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#!/usr/bin/env python
## Program: VMTK
## Module: $RCSfile: vmtkdelaunayvoronoi.py,v $
## Language: Python
## Date: $Date: 2006/07/17 09:52:56 $
## Version: $Revision: 1.20 $
## Copyright (c) Luca Antiga, David Steinman. All rights reserved.
## See LICENCE file for details.
## This software is distributed WITHOUT ANY WARRANTY; without even
## the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
## PURPOSE. See the above copyright notices for more information.
import vtk
import sys
import vtkvmtk
import vmtkrenderer
import pypes
vmtkdelaunayvoronoi = 'vmtkDelaunayVoronoi'
class vmtkNonManifoldSurfaceChecker(object):
def __init__(self):
self.Surface = 0
self.NumberOfNonManifoldEdges = 0
self.Report = 0
self.NonManifoldEdgePointIds = vtk.vtkIdList()
self.PrintError = None
def Execute(self):
if (self.Surface == 0):
self.PrintError('NonManifoldSurfaceChecker error: Surface not set')
return
self.NonManifoldEdgesFound = 0
self.Report = ''
self.NonManifoldEdgePointIds.Initialize()
neighborhoods = vtkvmtk.vtkvmtkNeighborhoods()
neighborhoods.SetNeighborhoodTypeToPolyDataManifoldNeighborhood()
neighborhoods.SetDataSet(self.Surface)
neighborhoods.Build()
neighborCellIds = vtk.vtkIdList()
cellPointIds = vtk.vtkIdList()
self.Surface.BuildCells()
self.Surface.BuildLinks(0)
self.Surface.Update()
numberOfNonManifoldEdges = 0
for i in range(neighborhoods.GetNumberOfNeighborhoods()):
neighborhood = neighborhoods.GetNeighborhood(i)
for j in range(neighborhood.GetNumberOfPoints()):
neighborId = neighborhood.GetPointId(j)
if (i<neighborId):
neighborCellIds.Initialize()
self.Surface.GetCellEdgeNeighbors(-1,i,neighborId,neighborCellIds)
if (neighborCellIds.GetNumberOfIds()>2):
numberOfNonManifoldEdges = numberOfNonManifoldEdges + 1
self.Report = self.Report + "Non-manifold edge found" + str(i) + ' ' + str(neighborId) + '.\n'
self.NonManifoldEdgePointIds.InsertNextId(i)
self.NonManifoldEdgePointIds.InsertNextId(neighborId)
class vmtkDelaunayVoronoi(pypes.pypeScript):
def __init__(self):
pypes.pypeScript.__init__(self)
self.Surface = None
self.FlipNormals = 0
self.CapDisplacement = 0.0
self.RadiusArrayName = 'MaximumInscribedSphereRadius'
self.CheckNonManifold = 0
self.RemoveSubresolutionTetrahedra = 0
self.SubresolutionFactor = 1.0
self.SimplifyVoronoi = 0
self.UseTetGen = 0
self.TetGenDetectInter = 1
self.DelaunayTessellation = None
self.VoronoiDiagram = None
self.PoleIds = None
self.SetScriptName('vmtkdelaunayvoronoi')
self.SetScriptDoc('')
self.SetInputMembers([
['Surface','i','vtkPolyData',1,'','the input surface','vmtksurfacereader'],
['CheckNonManifold','nonmanifoldcheck','bool',1,'','toggle checking the surface for non-manifold edges'],
['FlipNormals','flipnormals','bool',1,'','flip normals after outward normal computation; outward oriented normals must be computed for the removal of outer tetrahedra; the algorithm might fail so for weird geometries, so changing this might solve the problem'],
['CapDisplacement','capdisplacement','float',1,'','displacement of the center points of caps at open profiles along their normals (avoids the creation of degenerate tetrahedra)'],
['RadiusArrayName','radiusarray','str',1,'','name of the array where radius values of maximal inscribed spheres have to be stored'],
['DelaunayTessellation','delaunaytessellation','vtkUnstructuredGrid',1,'','optional input Delaunay tessellation'],
['RemoveSubresolutionTetrahedra','removesubresolution','bool',1,'','toggle removal of subresolution tetrahedra from Delaunay tessellation'],
['SubresolutionFactor','subresolutionfactor','float',1,'(0.0,)','factor for removal of subresolution tetrahedra, expressing the size of the circumsphere relative to the local edge length size of surface triangles'],
['SimplifyVoronoi','simplifyvoronoi','bool',1,'','toggle simplification of Voronoi diagram'],
['UseTetGen','usetetgen','bool',1,'','toggle use TetGen to compute Delaunay tessellation'],
['TetGenDetectInter','tetgendetectinter','bool',1,'','TetGen option']])
self.SetOutputMembers([
['RadiusArrayName','radiusarray','str',1,'','name of the array where radius values of maximal inscribed spheres are stored'],
['DelaunayTessellation','delaunaytessellation','vtkUnstructuredGrid',1,'','','vmtkmeshwriter'],
['VoronoiDiagram','voronoidiagram','vtkPolyData',1,'','','vmtksurfacewriter'],
['PoleIds','poleids','vtkIdList',1]])
def Execute(self):
if self.Surface == None:
self.PrintError('Error: No input surface.')
