def update_nonrigid_grid(self):
"""This updates the nonrigid grid. Subject data must be added first.
"""
# create the bspline transform from this displacement field
vtktrans = wma.register_two_subjects_nonrigid_bsplines.convert_transform_to_vtk(
self.transform_as_array)
# now compute a new displacement field from the transform, using the new grid resolution
# This code always uses a grid of 200mm x 200mm x 200mm
size_mm = 200.0
dims = self.nonrigid_grid_resolution
spacing = size_mm / (dims - 1)
origin = -size_mm / 2.0
grid = vtk.vtkTransformToGrid()
grid.SetGridOrigin(origin, origin, origin)
grid.SetGridSpacing(spacing, spacing, spacing)
grid.SetGridExtent(0, dims - 1, 0, dims - 1, 0, dims - 1)
grid.SetGridScalarTypeToFloat()
grid.SetInput(vtktrans)
grid.Update()
# convert the vtkImageData displacement field back to a numpy object
displacement_field_vtk = grid.GetOutput()
#print displacement_field_vtk.GetPointData().GetArray(0)
newtrans = vtk.util.numpy_support.vtk_to_numpy(
displacement_field_vtk.GetPointData().GetArray(0)).ravel()
#print newtrans.shape
print("UPDATE NONRIGID GRID: ",
self.nonrigid_grid_resolution,
len(self.transform_as_array),
"==>",
len(newtrans),
end=' ')
self.transform_as_array = newtrans
def update_nonrigid_grid(self):
"""This updates the nonrigid grid. Subject data must be added first.
"""
# create the bspline transform from this displacement field
vtktrans = wma.register_two_subjects_nonrigid_bsplines.convert_transform_to_vtk(self.transform_as_array)
# now compute a new displacement field from the transform, using the new grid resolution
# This code always uses a grid of 200mm x 200mm x 200mm
size_mm = 200.0
dims = self.nonrigid_grid_resolution
spacing = size_mm / (dims - 1)
origin = -size_mm / 2.0
grid = vtk.vtkTransformToGrid()
grid.SetGridOrigin(origin, origin, origin)
grid.SetGridSpacing(spacing, spacing, spacing)
grid.SetGridExtent(0, dims-1, 0, dims-1, 0, dims-1)
grid.SetGridScalarTypeToFloat()
grid.SetInput(vtktrans)
grid.Update()
# convert the vtkImageData displacement field back to a numpy object
displacement_field_vtk = grid.GetOutput()
#print displacement_field_vtk.GetPointData().GetArray(0)
newtrans = vtk.util.numpy_support.vtk_to_numpy(displacement_field_vtk.GetPointData().GetArray(0)).ravel()
#print newtrans.shape
print "UPDATE NONRIGID GRID: ", self.nonrigid_grid_resolution, len(self.transform_as_array), "==>", len(newtrans),
self.transform_as_array = newtrans
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(
self, module_manager,
vtk.vtkTransformToGrid(), 'Processing.',
(), ('vtkImageData',),
replaceDoc=True,
inputFunctions=None, outputFunctions=None)
def __init__(self, module_manager):
SimpleVTKClassModuleBase.__init__(self,
module_manager,
vtk.vtkTransformToGrid(),
'Processing.', (),
('vtkImageData', ),
replaceDoc=True,
inputFunctions=None,
outputFunctions=None)
def onExportGrid(self):
"""Converts the current thin plate transform to a grid"""
self.hotUpdateButton = None
state = self.registrationState()
