def initVTK(self, key):
print "initializing VTK objects"
self.__setMinMaxRange(key)
self.__normalize(key)
# Create our Data object
vtk.vtkStructuredGrid()
self.vtkStructuredGrid = vtk.vtkStructuredGrid()
self.vtkStructuredGrid.SetDimensions([128]*3)
# Set up Points
self.vtkPoints = vtk.vtkPoints()
self.vtkPoints.Allocate(128*3)
# Set up Cells
# self.vtkCells = vtk.vtkCellArray()
# Setup the velocity vectors
self.vtkVectors = vtk.vtkDoubleArray()
self.vtkVectors.SetNumberOfComponents(3)
self.vtkVectors.SetNumberOfTuples(self.sdfIdent.size)
# Setup the Scalars
self.vtkScalars = vtk.vtkDoubleArray()
self.vtkScalars.SetName(key)
# Allocate points, cells, scalars, and vector fields
self.AllocateData(self.sdfIdent.size, key)
# Now attach newly allocated objects to the grid
self.vtkStructuredGrid.SetPoints(self.vtkPoints)
# self.vtkStructuredGrid.SetVerts(self.vtkCells)
self.vtkStructuredGrid.GetPointData().SetVectors(self.vtkVectors)
self.vtkStructuredGrid.GetPointData().SetScalars(self.vtkScalars)
self.vtkStructuredGrid.GetPointData().SetActiveScalars(key)
def createGrid(self,
cube,
pt,
color=(1., 1., 1.),
radius=1.0,
show_mesh_as_surface=False):
n0, n1 = cube.data.shape
sg = vtk.vtkStructuredGrid()
sg = vtk.vtkStructuredGrid()
sg.SetDimensions(1, n0, n1)
sg.SetPoints(pt)
mp, ac = None, None
# show mesh as a surface
if show_mesh_as_surface:
mp = vtk.vtkDataSetMapper()
mp.SetInputData(sg)
ac = vtk.vtkActor()
ac.SetMapper(mp)
# show the grid as tubes
ed = vtk.vtkExtractEdges()
et = vtk.vtkTubeFilter()
em = vtk.vtkPolyDataMapper()
ea = vtk.vtkActor()
et.SetRadius(0.01)
ed.SetInputData(sg)
et.SetInputConnection(ed.GetOutputPort())
em.SetInputConnection(et.GetOutputPort())
ea.SetMapper(em)
ea.GetProperty().SetColor(color)
return [ea, ac], et, ed, em, sg, pt, mp
def test_multi_block_init_vtk():
multi = vtk.vtkMultiBlockDataSet()
multi.SetBlock(0, vtk.vtkRectilinearGrid())
multi.SetBlock(1, vtk.vtkStructuredGrid())
multi = pyvista.MultiBlock(multi)
assert isinstance(multi, pyvista.MultiBlock)
assert multi.n_blocks == 2
assert isinstance(multi.GetBlock(0), pyvista.RectilinearGrid)
assert isinstance(multi.GetBlock(1), pyvista.StructuredGrid)
multi = vtk.vtkMultiBlockDataSet()
multi.SetBlock(0, vtk.vtkRectilinearGrid())
multi.SetBlock(1, vtk.vtkStructuredGrid())
multi = pyvista.MultiBlock(multi, deep=True)
assert isinstance(multi, pyvista.MultiBlock)
assert multi.n_blocks == 2
assert isinstance(multi.GetBlock(0), pyvista.RectilinearGrid)
assert isinstance(multi.GetBlock(1), pyvista.StructuredGrid)
# Test nested structure
multi = vtk.vtkMultiBlockDataSet()
multi.SetBlock(0, vtk.vtkRectilinearGrid())
multi.SetBlock(1, vtk.vtkImageData())
nested = vtk.vtkMultiBlockDataSet()
nested.SetBlock(0, vtk.vtkUnstructuredGrid())
nested.SetBlock(1, vtk.vtkStructuredGrid())
multi.SetBlock(2, nested)
# Wrap the nested structure
multi = pyvista.MultiBlock(multi)
assert isinstance(multi, pyvista.MultiBlock)
assert multi.n_blocks == 3
assert isinstance(multi.GetBlock(0), pyvista.RectilinearGrid)
assert isinstance(multi.GetBlock(1), pyvista.UniformGrid)
assert isinstance(multi.GetBlock(2), pyvista.MultiBlock)
def createPipeline(cube,
pngfile,
color=(1., 1., 1.),
radius=1.0,
show_mesh_as_surface=False,
nlines=10):
n0, n1 = cube.data.shape
numPoints = n0 * n1
sg = vtk.vtkStructuredGrid()
pt = vtk.vtkPoints()
#pt.SetNumberOfPoints(numPoints)
coords = cube.coords()
lats = coords[0].points
lons = coords[1].points
steps0 = n0 // nlines
steps1 = n1 // nlines
k = 0
for i1 in range(0, n1, steps1):
for i0 in range(0, n0, steps0):
x = radius * math.cos(lats[i0, i1] * math.pi / 180.) * math.cos(
lons[i0, i1] * math.pi / 180.)
