X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=common%2FclitkImage2DicomRTStructFilter.txx;h=cc90104216d6ca2ef9d37f77e92156bf47c4fe9f;hb=004bcd39f231a113951c678008140722b0b28152;hp=6ab72e2ed6916e48a6ce8978d7016508baea85e8;hpb=91669882f4625b286c9dbaeec147983da01fe286;p=clitk.git

diff --git a/common/clitkImage2DicomRTStructFilter.txx b/common/clitkImage2DicomRTStructFilter.txx
index 6ab72e2..cc90104 100644
--- a/common/clitkImage2DicomRTStructFilter.txx
+++ b/common/clitkImage2DicomRTStructFilter.txx
@@ -23,6 +23,7 @@
 
 // clitk
 #include "clitkImage2DicomRTStructFilter.h"
+#include "clitkBinaryImageToMeshFilter.h"
 #include "clitkImageCommon.h"
 #include "vvFromITK.h"
 
@@ -34,10 +35,24 @@
 #include <vtkMetaImageWriter.h>
 #include <vtkImageData.h>
 
+// FIXME to remove
+#include "vtkPolyDataMapper.h"
+#include "vtkPolyDataMapper2D.h"
+#include "vtkRenderWindowInteractor.h"
+#include "vtkPolyDataReader.h"
+#include "vtkRenderWindow.h"
+#include "vtkRenderer.h"
+#include "vtkCamera.h"
+#include "vtkProperty.h"
+#include "vtkProperty2D.h"
+
 // itk
 #include <itkImage.h>
 #include <itkVTKImageToImageFilter.h>
 
+// gdcm
+#include <vtkGDCMPolyDataWriter.h>
+
 //--------------------------------------------------------------------
 template<class PixelType>
 clitk::Image2DicomRTStructFilter<PixelType>::Image2DicomRTStructFilter()
@@ -62,23 +77,150 @@ void clitk::Image2DicomRTStructFilter<PixelType>::Update()
 {
   DD("Image2DicomRTStructFilter::GenerateData");
 
-  // Read DicomRTStruct
-  std::string filename = "RS.zzQAnotmt_french01_.dcm";
-  clitk::DicomRT_StructureSet::Pointer structset = clitk::DicomRT_StructureSet::New();
-  structset->Read(filename);
+  // Read rt struct
+  vtkSmartPointer<vtkGDCMPolyDataReader> reader = vtkGDCMPolyDataReader::New();
+  reader->SetFileName(m_StructureSetFilename.c_str());
+  reader->Update();
+  DD("reader done");
+
+  // Get properties
+  vtkRTStructSetProperties * p = reader->GetRTStructSetProperties();
+  DD(p->GetNumberOfStructureSetROIs());
+  DD(p->GetStructureSetROIName(0));
+  DD(p->GetStructureSetROINumber(0));  
+  
+  // Init writer
+  vtkGDCMPolyDataWriter * writer = vtkGDCMPolyDataWriter::New();
+  int numMasks = reader->GetNumberOfOutputPorts() + 1;//add one more
+  DD(numMasks);
+  
+  // numMasks = 3; //FIXME temporary
+
+  writer->SetNumberOfInputPorts(numMasks);    
+  writer->SetFileName(m_OutputFilename.c_str());
+  writer->SetMedicalImageProperties(reader->GetMedicalImageProperties());
+
+  // List of already present rois
+  vtkStringArray* roiNames = vtkStringArray::New();
+  vtkStringArray* roiAlgorithms = vtkStringArray::New();
+  vtkStringArray* roiTypes = vtkStringArray::New();
+  roiNames->SetNumberOfValues(numMasks);
+  roiAlgorithms->SetNumberOfValues(numMasks);
+  roiTypes->SetNumberOfValues(numMasks);
   
