Load vol file into 3D Slicer from Morita machine

pieper · November 20, 2018, 4:35pm

I’m not sure it’s the same file type (.vol may be an overused file extension) but here’s some code to read a .vol file from a microCT machine:

github.com

pieper/CaseHub/blob/master/BenchtopNeuro/BenchtopNeuro.py#L378-L460


def volumeNodeFromVolArray(self, volArray, shape, vtkDataType, dimensions, volName, spacing):


  volArray = volArray.reshape(shape)


  # make a vtkImage data of the vol data
  image = vtk.vtkImageData()
  image.SetDimensions(dimensions)
  image.AllocateScalars(vtk.VTK_FLOAT, 1)
  imageArray = vtk.util.numpy_support.vtk_to_numpy(image.GetPointData().GetScalars()).reshape(shape)
  imageArray[:] = volArray


  # make a slicer volume node for the image
  volumeNode = slicer.vtkMRMLScalarVolumeNode()
  volumeNode.SetName(volName)
  volumeNode.SetSpacing(*spacing)
  volumeNode.SetAndObserveImageData(image)
  slicer.mrmlScene.AddNode(volumeNode)
  volumeNode.CreateDefaultDisplayNodes()


  # make this volume visible

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Load vol file into 3D Slicer from Morita machine

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