y = radius * math.cos(lats[i0, i1] * math.pi / 180.) * math.sin(
lons[i0, i1] * math.pi / 180.)
z = radius * math.sin(lats[i0, i1] * math.pi / 180.)
pt.InsertPoint(k, x, y, z)
k += 1
sg = vtk.vtkStructuredGrid()
sg.SetDimensions(1, n0, n1)
sg.SetPoints(pt)
mp, ac = None, None
# show mesh as a surface
if show_mesh_as_surface:
mp = vtk.vtkDataSetMapper()
mp.SetInputData(sg)
ac = vtk.vtkActor()
ac.SetMapper(mp)
# show the grid as tubes
ed = vtk.vtkExtractEdges()
et = vtk.vtkTubeFilter()
em = vtk.vtkPolyDataMapper()
ea = vtk.vtkActor()
et.SetRadius(0.01)
ed.SetInputData(sg)
et.SetInputConnection(ed.GetOutputPort())
em.SetInputConnection(et.GetOutputPort())
ea.SetMapper(em)
ea.GetProperty().SetColor(color)
return [ea], em, et, ed, mp, sg
def get_sgrid_map():
"""
Create the structured grid of the map
"""
map_grid = vtk.vtkStructuredGrid()
points = vtk.vtkPoints()
coordinate_texture = vtk.vtkFloatArray()
coordinate_texture.SetNumberOfComponents(2)
scalars = vtk.vtkIntArray()
left = max(TOP_LEFT[1], BOTTOM_LEFT[1])
top = min(TOP_LEFT[0], TOP_RIGHT[0])
data_map = filter_data_map()
for i, row in enumerate(data_map):
for j, altitude in enumerate(row):
latitude = top - i * delta_degree
longitude = left + j * delta_degree
points.InsertNextPoint(
coordinate_earth(latitude, longitude, altitude))
l, m = get_texture_coord(latitude, longitude)
coordinate_texture.InsertNextTuple((l, m))
scalars.InsertNextValue(altitude)
map_grid.SetPoints(points)
dim_y, dim_x = data_map.shape
map_grid.SetDimensions(dim_x, dim_y, 1)
map_grid.GetPointData().SetTCoords(coordinate_texture)
map_grid.GetPointData().SetScalars(scalars)
return map_grid
def buildBasePipeline(self):
self.pointArray = vtk.vtkDoubleArray()
self.points = vtk.vtkPoints()
self.sgrid = vtk.vtkStructuredGrid()
self.c2p = vtk.vtkCellDataToPointData()
self.sgridGeomFilter = vtk.vtkStructuredGridGeometryFilter()
self.contour = vtk.vtkContourFilter()
self.mapper = vtk.vtkPolyDataMapper()
self.actor = vtk.vtkActor()
self.pointArray.SetNumberOfComponents(3)
self.pointArray.SetName('coordinates')
self.pointArray.SetVoidArray(self.xyz, self.numPoints * 3, 1)
# connect
self.points.SetData(self.pointArray)
self.sgrid.SetDimensions(self.nx1, self.ny1, 1)
self.sgrid.SetPoints(self.points)
self.c2p.PassCellDataOn()
self.c2p.SetInputData(self.sgrid)
self.sgridGeomFilter.SetInputData(self.c2p.GetOutput())
self.contour.SetInputConnection(
self.sgridGeomFilter.GetOutputPort()
) # Connection(self.sgridGeomFilter.GetOutputPort()) #Connection(self.cell2Points.GetOutputPort())
self.mapper.SetInputConnection(self.contour.GetOutputPort())
self.mapper.UseLookupTableScalarRangeOn()
self.actor.SetMapper(self.mapper)
def createGrid(total_size: float, grid_elements: int):
"""Returns a vtkStrucutredGrid.
