[vtkusers] Use marching cubes on MINC data

[Bill Lorensen]

Does the mind data have continuous grayscale values or are the values
discrete (from a segmentation algorithm)?

If they are continuous, pass the data directly to marching cubes (no
voxelmodeller). You will need to select a proper isosurface value for
the structure you want to see.

If the data is discrete, use DiscreteMarchingCubes and pass in the
value for the segmented structure you want so see.

On Mon, Mar 12, 2012 at 10:28 AM, Tanweer Rashid <trash001 at odu.edu> wrote:
> Hi all,
>
> I am trying to extract surfaces from a MINC (.mnc) data file using
> vtkMarchingCubes. The code I am using is based on the VTK wiki's Marching
> cubes on a sphere example, and is as follows:
>
> void marching_cubes() {
>     vtkMINCImageReader* minc = vtkMINCImageReader::New();
>     minc->SetFileName("/home/trash001/Desktop/AtlasGrey.mnc");
>
>     vtkVoxelModeller* voxelModeller = vtkVoxelModeller::New();
>
>     voxelModeller->SetSampleDimensions(197, 233, 189);
>     voxelModeller->SetModelBounds(-98, 99, -134, 99, -72, 117);
>     voxelModeller->SetScalarTypeToFloat();
>     voxelModeller->SetMaximumDistance(.01);
>     voxelModeller->SetInputConnection(minc->GetOutputPort());
>
>     vtkMarchingCubes* surface = vtkMarchingCubes::New();
>     surface->SetInputConnection(voxelModeller->GetOutputPort());
>     surface->ComputeNormalsOn();
>     surface->SetValue(0, 0.5);
>
>     vtkRenderer* renderer = vtkRenderer::New();
>     renderer->SetBackground(.1, .2, .3);
>
>     vtkRenderWindow* renderWindow = vtkRenderWindow::New();
>     renderWindow->AddRenderer(renderer);
>     vtkRenderWindowInteractor* interactor =
> vtkRenderWindowInteractor::New();
>     interactor->SetRenderWindow(renderWindow);
>
>     vtkPolyDataMapper* mapper = vtkPolyDataMapper::New();
>     mapper->SetInputConnection(surface->GetOutputPort());
>
>     vtkActor* actor = vtkActor::New();
>     actor->SetMapper(mapper);
>
>     renderer->AddActor(actor);
>
>     renderWindow->Render();
>     interactor->Start();
>     return;
> }
>
> When I run this code, I get a blank window. I suspect that the problem is
> that I cannot provide the MINC data to vtkMarchingCubes in a suitable
> format, but I could be wrong. Any help would be appreciated.
>
> Thanks,
> --
> Tanweer Rashid
> Graduate Teaching & Research Assistant
> Department of Modeling, Simulation and Visualization Engineering
> Old Dominion University
>
>
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