if self.CheckNonManifold:
self.PrintLog('NonManifold check.')
nonManifoldChecker = vmtkNonManifoldSurfaceChecker()
nonManifoldChecker.Surface = self.Surface
nonManifoldChecker.PrintError = self.PrintError
nonManifoldChecker.Execute()
if nonManifoldChecker.NumberOfNonManifoldEdges > 0:
self.PrintLog(nonManifoldChecker.Report)
return
self.PrintLog('Cleaning surface.')
surfaceCleaner = vtk.vtkCleanPolyData()
surfaceCleaner.SetInput(self.Surface)
surfaceCleaner.Update()
self.PrintLog('Triangulating surface.')
surfaceTriangulator = vtk.vtkTriangleFilter()
surfaceTriangulator.SetInput(surfaceCleaner.GetOutput())
surfaceTriangulator.PassLinesOff()
surfaceTriangulator.PassVertsOff()
surfaceTriangulator.Update()
surfaceCapper = vtkvmtk.vtkvmtkCapPolyData()
surfaceCapper.SetInput(surfaceTriangulator.GetOutput())
surfaceCapper.SetDisplacement(self.CapDisplacement)
surfaceCapper.SetInPlaneDisplacement(self.CapDisplacement)
surfaceCapper.Update()
capCenterIds = surfaceCapper.GetCapCenterIds()
surfaceNormals = vtk.vtkPolyDataNormals()
surfaceNormals.SetInput(surfaceCapper.GetOutput())
surfaceNormals.SplittingOff()
surfaceNormals.AutoOrientNormalsOn()
surfaceNormals.SetFlipNormals(self.FlipNormals)
surfaceNormals.ComputePointNormalsOn()
surfaceNormals.ConsistencyOn()
surfaceNormals.Update()
inputSurface = surfaceNormals.GetOutput()
if self.UseTetGen:
self.PrintLog('Running TetGen.')
import vmtkscripts
surfaceToMesh = vmtkscripts.vmtkSurfaceToMesh()
surfaceToMesh.Surface = inputSurface
surfaceToMesh.Execute()
tetgen = vmtkscripts.vmtkTetGen()
tetgen.Mesh = surfaceToMesh.Mesh
tetgen.PLC = 1
tetgen.NoMerge = 1
tetgen.Quality = 0
if self.TetGenDetectInter:
tetgen.DetectInter = 1
tetgen.NoMerge = 0
tetgen.OutputSurfaceElements = 0
tetgen.Execute()
self.DelaunayTessellation = tetgen.Mesh
else:
delaunayTessellator = vtk.vtkDelaunay3D()
delaunayTessellator.CreateDefaultLocator()
delaunayTessellator.SetInput(surfaceNormals.GetOutput())
delaunayTessellator.Update()
self.DelaunayTessellation = delaunayTessellator.GetOutput()
normalsArray = surfaceNormals.GetOutput().GetPointData().GetNormals()
self.DelaunayTessellation.GetPointData().AddArray(normalsArray)
internalTetrahedraExtractor = vtkvmtk.vtkvmtkInternalTetrahedraExtractor()
internalTetrahedraExtractor.SetInput(self.DelaunayTessellation)
internalTetrahedraExtractor.SetOutwardNormalsArrayName(normalsArray.GetName())
if self.RemoveSubresolutionTetrahedra:
internalTetrahedraExtractor.RemoveSubresolutionTetrahedraOn()
internalTetrahedraExtractor.SetSubresolutionFactor(self.SubresolutionFactor)
internalTetrahedraExtractor.SetSurface(inputSurface)
if capCenterIds.GetNumberOfIds() > 0:
internalTetrahedraExtractor.UseCapsOn()
internalTetrahedraExtractor.SetCapCenterIds(capCenterIds)
internalTetrahedraExtractor.Update()
self.DelaunayTessellation = internalTetrahedraExtractor.GetOutput()
voronoiDiagramFilter = vtkvmtk.vtkvmtkVoronoiDiagram3D()
voronoiDiagramFilter.SetInput(self.DelaunayTessellation)
voronoiDiagramFilter.SetRadiusArrayName(self.RadiusArrayName)
voronoiDiagramFilter.Update()
self.PoleIds = voronoiDiagramFilter.GetPoleIds()
self.VoronoiDiagram = voronoiDiagramFilter.GetOutput()
if self.SimplifyVoronoi:
voronoiDiagramSimplifier = vtkvmtk.vtkvmtkSimplifyVoronoiDiagram()
voronoiDiagramSimplifier.SetInput(voronoiDiagramFilter.GetOutput())
voronoiDiagramSimplifier.SetUnremovablePointIds(voronoiDiagramFilter.GetPoleIds())
voronoiDiagramSimplifier.Update()
self.VoronoiDiagram = voronoiDiagramSimplifier.GetOutput()
if __name__=='__main__':
main = pypes.pypeMain()
main.Arguments = sys.argv
main.Execute()
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