:param total_size: Total size of the grid i.e. How long is each dimension. \
Each indivdual element has size equal to total_size/grid_dims
:type size: float
:param grid_dims: Number of grid points in x/y/z
:type grid_dims: int
:return: grid
:rtype: vtkStructuredGrid
"""
grid = vtk.vtkStructuredGrid()
grid.SetDimensions((grid_elements, grid_elements, grid_elements))
points = vtk.vtkPoints()
points.SetNumberOfPoints(grid_elements**3)
pID = 0
start = -total_size / 2
d = total_size / (grid_elements - 1)
for i in range(0, grid_elements):
for j in range(0, grid_elements):
for k in range(0, grid_elements):
x = start + d * k
y = start + d * j
z = start + d * i
points.SetPoint(pID, x, y, z)
pID += 1
grid.SetPoints(points)
return grid
def export2vts(self, filename):
import vtk
grid = self.info['grid']
# Set grid points
points = vtk.vtkPoints()
for z in range(grid[2]):
for y in range(grid[1]):
for x in range(grid[0]):
points.InsertNextPoint([x, y, z])
struGrid = vtk.vtkStructuredGrid()
struGrid.SetDimensions(grid)
struGrid.SetPoints(points)
struGrid.Update()
# Set point data
grid_pt_num = struGrid.GetNumberOfPoints()
array = vtk.vtkIntArray()
array.SetNumberOfComponents(1) # this is 3 for a vector
array.SetNumberOfTuples(grid_pt_num)
array.SetName('MicrostructureID')
matPoint = self.microstructure.reshape([grid_pt_num])
for i in range(grid_pt_num):
array.SetValue(i, matPoint[i])
struGrid.GetPointData().AddArray(array)
struGrid.Update()
# Write output file
outWriter = vtk.vtkXMLStructuredGridWriter()
outWriter.SetDataModeToBinary()
outWriter.SetCompressorTypeToZLib()
outWriter.SetFileName(filename + '.vts')
outWriter.SetInput(struGrid)
outWriter.Update()
outWriter.Write()
def testStructured(self):
rt = vtk.vtkRTAnalyticSource()
rt.SetWholeExtent(-5, 5, -5, 5, -5, 5)
rt.Update()
i = rt.GetOutput()
st = vtk.vtkStructuredGrid()
st.SetDimensions(i.GetDimensions())
nps = i.GetNumberOfPoints()
ps = vtk.vtkPoints()
ps.SetNumberOfPoints(nps)
for idx in xrange(nps):
ps.SetPoint(idx, i.GetPoint(idx))
st.SetPoints(ps)
s = vtk.vtkSphere()
s.SetRadius(2)
s.SetCenter(0,0,0)
c = vtk.vtkTableBasedClipDataSet()
c.SetInputData(st)
c.SetClipFunction(s)
c.SetInsideOut(1)
c.Update()
self.assertEqual(c.GetOutput().GetNumberOfCells(), 64)
def loadNodes(self, fname, nx, ny, nz):
""" Reads in the points of the grid, ususally in a file called nodewise
fname = nodes file
nx = number of cells in the easting(x) direction
ny = number of cells in the northing (y) direction
nz = number of cells in depth, positive up
This method results in the generation of a VtkStructuredGrid
"""
self.nx = nx
self.ny = ny
self.nz = nz
X = np.loadtxt(fname, comments="#")
self.points = np.reshape(
np.array((X[:, 2], X[:, 3], X[:, 4])).T, (nx, ny, nz, 3))
# work directly with VTK structures
self.sGrid = vtk.vtkStructuredGrid()
self.sGrid.SetDimensions(124, 88, 4)
vtk_points = vtk.vtkPoints()
for iz in range(nz):
for iy in range(ny):
for ix in range(nx):
vtk_points.InsertNextPoint(self.points[ix, iy, iz][0],
self.points[ix, iy, iz][1],
self.points[ix, iy, iz][2])
self.sGrid.SetPoints(vtk_points)
def testStructured(self):
rt = vtk.vtkRTAnalyticSource()
rt.SetWholeExtent(-5, 5, -5, 5, -5, 5)
rt.Update()
i = rt.GetOutput()
st = vtk.vtkStructuredGrid()
st.SetDimensions(i.GetDimensions())
nps = i.GetNumberOfPoints()
ps = vtk.vtkPoints()
ps.SetNumberOfPoints(nps)
for idx in range(nps):
ps.SetPoint(idx, i.GetPoint(idx))
st.SetPoints(ps)
s = vtk.vtkSphere()
s.SetRadius(2)
s.SetCenter(0,0,0)
c = vtk.vtkTableBasedClipDataSet()
c.SetInputData(st)
c.SetClipFunction(s)
c.SetInsideOut(1)
c.Update()
self.assertEqual(c.GetOutput().GetNumberOfCells(), 64)
def get_structured_grid(dimensions=(2, 2, 2),
origin=(0., 0., 0.),
spacing=(1., 1., 1.),
array_name="color",
color=(1., 1., 1.)):
"""Create a vtkStructuredGrid."""
dimensions = np.asarray(dimensions)
mesh = vtk.vtkStructuredGrid()
mesh.SetDimensions(*dimensions)
counter = 0
number_of_points = np.prod(dimensions)
points = vtk.vtkPoints()
points.SetNumberOfPoints(number_of_points)
for k in range(dimensions[2]):
for j in range(dimensions[1]):
for i in range(dimensions[0]):
point = origin + np.multiply([i, j, k], spacing)
points.SetPoint(counter, point)
counter += 1
mesh.SetPoints(points)
number_of_cells = np.prod(dimensions - 1)
array = np.tile(color, (number_of_cells, 1))
add_mesh_cell_array(
mesh=mesh,
array_name=array_name,
array=array,
)
mesh.Modified()
return mesh
def _write_vtk_box(box_points, filename, dimensions):
"""
Private method that writes a vtk file containing FFD control points.