-  DD(structset->GetName());
-  clitk::DicomRT_ROI * roi = structset->GetROIFromROINumber(1); // Aorta
+  typedef clitk::BinaryImageToMeshFilter<ImageType> BinaryImageToMeshFilterType;
+  typename BinaryImageToMeshFilterType::Pointer convert = BinaryImageToMeshFilterType::New();
+  convert->SetInput(m_Input);
+  DD("Update");
+  convert->Update();
+  DD("here");
+  DD("end update");
+  vtkPolyData* mesh = convert->GetOutputMesh();
+  DD(mesh->GetNumberOfVerts());
+  DD(mesh->GetNumberOfLines());
+  DD(mesh->GetNumberOfPolys());
+  DD(mesh->GetNumberOfStrips());
+
+  // Add on (FIXME) to replace with binary image
+  // vtkPolyData* blank = vtkPolyData::New();
+  // writer->SetInput(0, blank);
+  writer->SetInput(0, mesh);
+  roiNames->InsertValue(0, "blank");
+  roiAlgorithms->InsertValue(0, "blank");
+  roiTypes->InsertValue(0, "ORGAN");
+
+  for (unsigned int i = 1; i < numMasks; ++i) {
+    // DD(i);
+    writer->SetInput(i, reader->GetOutput(i-1));
+    std::string theString = reader->GetRTStructSetProperties()->GetStructureSetROIName(i-1);
+    roiNames->InsertValue(i, theString);
+    theString = reader->GetRTStructSetProperties()->GetStructureSetROIGenerationAlgorithm(i-1);
+    roiAlgorithms->InsertValue(i, theString);
+    theString = reader->GetRTStructSetProperties()->GetStructureSetRTROIInterpretedType(i-1);
+    roiTypes->InsertValue(i, theString);
+  }
+  
+
+  /*
+  //  Visu
+  vtkPolyDataMapper *cubeMapper = vtkPolyDataMapper::New();
+  cubeMapper->SetInput( mesh );
+  cubeMapper->SetScalarRange(0,7);
+  vtkActor *cubeActor = vtkActor::New();
+  cubeActor->SetMapper(cubeMapper);
+  vtkProperty * property = cubeActor->GetProperty();
+  property->SetRepresentationToWireframe();
+
+  vtkRenderer *renderer = vtkRenderer::New();
+  vtkRenderWindow *renWin = vtkRenderWindow::New();
+  renWin->AddRenderer(renderer);
+
+  vtkRenderWindowInteractor *iren = vtkRenderWindowInteractor::New();
+  iren->SetRenderWindow(renWin);
+
+  renderer->AddActor(cubeActor);
+  renderer->ResetCamera();
+  renderer->SetBackground(1,1,1);
+
+  renWin->SetSize(300,300);
+
+  renWin->Render();
+  iren->Start();
+  */
+  
+
+  // End visu
+
+
+  vtkRTStructSetProperties* theProperties = vtkRTStructSetProperties::New();
+  DD(p->GetStudyInstanceUID());
+  writer->SetRTStructSetProperties(theProperties);
+  /*writer->InitializeRTStructSet2(p,"./",
+                                 reader->GetRTStructSetProperties()->GetStructureSetLabel(),
+                                 reader->GetRTStructSetProperties()->GetStructureSetName(),
+                                 roiNames, roiAlgorithms, roiTypes);*/  
+  writer->InitializeRTStructSet(m_DicomFolder,
+                                reader->GetRTStructSetProperties()->GetStructureSetLabel(),
+                                reader->GetRTStructSetProperties()->GetStructureSetName(),
+                                roiNames, roiAlgorithms, roiTypes);
+  
+  DD("after init");
+  writer->Write();
+  DD("write done");
+
+  reader->Delete();
+  roiNames->Delete();
+  roiTypes->Delete();
+  //theProperties->Delete();
+  roiAlgorithms->Delete();
+  //blank->Delete();
+  writer->Delete();
+  
+  ////////////////////
+  
+
+  /*
+
+  // DicomRTStruct
+  DD(m_StructureSet->GetName());
+  clitk::DicomRT_ROI * roi = m_StructureSet->GetROIFromROINumber(1); // Aorta
   DD(roi->GetName());
   DD(roi->GetROINumber());
 
+
+  // Get 
+  
+
+
+
   // Add an image to the roi
   vvImage::Pointer im = vvImageFromITK<3, PixelType>(m_Input);
   roi->SetImage(im);
 
   // Get one contour
   DD("Compute Mesh");
-  roi->ComputeMeshFromImage();
+  roi->ComputeContoursFromImage(); // FIXME do the set mesh for the moment (to change)
+  // roi->ComputeMeshFromContour();
   vtkSmartPointer<vtkPolyData> mesh = roi->GetMesh();
   DD("done");
   
@@ -91,13 +233,14 @@ void clitk::Image2DicomRTStructFilter<PixelType>::Update()
   //   points->SetPoint(i, p);
   // }
   roi->SetName("TOTO");
-  roi->SetDicomUptodateFlag(false); // indicate that dicom info must be updated from the mesh.
+  roi->SetDicomUptodateFlag(true); // indicate that dicom info must be updated from the mesh.
     
   // Convert to dicom ?
   DD("TODO");
   
   // Write
   structset->Write("toto.dcm");
+  */
 }
 //--------------------------------------------------------------------