOrientationTypeString("R");
- relPosFilter->SetInverseOrientationFlag(true);
- relPosFilter->SetIntermediateSpacing(3);
- relPosFilter->SetIntermediateSpacingFlag(false);
- relPosFilter->SetFuzzyThreshold(0.7);
- relPosFilter->AutoCropFlagOn();
- relPosFilter->Update();
- m_Working_Support = relPosFilter->GetOutput();
-
- DD("la");
- writeImage<MaskImageType>(m_Working_Support, "before-L-aorta.mhd");
- relPosFilter->SetInput(m_Working_Support);
- relPosFilter->SetInputObject(Aorta);
- relPosFilter->AddOrientationTypeString("L");
- relPosFilter->SetInverseOrientationFlag(true);
- relPosFilter->SetIntermediateSpacing(3);
- relPosFilter->SetIntermediateSpacingFlag(false);
- relPosFilter->SetFuzzyThreshold(0.7);
- relPosFilter->AutoCropFlagOn();
- relPosFilter->Update();
- m_Working_Support = relPosFilter->GetOutput();
- writeImage<MaskImageType>(m_Working_Support, "after-L-aorta.mhd");
-
- StopCurrentStep<MaskImageType>(m_Working_Support);
- m_ListOfStations["3P"] = m_Working_Support;
-}
-//--------------------------------------------------------------------