:param numpy.ndarray box_points: coordinates of the FFD control points.
:param string filename: name of the output file.
:param list dimensions: dimension of the lattice in (x, y, z) directions.
"""
# setup points and vertices
points = vtk.vtkPoints()
for index in range(0, box_points.shape[1]):
ind = points.InsertNextPoint(box_points[0, index],
box_points[1, index], box_points[2,
index])
grid = vtk.vtkStructuredGrid()
grid.SetPoints(points)
grid.SetDimensions(dimensions)
grid.Modified()
writer = vtk.vtkStructuredGridWriter()
writer.SetFileName(filename)
if vtk.VTK_MAJOR_VERSION <= 5:
grid.Update()
writer.SetInput(grid)
else:
writer.SetInputData(grid)
writer.Write()
def _write_vtk_box(box_points, filename, dimensions): """ Private method that writes a vtk file containing FFD control points. :param numpy.ndarray box_points: coordinates of the FFD control points. :param string filename: name of the output file. :param list dimensions: dimension of the lattice in (x, y, z) directions. .. warning:: If you want to visualize in paraview the inner points, you have to slice the lattice because paraview does not visualize them automatically even in the wireframe visualization. """ # setup points and vertices points = vtk.vtkPoints() for index in range(0, box_points.shape[1]): points.InsertNextPoint(box_points[0, index], box_points[1, index], box_points[2, index]) grid = vtk.vtkStructuredGrid() grid.SetPoints(points) grid.SetDimensions(dimensions) grid.Modified() writer = vtk.vtkStructuredGridWriter() writer.SetFileName(filename) if vtk.VTK_MAJOR_VERSION <= 5: grid.Update() writer.SetInput(grid) else: writer.SetInputData(grid) writer.Write()
def putMaskOnVTKGrid(data,grid,actorColor=None,deep=True):
#Ok now looking
msk = data.mask
imsk = VN.numpy_to_vtk(msk.astype(numpy.int).flat,deep=deep)
mapper = None
if msk is not numpy.ma.nomask:
msk = VN.numpy_to_vtk(numpy.logical_not(msk).astype(numpy.uint8).flat,deep=deep)
if actorColor is not None:
grid2 = vtk.vtkStructuredGrid()
grid2.CopyStructure(grid)
geoFilter = vtk.vtkDataSetSurfaceFilter()
if grid.IsA("vtkStructuredGrid"):
grid2.GetPointData().SetScalars(imsk)
#grid2.SetCellVisibilityArray(imsk)
p2c = vtk.vtkPointDataToCellData()
p2c.SetInputData(grid2)
geoFilter.SetInputConnection(p2c.GetOutputPort())
else:
grid2.GetCellData().SetScalars(imsk)
geoFilter.SetInputData(grid)
geoFilter.Update()
mapper = vtk.vtkPolyDataMapper()
mapper.SetInputData(geoFilter.GetOutput())
lut = vtk.vtkLookupTable()
lut.SetNumberOfTableValues(1)
r,g,b = actorColor
lut.SetNumberOfTableValues(2)
lut.SetTableValue(0,r/100.,g/100.,b/100.)
lut.SetTableValue(1,r/100.,g/100.,b/100.)
mapper.SetLookupTable(lut)
mapper.SetScalarRange(1,1)
if grid.IsA("vtkStructuredGrid"):
grid.SetPointVisibilityArray(msk)
#grid.SetCellVisibilityArray(msk)
return mapper
def write_3d_scalar_fields_as_vtk_point_data(dat, result_filename, scale_factor=1.0): vtk_p = vtk.vtkPoints() x_vec,y_vec,z_vec = [np.array(x)*scale_factor for x in dat["grid_points"]] fields_dat = dat["fields"] xlen = len(x_vec) ylen = len(y_vec) zlen = len(z_vec) vtk_fields = [] for fi in fields_dat: vfi = vtk.vtkDoubleArray() vfi.SetName(fi["name"]) vtk_fields.append(vfi) n_fields = len(vtk_fields) for zi in range(zlen): for yi in range(ylen): for xi in range(xlen): vtk_p.InsertNextPoint([x_vec[xi],y_vec[yi],z_vec[zi]]) for i in range(n_fields): vtk_fields[i].InsertNextValue(fields_dat[i]["data"][xi, yi, zi]) vtk_grid = vtk.vtkStructuredGrid() vtk_grid.SetDimensions(xlen,ylen,zlen) vtk_grid.SetPoints(vtk_p) for i in range(n_fields): vtk_grid.GetPointData().AddArray(vtk_fields[i]) #print(vtk_grid) writer = vtk.vtkXMLStructuredGridWriter() writer.SetFileName(result_filename) writer.SetInputData(vtk_grid) writer.Write()
def __create_structured_grid(ptsMat, dims, models=None):
"""An internal helper to build out structured grids"""
# Adjust if result was 2D:
if ptsMat.shape[1] == 2:
# Figure out which dim is null
nullDim = dims.index(None)
ptsMat = np.insert(ptsMat,
nullDim,
np.zeros(ptsMat.shape[0]),
axis=1)
if ptsMat.shape[1] != 3:
raise RuntimeError('Points of the mesh are improperly defined.')