# since the transform is ras-to-ras, we find the extreme points
# in ras space of the fixed (target) volume and fix the unoriented
# box around it. Sample the grid transform at the resolution of
# the fixed volume, which may be a bit overkill but it should aways
# work without too much loss.
rasBounds = [
0,
] * 6
state.fixed.GetRASBounds(rasBounds)
from math import floor, ceil
origin = list(map(int, map(floor, rasBounds[::2])))
maxes = list(map(int, map(ceil, rasBounds[1::2])))
boundSize = [m - o for m, o in zip(maxes, origin)]
spacing = state.fixed.GetSpacing()
samples = [ceil(int(b / s)) for b, s in zip(boundSize, spacing)]
extent = [
0,
] * 6
extent[::2] = [
0,
] * 3
extent[1::2] = samples
extent = list(map(int, extent))
toGrid = vtk.vtkTransformToGrid()
toGrid.SetGridOrigin(origin)
toGrid.SetGridSpacing(state.fixed.GetSpacing())
toGrid.SetGridExtent(extent)
toGrid.SetInput(
state.transform.GetTransformFromParent()) # same in VTKv 5 & 6
toGrid.Update()
gridTransform = slicer.vtkOrientedGridTransform()
if vtk.VTK_MAJOR_VERSION < 6:
gridTransform.SetDisplacementGrid(
toGrid.GetOutput()) # different in VTKv 5 & 6
else:
gridTransform.SetDisplacementGridData(toGrid.GetOutput())
gridNode = slicer.vtkMRMLGridTransformNode()
gridNode.SetAndObserveTransformFromParent(gridTransform)
gridNode.SetName(state.transform.GetName() + "-grid")
slicer.mrmlScene.AddNode(gridNode)
def onExportGrid(self):
"""Converts the current thin plate transform to a grid"""
state = self.registationState()
# since the transform is ras-to-ras, we find the extreme points
# in ras space of the fixed (target) volume and fix the unoriented
# box around it. Sample the grid transform at the resolution of
# the fixed volume, which may be a bit overkill but it should aways
# work without too much loss.
rasBounds = [0,]*6
state.fixed.GetRASBounds(rasBounds)
from math import floor, ceil
origin = map(int,map(floor,rasBounds[::2]))
maxes = map(int,map(ceil,rasBounds[1::2]))
boundSize = [m - o for m,o in zip(maxes,origin) ]
spacing = state.fixed.GetSpacing()
samples = [ceil(b / s) for b,s in zip(boundSize,spacing)]
extent = [0,]*6
extent[::2] = [0,]*3
extent[1::2] = samples
extent = map(int,extent)
toGrid = vtk.vtkTransformToGrid()
toGrid.SetGridOrigin(origin)
toGrid.SetGridSpacing(state.fixed.GetSpacing())
toGrid.SetGridExtent(extent)
toGrid.SetInput(state.transform.GetTransformFromParent()) # same in VTKv 5 & 6
toGrid.Update()
gridTransform = vtk.vtkGridTransform()
if vtk.VTK_MAJOR_VERSION < 6:
gridTransform.SetDisplacementGrid(toGrid.GetOutput()) # different in VTKv 5 & 6
else:
gridTransform.SetDisplacementGridData(toGrid.GetOutput())
gridNode = slicer.vtkMRMLGridTransformNode()
gridNode.SetAndObserveTransformFromParent(gridTransform)
gridNode.SetName(state.transform.GetName()+"-grid")
slicer.mrmlScene.AddNode(gridNode)
def update_nonrigid_grid(self):
"""This updates the nonrigid grids. Subjects must be added first using
add_polydata.
