171 lines
6.2 KiB
Python
171 lines
6.2 KiB
Python
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import vtk
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from vmtk import pypes
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class Surface2d():
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def __init__(self, input_path):
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self.input_path = input_path
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self.surface = None
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self.boundaries = None
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def generate(self, target_reduction = 0.9994, num_subdivisions = 3, resize_factors = None, clipping_factor = 0.0):
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# Convert to VTI
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myArguments = 'vmtkimagereader -ifile ' + self.input_path
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my_pype = pypes.PypeRun(myArguments)
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vtk_image = my_pype.GetScriptObject('vmtkimagereader','0').Image
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# Size the image if needed
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if resize_factors is not None:
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reduction_filter = vtk.vtkImageResize()
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reduction_filter.SetInput(vtk_image)
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reduction_filter.SetMagnificationFactors(resize_factors[0], resize_factors[1], resize_factors[2])
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reduction_filter.SetResizeMethodToMagnificationFactors()
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reduction_filter.Update()
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# Threshold
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threshold = vtk.vtkThreshold()
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if resize_factors is not None:
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threshold.SetInputConnection(reduction_filter.GetOutputPort())
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else:
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threshold.SetInput(vtk_image)
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threshold.ThresholdByUpper(1.0)
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threshold.Update()
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# Convert to polydata
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surface = vtk.vtkGeometryFilter()
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surface.SetInputConnection(threshold.GetOutputPort())
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surface.Update()
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# Triangulate
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triangle = vtk.vtkTriangleFilter()
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triangle.SetInputConnection(surface.GetOutputPort())
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triangle.Update()
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# Decimate
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decimate = vtk.vtkDecimatePro()
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decimate.SetInputConnection(triangle.GetOutputPort())
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decimate.SetTargetReduction(target_reduction)
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decimate.SetFeatureAngle(15.0)
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decimate.Update()
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# Do loop subdivision
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su = vtk.vtkLinearSubdivisionFilter()
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su.SetInputConnection(decimate.GetOutputPort())
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su.SetNumberOfSubdivisions(num_subdivisions)
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su.Update()
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# Clip the boundaries, recommended to ensure straight inlets and outlets
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if clipping_factor > 0.0:
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bounds = su.GetOutput().GetBounds()
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width = bounds[1] - bounds[0]
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height = bounds[3] - bounds[2]
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print bounds[2], bounds[3], height
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p1 = vtk.vtkPlane()
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p1.SetOrigin(bounds[0] + clipping_factor*width, 0.0, 0)
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p1.SetNormal(1, 0, 0)
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p2 = vtk.vtkPlane()
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p2.SetOrigin(0.0, bounds[2] + clipping_factor*height, 0)
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p2.SetNormal(0, 1, 0)
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p3 = vtk.vtkPlane()
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p3.SetOrigin(bounds[1] - clipping_factor*width, 0.0, 0)
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p3.SetNormal(-1, 0, 0)
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p4 = vtk.vtkPlane()
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p4.SetOrigin(0.0, bounds[3] - clipping_factor*height, 0)
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p4.SetNormal(0, -1, 0)
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c1 = vtk.vtkClipPolyData()
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c1.SetInputConnection(su.GetOutputPort())
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c1.SetClipFunction(p1)
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c1.SetValue(0.0)
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c2 = vtk.vtkClipPolyData()
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c2.SetInputConnection(c1.GetOutputPort())
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c2.SetClipFunction(p2)
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c2.SetValue(0.0)
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#
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c3 = vtk.vtkClipPolyData()
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c3.SetInputConnection(c2.GetOutputPort())
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c3.SetClipFunction(p3)
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c3.SetValue(0.0)
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c4 = vtk.vtkClipPolyData()
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c4.SetInputConnection(c3.GetOutputPort())
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c4.SetClipFunction(p4)
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c4.SetValue(0.0)
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su = vtk.vtkGeometryFilter()
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su.SetInputConnection(c4.GetOutputPort())
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su.Update()
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feature_edges = vtk.vtkFeatureEdges()
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feature_edges.SetInputConnection(su.GetOutputPort())
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feature_edges.Update()
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clean = vtk.vtkCleanPolyData()
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clean.SetInputConnection(feature_edges.GetOutputPort())
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clean.Update()
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triangle2 = vtk.vtkTriangleFilter()
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triangle2.SetInputConnection(clean.GetOutputPort())
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triangle2.Update()
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self.surface = su.GetOutput()
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self.boundaries = triangle2.GetOutput()
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return su.GetOutput(), triangle2.GetOutput()
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def write(self, output_directory):
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surface_writer = vtk.vtkXMLPolyDataWriter()
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surface_writer.SetFileName(output_directory + "/surface.vtp")
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surface_writer.SetInput(self.surface)
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surface_writer.Write()
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surface_writer.SetFileName(output_directory + "/boundaries.vtp")
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surface_writer.SetInput(self.boundaries)
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surface_writer.Write()
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class Surface3d():
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def __init__(self):
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pass
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def generate(self, input_path, output_directory, part_name):
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input_path = work_dir + "/vtk_image/itk_tile_0_2_6.vti"
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reader = vtk.vtkXMLImageDataReader()
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reader.SetFileName(input_path)
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reader.Update()
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pad_filter = vtk.vtkImageConstantPad()
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pad_filter.SetInputConnection(reader.GetOutputPort())
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pad_filter.SetConstant(0)
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pad_filter.SetOutputWholeExtent(reader.GetOutput().GetExtent()[0]-5,
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reader.GetOutput().GetExtent()[1]+5,
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reader.GetOutput().GetExtent()[2]-5,
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reader.GetOutput().GetExtent()[3]+5,
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reader.GetOutput().GetExtent()[4]-5,
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reader.GetOutput().GetExtent()[5]+5)
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pad_filter.Update()
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writer = vtk.vtkXMLImageDataWriter()
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writer.SetFileName(work_dir + "/surface/itk_tile_0_2_6_pad.vti")
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writer.SetInputConnection(pad_filter.GetOutputPort())
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writer.Update()
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myArguments = 'vmtklevelsetsegmentation -ifile ' + work_dir + "/surface/itk_tile_0_2_6_pad.vti" + ' -ofile ' + output_path+"/itk_tile_0_2_6_ls.vti"
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myPype = pypes.PypeRun(myArguments)
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myArguments = 'vmtkmarchingcubes -ifile ' + output_path+"/itk_tile_0_2_6_ls.vti" + ' -ofile ' + output_path+"/itk_tile_0_2_6_model.vtp"
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myPype = pypes.PypeRun(myArguments)
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