# Convert the points
vtkPts = vtk.vtkPoints()
vtkPts.SetData(nps.numpy_to_vtk(ptsMat, deep=True))
# Uncover hidden dimension
for i, d in enumerate(dims):
if d is None:
dims[i] = 0
dims[i] = dims[i] + 1
output = vtk.vtkStructuredGrid()
output.SetDimensions(dims[0], dims[1],
dims[2]) # note this subtracts 1
output.SetPoints(vtkPts)
# Assign the model('s) to the object
return assign_cell_data(output, models=models)
def _write_vtk_box(box_points, filename, dimensions): """ Private method that writes a vtk file containing FFD control points. :param numpy.ndarray box_points: coordinates of the FFD control points. :param string filename: name of the output file. :param list dimensions: dimension of the lattice in (x, y, z) directions. """ # setup points and vertices points = vtk.vtkPoints() for index in range(0, box_points.shape[1]): ind = points.InsertNextPoint(box_points[0, index], box_points[1, index], box_points[2, index]) grid = vtk.vtkStructuredGrid() grid.SetPoints(points) grid.SetDimensions(dimensions) grid.Modified() writer = vtk.vtkStructuredGridWriter() writer.SetFileName(filename) if vtk.VTK_MAJOR_VERSION <= 5: grid.Update() writer.SetInput(grid) else: writer.SetInputData(grid) writer.Write()
def create_mesh(M,P,T):
n_naca_pts = 50
write_test_file(M,P,T,-5.,5.,nsections=5)
wing=create_wing('current_wing','output')
n_sections=len(wing)
n_section_pts = 2*n_naca_pts-1
# build mesh
vtk_model = vtk.vtkStructuredGrid()
vtk_model.SetDimensions(n_section_pts,n_sections,1)
# build points
vtk_points = vtk.vtkPoints()
for j in xrange(n_sections):
upper_pts = numpy.array([wing[j][1],wing[j][3]]).T
lower_pts = numpy.array([wing[j][2],wing[j][4]]).T
section_pts = numpy.concatenate((lower_pts[::-1],upper_pts[1:]))
for i in xrange(n_section_pts):
vtk_points.InsertNextPoint(section_pts[i,0],wing[j][0],section_pts[i,1])
# set points
vtk_model.SetPoints(vtk_points)
# convert to poly data
pdata_filter = vtk.vtkGeometryFilter()
if vtk.VTK_MAJOR_VERSION <= 5:
pdata_filter.SetInput(vtk_model)
else:
pdata_filter.SetInputData(vtk_model)
pdata_filter.Update()
poly_data = pdata_filter.GetOutput()
# compute normals
norms = vtk.vtkPolyDataNormals()
if vtk.VTK_MAJOR_VERSION <= 5:
norms.SetInput(poly_data)
else:
norms.SetInputData(poly_data)
norms.ComputePointNormalsOff()
norms.ComputeCellNormalsOn()
norms.ConsistencyOn()
norms.Update()
# clean poly data
clean_poly = vtk.vtkCleanPolyData()
clean_poly.ToleranceIsAbsoluteOn()
clean_poly.SetAbsoluteTolerance(1.e-6)
if vtk.VTK_MAJOR_VERSION <= 5:
clean_poly.SetInput(norms.GetOutput())
else:
clean_poly.SetInputData(norms.GetOutput())
clean_poly.Update()
# write output mesh
writer = vtk.vtkXMLPolyDataWriter()
if vtk.VTK_MAJOR_VERSION <= 5:
writer.SetInput(clean_poly.GetOutput())
else:
writer.SetInputData(clean_poly.GetOutput())
writer.SetFileName('output.vtp')
writer.Write()
def export2vts(self, filename):
import vtk
grid = self.info['grid']
# Set grid points
points = vtk.vtkPoints()
for z in range (grid[2]):
for y in range (grid[1]):
for x in range (grid[0]):
points.InsertNextPoint( [x , y , z ] )
struGrid = vtk.vtkStructuredGrid()
struGrid.SetDimensions( grid )
struGrid.SetPoints( points )
struGrid.Update()
# Set point data
grid_pt_num = struGrid.GetNumberOfPoints()
array = vtk.vtkIntArray()
array.SetNumberOfComponents(1) # this is 3 for a vector