"""
# Apply the existing transform to the new grid
new_transforms = list()
for trans in self.transforms_as_array:
# create the bspline transform from this displacement field
vtktrans = wma.register_two_subjects_nonrigid_bsplines.convert_transform_to_vtk(trans)
# now compute a new displacement field from the transform, using the new grid resolution
# This code always uses a grid of 240mm x 240mm x 240mm
# This MUST correspond to the size used in register_two_subjects_nonrigid_bsplines convert_transform_to_vtk
#size_mm = 240.0
size_mm = 200.0
dims = self.nonrigid_grid_resolution
spacing = size_mm / (dims - 1)
origin = -size_mm / 2.0
grid = vtk.vtkTransformToGrid()
grid.SetGridOrigin(origin, origin, origin)
grid.SetGridSpacing(spacing, spacing, spacing)
grid.SetGridExtent(0, dims-1, 0, dims-1, 0, dims-1)
grid.SetGridScalarTypeToFloat()
grid.SetInput(vtktrans)
grid.Update()
# convert the vtkImageData displacement field back to a numpy object
displacement_field_vtk = grid.GetOutput()
#print displacement_field_vtk.GetPointData().GetArray(0)
newtrans = vtk.util.numpy_support.vtk_to_numpy(displacement_field_vtk.GetPointData().GetArray(0))
#print newtrans.shape
new_transforms.append(newtrans.ravel())
# Update all the relevant variables (the spline transform does not change but all source and target points do)
print "UPDATE NONRIGID GRID: ", self.nonrigid_grid_resolution, len(trans), "==>", len(new_transforms[-1]), "SHAPE:", newtrans.shape, "GRID:", grid
self.transforms_as_array = new_transforms
def update_nonrigid_grid(self):
"""This updates the nonrigid grids. Subjects must be added first using
add_polydata.
"""
# Apply the existing transform to the new grid
new_transforms = list()
for trans in self.transforms_as_array:
# create the bspline transform from this displacement field
vtktrans = wma.register_two_subjects_nonrigid_bsplines.convert_transform_to_vtk(trans)
# now compute a new displacement field from the transform, using the new grid resolution
# This code always uses a grid of 240mm x 240mm x 240mm
# This MUST correspond to the size used in register_two_subjects_nonrigid_bsplines convert_transform_to_vtk
#size_mm = 240.0
size_mm = 200.0
dims = self.nonrigid_grid_resolution
spacing = size_mm / (dims - 1)
origin = -size_mm / 2.0
grid = vtk.vtkTransformToGrid()
grid.SetGridOrigin(origin, origin, origin)
grid.SetGridSpacing(spacing, spacing, spacing)
grid.SetGridExtent(0, dims-1, 0, dims-1, 0, dims-1)
grid.SetGridScalarTypeToFloat()
grid.SetInput(vtktrans)
grid.Update()
# convert the vtkImageData displacement field back to a numpy object
displacement_field_vtk = grid.GetOutput()
#print displacement_field_vtk.GetPointData().GetArray(0)
newtrans = vtk.util.numpy_support.vtk_to_numpy(displacement_field_vtk.GetPointData().GetArray(0))
#print newtrans.shape
new_transforms.append(newtrans.ravel())
# Update all the relevant variables (the spline transform does not change but all source and target points do)
print "UPDATE NONRIGID GRID: ", self.nonrigid_grid_resolution, len(trans), "==>", len(new_transforms[-1]), "SHAPE:", newtrans.shape, "GRID:", grid
self.transforms_as_array = new_transforms
