+
+
+//--------------------------------------------------------------------
+void clitk::DicomRT_ROI::ComputeContoursFromImage()
+{
+ FATAL("ComputeContoursFromImage should not be call. To be replace");
+ DD("ComputeMeshFromImage");
+
+ // Check that an image is loaded
+ if (!mImage) return;
+
+ // Only consider 3D here
+ if (mImage->GetNumberOfDimensions() != 3) {
+ FATAL("DicomRT_ROI::ComputeMeshFromImage only work with 3D images");
+ }
+
+ // Get the VTK image
+ vtkImageData * image = mImage->GetVTKImages()[0];
+
+ // Get initial extend for the clipping
+ vtkSmartPointer<vtkImageClip> clipper = vtkSmartPointer<vtkImageClip>::New();
+ clipper->SetInput(image);
+ int* extent = image->GetExtent();
+ DDV(extent, 6);
+ // std::vector<int> extend;
+
+
+ // Loop on slice
+ uint n = image->GetDimensions()[2];
+ DD(n);
+ DD(mListOfContours.size());
+ mListOfContours.resize(n); /// ???FIXME
+ DD(mListOfContours.size());
+ std::vector<vtkSmartPointer<vtkPolyData> > contours;
+ for(uint i=0; i<n; i++) {
+ DD(i);
+
+ // FIXME vtkDiscreteMarchingCubes INSTEAD
+
+
+ vtkSmartPointer<vtkMarchingSquares> squares = vtkSmartPointer<vtkMarchingSquares>::New();
+ squares->SetInput(image);
+ squares->SetImageRange(extent[0], extent[1], extent[2], extent[3], i, i);
+ squares->SetValue(1, 1.0);
+ squares->Update();
+ DD(squares->GetNumberOfContours());
+
+ //clitk::DicomRT_Contour * contour = new clitk::DicomRT_Contour();
+ //mListOfContours[i]->SetMesh(squares->GetOutput());
+
+
+ vtkSmartPointer<vtkPolyData> m = squares->GetOutput();
+ contours.push_back(m);
+
+ /*
+ // Clip to the current slice
+ extent[4] = extent[5] = image->GetOrigin()[2]+i*image->GetSpacing()[2];
+ DDV(extent, 6);
+ // Prepare the marching squares
+ vtkSmartPointer<vtkMarchingSquares> squares = vtkSmartPointer<vtkMarchingSquares>::New();
+ clipper->SetOutputWholeExtent(extent[0],extent[1],extent[2],
+ extent[3],extent[4],extent[5]);
+
+ squares->SetInput(clipper->GetOutput());
+ squares->Update();
+ DD(squares->GetNumberOfContours());
+ mListOfContours[i]->SetMesh(squares->GetOutput());
+ */
+ }
+ DD("done");
+
+ vtkSmartPointer<vtkAppendPolyData> append = vtkSmartPointer<vtkAppendPolyData>::New();
+ for(unsigned int i=0; i<n; i++) {
+ append->AddInput(contours[i]);
+ }
+ append->Update();
+
+ mMesh = vtkSmartPointer<vtkPolyData>::New();
+ mMesh->DeepCopy(append->GetOutput());
+
+ // Write vtk
+ vtkPolyDataWriter * w = vtkPolyDataWriter::New();
+ w->SetInput(mMesh);
+ w->SetFileName("toto.vtk");
+ w->Write();
+
+ DD("done");
+}
+//--------------------------------------------------------------------
+
+
+//--------------------------------------------------------------------
+#if CLITK_USE_SYSTEM_GDCM == 1
+void clitk::DicomRT_ROI::Read(vtkSmartPointer<vtkGDCMPolyDataReader> & reader, int roiindex)
+{
+ vtkRTStructSetProperties * p = reader->GetRTStructSetProperties();
+
+ mName = p->GetStructureSetROIName(roiindex);
+ mNumber = p->GetStructureSetROINumber(roiindex);
+
+ //mColor = //FIXME !!
+
+ // gdcm::Attribute<0x3006,0x002a> color = {};
+
+ // const gdcm::DataSet & nestedds = mItemContour->GetNestedDataSet();
+ // color.SetFromDataSet( nestedds );
+ // assert( color.GetNumberOfValues() == 3 );
+ // mColor[0] = color.GetValue(0);
+ // mColor[1] = color.GetValue(1);
+ // mColor[2] = color.GetValue(2);
+
+
+ SetDicomUptodateFlag(true);
+ // Get the contour
+ mMesh = reader->GetOutput(roiindex);
+ DicomRT_Contour::Pointer c = DicomRT_Contour::New();
+ c->SetMesh(mMesh); // FIXME no GetZ, not GetPoints
+ mMeshIsUpToDate = true;
+ mListOfContours.push_back(c);
+}
+#endif
+//--------------------------------------------------------------------
+