array.SetNumberOfTuples(grid_pt_num)
array.SetName('MicrostructureID')
matPoint = self.microstructure.reshape( [grid_pt_num] )
for i in range(grid_pt_num):
array.SetValue(i, matPoint[i])
struGrid.GetPointData().AddArray(array)
struGrid.Update()
# Write output file
outWriter = vtk.vtkXMLStructuredGridWriter()
outWriter.SetDataModeToBinary()
outWriter.SetCompressorTypeToZLib()
outWriter.SetFileName( filename + '.vts' )
outWriter.SetInput(struGrid)
outWriter.Update()
outWriter.Write()
def cone(c1,h_max,phi,n=100,name='temp'):
c1 = np.array(c1)
phi = np.radians(phi)
r_max = h_max/np.tan(phi)
hyp = h_max/np.sin(phi)
circ = 2*np.pi*r_max
nr = np.round(n*hyp/circ).astype('int')
nr1 = nr+1
theta = np.linspace(0,2*np.pi,n+1)
h = np.linspace(0,h_max,nr+1)
r = h/np.tan(phi)
X = np.outer(np.cos(theta), r)
Y = np.outer(np.sin(theta), r)
Z = np.outer(np.ones(theta.shape[0]), h)
gridpoints = np.stack([X.flat, Y.flat, Z.flat], axis=1)
gridpoints += c1
points = vtk.vtkPoints()
points.SetData(vtknp.numpy_to_vtk(gridpoints))
grid = vtk.vtkStructuredGrid()
grid.SetDimensions(nr1, n+1, 1)
grid.SetPoints(points)
addCoordData(grid,gridpoints)
writer = vtk.vtkStructuredGridWriter()
writer.SetFileName(name+'.vtk')
writer.SetInputData(grid)
writer.Write()
def GetvtkStructuredGrid(self):
"""Returns the instance of vtkStructuredGrid"""
from vtk import vtkStructuredGrid
try:
return self.vtkstructuredgrid
except AttributeError:
self.vtkstructuredgrid = vtkStructuredGrid()
return self.vtkstructuredgrid
def GetvtkStructuredGridProbe(self):
"""Returns the instance of the vtkStructuredGrid"""
from vtk import vtkStructuredGrid
try:
return self.probegrid
except AttributeError:
self.probegrid = vtkStructuredGrid()
return self.probegrid
def getVTKsgrid(grid):
shape=[i for i in reversed(grid.shape[:-1])]
print 'Creating vtk structured grid with shape %s'%str(shape)
pts=getVTKpoints(grid)
sgrid=vtk.vtkStructuredGrid() #@UndefinedVariable
sgrid.SetPoints(pts)
sgrid.SetExtent(0,shape[0]-1,0,shape[1]-1,0,shape[2]-1)
return sgrid
def putMaskOnVTKGrid(data,grid,actorColor=None,cellData=True,deep=True):
#Ok now looking
msk = data.mask
imsk = numpy_to_vtk_wrapper(msk.astype(numpy.int).flat,deep=deep)
mapper = None
if msk is not numpy.ma.nomask and not numpy.allclose(msk,False):
if actorColor is not None:
if grid.IsA("vtkStructuredGrid"):
grid2 = vtk.vtkStructuredGrid()
else:
grid2 = vtk.vtkUnstructuredGrid()
grid2.CopyStructure(grid)
geoFilter = vtk.vtkDataSetSurfaceFilter()
lut = vtk.vtkLookupTable()
r,g,b = actorColor
lut.SetNumberOfTableValues(2)
if not cellData:
grid2.GetPointData().RemoveArray(
vtk.vtkDataSetAttributes.GhostArrayName())
grid2.GetPointData().SetScalars(imsk)
#grid2.SetCellVisibilityArray(imsk)
#p2c = vtk.vtkPointDataToCellData()
#p2c.SetInputData(grid2)
#geoFilter.SetInputConnection(p2c.GetOutputPort())
geoFilter.SetInputData(grid2)
lut.SetTableValue(0,r/100.,g/100.,b/100.,1.)
lut.SetTableValue(1,r/100.,g/100.,b/100.,1.)
else:
grid2.GetCellData().RemoveArray(
vtk.vtkDataSetAttributes.GhostArrayName())
grid2.GetCellData().SetScalars(imsk)
geoFilter.SetInputData(grid2)
lut.SetTableValue(0,r/100.,g/100.,b/100.,0.)
lut.SetTableValue(1,r/100.,g/100.,b/100.,1.)
geoFilter.Update()
mapper = vtk.vtkPolyDataMapper()
mapper.SetInputData(geoFilter.GetOutput())
mapper.SetLookupTable(lut)
mapper.SetScalarRange(0,1)