p2 = vtk.vtkPoints() p2.SetNumberOfPoints(8) p2.SetPoint(0, 0, 0, 0) p2.SetPoint(1, 0, 255, 0) p2.SetPoint(2, 255, 0, 0) p2.SetPoint(3, 255, 255, 0) p2.SetPoint(4, 96, 159, 0) p2.SetPoint(5, 159, 159, 0) p2.SetPoint(6, 159, 96, 0) p2.SetPoint(7, 96, 96, 0) thinPlate = vtk.vtkThinPlateSplineTransform() thinPlate.SetSourceLandmarks(p2) thinPlate.SetTargetLandmarks(p1) thinPlate.SetBasisToR2LogR() # convert the thin plate spline into a grid transformToGrid = vtk.vtkTransformToGrid() transformToGrid.SetInput(thinPlate) transformToGrid.SetGridSpacing(16, 16, 1) transformToGrid.SetGridOrigin(-0.5, -0.5, 0) transformToGrid.SetGridExtent(0, 16, 0, 16, 0, 0) transformToGrid.Update() transform = vtk.vtkGridTransform() transform.SetDisplacementGridConnection(transformToGrid.GetOutputPort()) transform.SetInterpolationModeToCubic() # you must invert the transform before passing it to vtkImageReslice transform.Inverse() # apply the grid warp to the image reslice = vtk.vtkImageReslice() reslice.SetInputConnection(blend.GetOutputPort()) reslice.SetResliceTransform(transform) reslice.SetInterpolationModeToLinear()
p2.InsertNextPoint(-100,100,-50) p1.InsertNextPoint(-100,100,50) p2.InsertNextPoint(-100,100,50) p1.InsertNextPoint(100,-100,-50) p2.InsertNextPoint(100,-100,-50) p1.InsertNextPoint(100,-100,50) p2.InsertNextPoint(100,-100,50) p1.InsertNextPoint(100,100,-50) p2.InsertNextPoint(100,100,-50) p1.InsertNextPoint(100,100,50) p2.InsertNextPoint(100,100,50) transform = vtk.vtkThinPlateSplineTransform() transform.SetSourceLandmarks(p1) transform.SetTargetLandmarks(p2) transform.SetBasisToR() gridThinPlate = vtk.vtkTransformToGrid() gridThinPlate.SetInput(transform) gridThinPlate.SetGridExtent(0,64,0,64,0,50) gridThinPlate.SetGridSpacing(3.2,3.2,3.0) gridThinPlate.SetGridOrigin(-102.4,-102.4,-75) gridThinPlate.SetGridScalarTypeToUnsignedChar() gridThinPlate.Update() gridTransform = vtk.vtkGridTransform() gridTransform.SetDisplacementGridData(gridThinPlate.GetOutput()) gridTransform.SetDisplacementShift(gridThinPlate.GetDisplacementShift()) gridTransform.SetDisplacementScale(gridThinPlate.GetDisplacementScale()) reslice = vtk.vtkImageReslice() reslice.SetInputConnection(reader.GetOutputPort()) reslice.SetResliceTransform(gridTransform) reslice.SetInterpolationModeToLinear() reslice.SetOutputSpacing(1,1,1)
f12.SetTransform(t1.GetInverse()) m12 = vtk.vtkDataSetMapper() m12.SetInputConnection(f12.GetOutputPort()) a12 = vtk.vtkActor() a12.SetMapper(m12) a12.RotateY(90) a12.GetProperty().SetColor(0.9,0.9,0) #[a12 GetProperty] SetRepresentationToWireframe ren12 = vtk.vtkRenderer() ren12.SetViewport(0.0,0.0,0.25,0.5) ren12.ResetCamera(-0.5,0.5,-0.5,0.5,-1,1) ren12.AddActor(a12) renWin.AddRenderer(ren12) #-------------------------- # grid transform, cubic interpolation gridTrans = vtk.vtkTransformToGrid() gridTrans.SetInput(t1) gridTrans.SetGridOrigin(-1.5,-1.5,-1.5) gridTrans.SetGridExtent(0,60,0,60,0,60) gridTrans.SetGridSpacing(0.05,0.05,0.05) t2 = vtk.vtkGridTransform() t2.SetDisplacementGridConnection(gridTrans.GetOutputPort()) t2.SetInterpolationModeToCubic() f21 = vtk.vtkTransformPolyDataFilter() f21.SetInputConnection(ap.GetOutputPort()) f21.SetTransform(t2) m21 = vtk.vtkDataSetMapper() m21.SetInputConnection(f21.GetOutputPort()) a21 = vtk.vtkActor() a21.SetMapper(m21) a21.RotateY(90)
p2.InsertNextPoint(-100, 100, -50) p1.InsertNextPoint(-100, 100, 50) p2.InsertNextPoint(-100, 100, 50) p1.InsertNextPoint(100, -100, -50) p2.InsertNextPoint(100, -100, -50) p1.InsertNextPoint(100, -100, 50) p2.InsertNextPoint(100, -100, 50) p1.InsertNextPoint(100, 100, -50) p2.InsertNextPoint(100, 100, -50) p1.InsertNextPoint(100, 100, 50) p2.InsertNextPoint(100, 100, 50) transform = vtk.vtkThinPlateSplineTransform() transform.SetSourceLandmarks(p1) transform.SetTargetLandmarks(p2) transform.SetBasisToR() gridThinPlate = vtk.vtkTransformToGrid() gridThinPlate.SetInput(transform) gridThinPlate.SetGridExtent(0, 64, 0, 64, 0, 50) gridThinPlate.SetGridSpacing(3.2, 3.2, 3.0) gridThinPlate.SetGridOrigin(-102.4, -102.4, -75) gridThinPlate.SetGridScalarTypeToUnsignedChar() gridThinPlate.Update() gridTransform = vtk.vtkGridTransform() gridTransform.SetDisplacementGridData(gridThinPlate.GetOutput()) gridTransform.SetDisplacementShift(gridThinPlate.GetDisplacementShift()) gridTransform.SetDisplacementScale(gridThinPlate.GetDisplacementScale()) reslice = vtk.vtkImageReslice() reslice.SetInputConnection(reader.GetOutputPort()) reslice.SetResliceTransform(gridTransform) reslice.SetInterpolationModeToLinear() reslice.SetOutputSpacing(1, 1, 1)
p2.SetPoint(0,0,0,0) p2.SetPoint(1,0,255,0) p2.SetPoint(2,255,0,0) p2.SetPoint(3,255,255,0) p2.SetPoint(4,96,159,0) p2.SetPoint(5,159,159,0) p2.SetPoint(6,159,96,0) p2.SetPoint(7,96,96,0) thinPlate = vtk.vtkThinPlateSplineTransform() thinPlate.SetSourceLandmarks(p2) thinPlate.SetTargetLandmarks(p1) thinPlate.SetBasisToR2LogR() # convert the thin plate spline into a grid # for nearest neighbor interpolation, the grid should precicely # overlay the image you want to warp transformToGrid = vtk.vtkTransformToGrid() transformToGrid.SetInput(thinPlate) transformToGrid.SetGridSpacing(1,1,1) transformToGrid.SetGridOrigin(0,0,0) transformToGrid.SetGridExtent(0,255,0,255,0,0) transformToGrid.Update() transform = vtk.vtkGridTransform() transform.SetDisplacementGridConnection(transformToGrid.GetOutputPort()) transform.SetInterpolationModeToNearestNeighbor() # must lower the tolerance or it won't invert transform.SetInverseTolerance(2.0) # you must invert the transform before passing it to vtkImageReslice transform.Inverse() # apply the grid warp to the image reslice = vtk.vtkImageReslice() reslice.SetInputConnection(blend.GetOutputPort())
def __init__(self):
ActorFactory.ActorFactory.__init__(self)
# whether to display the volume
self._ShowVolume = 1
self._StatusChange = 0
# create a clipping cube to go with the volume
self._ClippingCube = ClippingCubeFactory.ClippingCubeFactory()
self.AddChild(self._ClippingCube)
self._CubeClippingPlanes = vtk.vtkPlaneCollection()
for i in range(6):
self._CubeClippingPlanes.AddItem(vtk.vtkPlane())
# for if we clip in with OrthoPlanes
self._OrthoPlanes = None
self._ShowOrthoPlanes = 1
self._OrthoPlanesLookupTables = {}
self._OrthoPickThreshold = 0.0025
# corner clipping planes, in pairs with opposite normals
self._CornerClippingPlanes = vtk.vtkPlaneCollection()
for i in range(6):
self._CornerClippingPlanes.AddItem(vtk.vtkPlane())
# clipping planes for the volume, sorted for the
# three chunks that will make up the final volume
self._ClippingPlanes = [
vtk.vtkPlaneCollection(),
vtk.vtkPlaneCollection(),
vtk.vtkPlaneCollection()
]
for i in range(3):
planes = self._ClippingPlanes[i]
cplanes = self._CornerClippingPlanes
bplanes = self._CubeClippingPlanes