# The ghost array now stores information about hidden (blanked)
# points/cells. Setting an array entry to the bitwise value
# `vtkDataSetAttributes.HIDDEN(CELL|POINT)` will blank the cell/point.
flatMask = msk.flat
ghost = numpy.zeros(len(flatMask), dtype=numpy.uint8)
invalidMaskValue = vtk.vtkDataSetAttributes.HIDDENCELL if cellData else \
vtk.vtkDataSetAttributes.HIDDENPOINT
for i, isInvalid in enumerate(flatMask):
if isInvalid:
ghost[i] = invalidMaskValue
ghost = numpy_to_vtk_wrapper(ghost, deep=deep)
ghost.SetName(vtk.vtkDataSetAttributes.GhostArrayName())
if cellData:
grid.GetCellData().AddArray(ghost)
else:
grid.GetPointData().AddArray(ghost)
return mapper
def __init__(self, numLats, numLons, radius=1.0, coords='cartesian'):
# this is to convert from structured to unstructured grid
self.appendGrids = vtk.vtkAppendFilter()
# create grid
numLats1, numLons1 = numLats + 1, numLons + 1
lats = numpy.linspace(-numpy.pi / 2., numpy.pi / 2., numLats1)
lons = numpy.linspace(0., 2 * numpy.pi, numLons1)
llons, llats = numpy.meshgrid(lons, lats)
llats = llats.flat
llons = llons.flat
# vertices in Cartesian space
self.xyz = numpy.zeros((numLats1 * numLons1, 3), numpy.float64)
rrho = radius * numpy.cos(llats)
self.xyz[:, 0] = rrho * numpy.cos(llons)
self.xyz[:, 1] = rrho * numpy.sin(llons)
self.xyz[:, 2] = radius * numpy.sin(llats)
# coordinates
self.pointArray = self.xyz
if coords == 'spherical':
self.pointArray[:, 0] = llons
self.pointArray[:, 1] = llats
self.pointArray[:, 2] = 0.0
# compute the cell areas, enforce positiveness (not sure why all the areas are negative)
self.areas = -igAreas.getCellAreas(self.xyz, n0=numLats1, n1=numLons1)
self.vareas = vtk.vtkDoubleArray()
self.vareas.SetName('cell_areas')
self.vareas.SetNumberOfComponents(1)
self.vareas.SetNumberOfTuples(numLats * numLons)
self.vareas.SetVoidArray(self.areas, numLats * numLons, 1)
# create the VTK unstructured grid
self.vxyz = vtk.vtkDoubleArray()
self.vxyz.SetNumberOfComponents(3)
ntot = numLats1 * numLons1
self.vxyz.SetNumberOfTuples(ntot)
self.vxyz.SetVoidArray(self.pointArray, 3 * ntot, 1)
self.pts = vtk.vtkPoints()
self.pts.SetNumberOfPoints(ntot)
self.pts.SetData(self.vxyz)
self.sgrid = vtk.vtkStructuredGrid()
self.sgrid.SetDimensions(numLons1, numLats1, 1)
self.sgrid.SetPoints(self.pts)
self.sgrid.GetCellData().SetScalars(self.vareas)
self.appendGrids.AddInputData(self.sgrid)
self.appendGrids.Update()
self.grid = self.appendGrids.GetOutput()
def set_vtk_unstructured(self):
vts = vtk.vtkStructuredGrid()
vts.SetDimensions(Nz, Ny, Nx)
vts.SetPoints(pts)
for array in self.vtk_props:
vts.GetPointData().AddArray(array)
self.obj = vtk_data
print "|_Vtk_writer.to_vtkstructured"
def update_const(self, index, tcd):
if not self.stat_init:
print('Error: call initialize() before update()')
else:
# index = next(self.stat_numcalpts)
# tcd = self.cds[index]
hdf5_file_name = next(self.g)
copyfile(self.base_file, hdf5_file_name)
self.fastmech_change_cd(hdf5_file_name, tcd)
self.fastmech_BCs(hdf5_file_name)
for path in self.execute(["Fastmech.exe", hdf5_file_name]):
print(path, end="")
SGrid = vtk.vtkStructuredGrid()
self.create_vtk_structured_grid(SGrid, hdf5_file_name)
cellLocator2D = vtk.vtkCellLocator()
cellLocator2D.SetDataSet(SGrid)
# cellLocator2D.SetNumberOfCellsPerBucket(10);
cellLocator2D.BuildLocator()
WSE_2D = SGrid.GetPointData().GetScalars('WSE')
IBC_2D = SGrid.GetPointData().GetScalars('IBC')
Velocity_2D = SGrid.GetPointData().GetScalars('Velocity')
simwse = np.zeros(self.meas_wse.shape[0])
measwse = np.zeros(self.meas_wse.shape[0])
for counter, line in enumerate(self.meas_wse):
point2D = [line[0] - self.xoffset, line[1] - self.yoffset, 0.0]
pt1 = [line[0] - self.xoffset, line[1] - self.yoffset, 10.0]
pt2 = [line[0] - self.xoffset, line[1] - self.yoffset, -10]
idlist1 = vtk.vtkIdList()