if i == 0:
planes.AddItem(cplanes.GetItemAsObject(0))
planes.AddItem(bplanes.GetItemAsObject(1))
planes.AddItem(bplanes.GetItemAsObject(2))
planes.AddItem(bplanes.GetItemAsObject(3))
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(0))
planes.AddItem(cplanes.GetItemAsObject(1))
if i == 1:
planes.AddItem(cplanes.GetItemAsObject(2))
planes.AddItem(bplanes.GetItemAsObject(3))
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(2))
planes.AddItem(cplanes.GetItemAsObject(3))
if i == 2:
planes.AddItem(cplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
self._Input = None
# generate the pipeline
self._ImagePrefilter = vtk.vtkImageShrink3D()
self._ImageReslice = vtk.vtkImageReslice()
self._ImageReslice.SetInterpolationModeToLinear()
self._ImageMapToColors = vtk.vtkImageMapToColors()
self._ImageMapToColors.SetOutputFormatToRGBA()
self._ImageToStructuredPoints = vtk.vtkImageToStructuredPoints()
self._ImageClipsXY = []
self._PlanesXY = []
self._ActorsXY = []
self._PropertyXY = vtk.vtkProperty()
self._PropertyXY.SetDiffuse(0)
self._PropertyXY.SetAmbient(1)
self._ImageClipsYZ = []
self._PlanesYZ = []
self._ActorsYZ = []
self._PropertyYZ = vtk.vtkProperty()
self._PropertyYZ.SetDiffuse(0)
self._PropertyYZ.SetAmbient(1)
self._ImageClipsZX = []
self._PlanesZX = []
self._ActorsZX = []
self._PropertyZX = vtk.vtkProperty()
self._PropertyZX.SetDiffuse(0)
self._PropertyZX.SetAmbient(1)
# a list of the renderer info
self._RendererCurrentIndex = {}
self._RendererActorList = {}
self._RendererObserverList = {}
# a transform to apply to the image
self._ImageTransform = None
self._TransformToGrid = vtk.vtkTransformToGrid()
# the alpha pick threshold for the volume
self._PickThreshold = 0.25
# the implicit volume for finding the gradient
self._ImplicitVolume = vtk.vtkImplicitVolume()
# the extent of the texture maps
self._VolumeResolution = (64, 64, 64)
# the bounds of the volume
self._VolumeBounds = None
def __init__(self):
ActorFactory.ActorFactory.__init__(self)
# whether to display the volume
self._ShowVolume = 1
self._StatusChange = 0
# create a clipping cube to go with the volume
self._ClippingCube = ClippingCubeFactory.ClippingCubeFactory()
self.AddChild(self._ClippingCube)
self._CubeClippingPlanes = vtk.vtkPlaneCollection()
for i in range(6):
self._CubeClippingPlanes.AddItem(vtk.vtkPlane())
# for if we clip in with OrthoPlanes
self._OrthoPlanes = None
self._ShowOrthoPlanes = 1
self._OrthoPlanesLookupTables = {}
self._OrthoPickThreshold = 0.0025
# corner clipping planes, in pairs with opposite normals
self._CornerClippingPlanes = vtk.vtkPlaneCollection()
for i in range(6):
self._CornerClippingPlanes.AddItem(vtk.vtkPlane())
# clipping planes for the volume, sorted for the
# three chunks that will make up the final volume
self._ClippingPlanes = [vtk.vtkPlaneCollection(),
vtk.vtkPlaneCollection(),
vtk.vtkPlaneCollection()]
for i in range(3):
planes = self._ClippingPlanes[i]
cplanes = self._CornerClippingPlanes
bplanes = self._CubeClippingPlanes
if i == 0:
planes.AddItem(cplanes.GetItemAsObject(0))
planes.AddItem(bplanes.GetItemAsObject(1))
planes.AddItem(bplanes.GetItemAsObject(2))
planes.AddItem(bplanes.GetItemAsObject(3))
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(0))
planes.AddItem(cplanes.GetItemAsObject(1))
if i == 1:
planes.AddItem(cplanes.GetItemAsObject(2))
planes.AddItem(bplanes.GetItemAsObject(3))
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(2))
planes.AddItem(cplanes.GetItemAsObject(3))
if i == 2:
planes.AddItem(cplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
self._Input = None
# generate the pipeline
self._ImagePrefilter = vtk.vtkImageShrink3D()
self._ImageReslice = vtk.vtkImageReslice()
self._ImageReslice.SetInterpolationModeToLinear()
self._ImageMapToColors = vtk.vtkImageMapToColors()
self._ImageMapToColors.SetOutputFormatToRGBA()
self._ImageToStructuredPoints = vtk.vtkImageToStructuredPoints()
self._ImageClipsXY = []
self._PlanesXY = []
self._ActorsXY = []
self._PropertyXY = vtk.vtkProperty()
self._PropertyXY.SetDiffuse(0)
self._PropertyXY.SetAmbient(1)
self._ImageClipsYZ = []
self._PlanesYZ = []
self._ActorsYZ = []
self._PropertyYZ = vtk.vtkProperty()
self._PropertyYZ.SetDiffuse(0)
self._PropertyYZ.SetAmbient(1)
self._ImageClipsZX = []
self._PlanesZX = []
self._ActorsZX = []
self._PropertyZX = vtk.vtkProperty()
self._PropertyZX.SetDiffuse(0)
self._PropertyZX.SetAmbient(1)
# a list of the renderer info
self._RendererCurrentIndex = {}
self._RendererActorList = {}
self._RendererObserverList = {}
# a transform to apply to the image
self._ImageTransform = None
self._TransformToGrid = vtk.vtkTransformToGrid()
# the alpha pick threshold for the volume
self._PickThreshold = 0.25
# the implicit volume for finding the gradient
self._ImplicitVolume = vtk.vtkImplicitVolume()
# the extent of the texture maps
self._VolumeResolution = (64, 64, 64)
# the bounds of the volume
self._VolumeBounds = None
def __init__(self):
ActorFactory.ActorFactory.__init__(self)
self._LookupTable = None # lookup table is currently not used
self._ColorTransferFunction = None
self._OpacityTransferFunction = None
self._RendererObserverList = {}
# create a clipping cube to go with the volume
self._ClippingCube = ClippingCubeFactory.ClippingCubeFactory()
self.AddChild(self._ClippingCube)
self._CubeClippingPlanes = vtk.vtkPlaneCollection()
for i in range(6):
self._CubeClippingPlanes.AddItem(vtk.vtkPlane())
# corner clipping planes, in pairs with opposite normals
self._CornerClippingPlanes = vtk.vtkPlaneCollection()
for i in range(6):
self._CornerClippingPlanes.AddItem(vtk.vtkPlane())
# clipping planes for the volume, sorted for the
# three chunks that will make up the final volume
# (these are currently unused)
self._ClippingPlanes = [vtk.vtkPlaneCollection(),
vtk.vtkPlaneCollection(),
vtk.vtkPlaneCollection()]
for i in range(3):
planes = self._ClippingPlanes[i]
cplanes = self._CornerClippingPlanes
bplanes = self._CubeClippingPlanes
if i == 0:
planes.AddItem(cplanes.GetItemAsObject(0))
planes.AddItem(bplanes.GetItemAsObject(1))
planes.AddItem(bplanes.GetItemAsObject(2))
planes.AddItem(bplanes.GetItemAsObject(3))
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(0))
planes.AddItem(cplanes.GetItemAsObject(1))
if i == 1:
planes.AddItem(cplanes.GetItemAsObject(2))
planes.AddItem(bplanes.GetItemAsObject(3))
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(2))
planes.AddItem(cplanes.GetItemAsObject(3))
if i == 2:
planes.AddItem(cplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
else:
planes.AddItem(bplanes.GetItemAsObject(4))
planes.AddItem(bplanes.GetItemAsObject(5))
# generate the pipeline pieces
self._Input = None
# transform the full-resolution volume
self._RayCastReslice = vtk.vtkImageReslice()
self._RayCastReslice.SetInterpolationModeToLinear()
# subsample the volume for low-res rendering
self._ImagePrefilter1 = vtk.vtkImageShrink3D()
self._ImagePrefilter2 = vtk.vtkImageShrink3D()
# transform the subsampled volume
self._ImageReslice1 = vtk.vtkImageReslice()
self._ImageReslice1.SetInterpolationModeToLinear()
self._ImageReslice2 = vtk.vtkImageReslice()
self._ImageReslice2.SetInterpolationModeToLinear()
# convert to RGBA for rendering (unused)
self._ImageMapToColors = vtk.vtkImageMapToColors()
self._ImageMapToColors.SetOutputFormatToRGBA()
# strictly for VTK 3.2 compatibility
self._ImageToStructuredPoints = vtk.vtkImageToStructuredPoints()
# a transform to apply to the image
self._ImageTransform = None
self._TransformToGrid = vtk.vtkTransformToGrid()
# the opacity pick threshold for the volume
self._PickThreshold = 0.99
# the implicit volume for finding the gradient
self._ImplicitVolume = vtk.vtkImplicitVolume()
# the texture dimensions (later this will be set automatically
# to provide the desired interactive rendering time)
self._TextureSize = 128
# the bounds of the volume
self._VolumeBounds = None
# vtkVolume specific stuff
self._VolumeProperty = vtk.vtkVolumeProperty()
self._VolumeProperty.SetInterpolationTypeToLinear()
rayCastFunction = vtk.vtkVolumeRayCastCompositeFunction()
self._VolumeRayCastMapper = vtk.vtkVolumeRayCastMapper()
self._VolumeRayCastMapper.SetVolumeRayCastFunction(rayCastFunction)
self._VolumeRayCastMapper.SetClippingPlanes(
self._ClippingCube.GetClippingPlanes())
try: # vtk 3.2 does not contain this function call:
self._VolumeRayCastMapper.AutoAdjustSampleDistancesOff()
except:
pass
self._VolumeTextureMapper1 = vtk.vtkVolumeTextureMapper2D()
self._VolumeTextureMapper1.SetTargetTextureSize(old_div(self._TextureSize, 4),
old_div(self._TextureSize, 4))
self._VolumeTextureMapper1.SetMaximumNumberOfPlanes(
old_div(self._TextureSize, 2))
self._VolumeTextureMapper1.SetClippingPlanes(
self._ClippingCube.GetClippingPlanes())
try: # vtk 3.2 does not contain this function call:
# set to the amount of available texture memory (24MB is a good
# start)
self._VolumeTextureMapper1.SetMaximumStorageSize(24 * 1024 * 1024)
except:
pass
self._VolumeTextureMapper2 = vtk.vtkVolumeTextureMapper2D()
self._VolumeTextureMapper2.SetTargetTextureSize(self._TextureSize,
self._TextureSize)
self._VolumeTextureMapper2.SetMaximumNumberOfPlanes(self._TextureSize)
self._VolumeTextureMapper2.SetClippingPlanes(
self._ClippingCube.GetClippingPlanes())
try: # vtk 3.2 does not contain this function call:
# set to the amount of available texture memory (24MB is a good
# start)
self._VolumeTextureMapper2.SetMaximumStorageSize(24 * 1024 * 1024)
except:
pass
# set two levels of detail: texture and ray-casting
self._Volume = vtk.vtkLODProp3D()
self._Volume.PickableOff()
idT1 = self._Volume.AddLOD(self._VolumeTextureMapper1,
self._VolumeProperty,
0.02)
idT2 = self._Volume.AddLOD(self._VolumeTextureMapper2,
self._VolumeProperty,
0.1)
# remember these LOD id numbers
self._lod = [idT1, idT2]
# idRC = self._Volume.AddLOD(self._VolumeRayCastMapper,
# self._VolumeProperty,
# 2.0)
self._Volume.SetLODLevel(idT1, 2.0)
self._Volume.SetLODLevel(idT2, 1.0)