cellLocator2D.FindCellsAlongLine(pt1, pt2, 0.0, idlist1)
cellid = idlist1.GetId(0)
# cellid = cellLocator2D.FindCell(point2D)
# print (isCellWet(SGrid, point2D, cellid, IBC_2D))
tmpwse = self.getCellValue(SGrid, point2D, cellid, WSE_2D)
if tcd == self.cdmin:
self.meas_and_sim_wse[counter, 0] = line[2]
# print counter
simwse[counter] = tmpwse
measwse[counter] = line[2]
# print(cellid, line[2], tmpwse)
self.meas_and_sim_wse[:, index + 1] = simwse
self.rmse_data[index] = self.rmse(simwse, measwse)
self.cd_val[index] = tcd
# print(self.rmse_data[index])
# print(self.cd_val)
# print(self.rmse_data)
trmse = np.column_stack(
(self.cd_val.flatten(), self.rmse_data.flatten()))
# print(trmse)
np.savetxt(self.rmse_file, trmse, delimiter=',')
np.savetxt(self.meas_vs_sim_file,
self.meas_and_sim_wse,
delimiter=',')
return trmse
def __init__(self, scanType, geomType, pitchAndRoll):
self.headersize = 17
self.header = {}
self.scanType = scanType
self.geomType = geomType
self.pitchAndRoll = pitchAndRoll
if geomType == 'rays' or geomType == 'gates':
self.scan = vtk.vtkPolyData()
elif geomType == 'sweep':
self.scan = vtk.vtkStructuredGrid()
def __init__(self, center_shp, tension, nx, ny, width):
self.cl = centerline(center_shp)
self.tension = tension
self.width = width
self.nx = nx
self.ny = ny
self.xgrid = np.zeros(self.nx * self.ny, dtype=np.double)
self.ygrid = np.zeros(self.nx * self.ny, dtype=np.double)
self.sgrid = vtk.vtkStructuredGrid()
self.sg_points = vtk.vtkPoints()
self.__buildXYGrid()
def CopyGrid(grid):
""" Copies a vtk structured, unstructured, or polydata object """
if isinstance(grid, vtk.vtkUnstructuredGrid):
gridcopy = vtk.vtkUnstructuredGrid()
elif isinstance(grid, vtk.vtkStructuredGrid):
gridcopy = vtk.vtkStructuredGrid()
elif isinstance(grid, vtk.vtkPolyData):
gridcopy = vtk.vtkPolyData()
gridcopy.DeepCopy(grid)
return gridcopy
def toVTK(self):
"""Convert the 2D grid to a ``vtkStructuredGrid`` object."""
import vtk
from vtk.util import numpy_support as nps
output = vtk.vtkStructuredGrid()
# TODO: build!
# Build out all nodes in the mesh
# Add to output
return output
def genGridOnPoints(data1,data2,gm,deep=True):
continents = False
xm,xM,ym,yM = None, None, None, None
useStructuredGrid = True
try:
g=data1.getGrid()
x = g.getLongitude()[:]
y = g.getLatitude()[:]
continents=True
wrap=[0,360]
if isinstance(g,cdms2.gengrid.AbstractGenericGrid): # Ok need unstrctured grid
useStructuredGrid = False
except:
#hum no grid that's much easier
x=data1.getAxis(-1)[:]
y=data1.getAxis(-2)[:]
wrap=None
if x.ndim==1:
y = y[:,numpy.newaxis]*numpy.ones(x.shape)[numpy.newaxis,:]
x = x[numpy.newaxis,:]*numpy.ones(y.shape)
x=x.flatten()
y=y.flatten()
sh =list(x.shape)
sh.append(1)
x=numpy.reshape(x,sh)
y=numpy.reshape(y,sh)
#Ok we have our points in 2D let's create unstructured points grid
xm=x.min()
xM=x.max()
ym=y.min()
yM=y.max()
z = numpy.zeros(x.shape)
m3 = numpy.concatenate((x,y),axis=1)
m3 = numpy.concatenate((m3,z),axis=1)
deep = True
pts = vtk.vtkPoints()
## Convert nupmy array to vtk ones
ppV = numpy_to_vtk_wrapper(m3,deep=deep)
pts.SetData(ppV)
projection = vcs.elements["projection"][gm.projection]
xm,xM,ym,yM = getRange(gm,xm,xM,ym,yM)
geo, geopts = project(pts,projection,[xm,xM,ym,yM])
## Sets the vertics into the grid
if useStructuredGrid:
vg = vtk.vtkStructuredGrid()
vg.SetDimensions(y.shape[1],y.shape[0],1)
else:
vg = vtk.vtkUnstructuredGrid()
vg.SetPoints(geopts)
return vg,xm,xM,ym,yM,continents,wrap,geo
def update_var(self, cnt, tcd, q=0):
if not self.stat_init:
print('Error: call initialize() before update()')
else:
# index = next(self.stat_numcalpts)
# tcd = self.cds[index]
hdf5_file_name = next(self.g)
copyfile(self.base_file, hdf5_file_name)
self.fastmech_change_var_cd2(hdf5_file_name, tcd)
if q != 0:
self.Q = q
self.fastmech_BCs(hdf5_file_name)
for path in self.execute(["Fastmech.exe", hdf5_file_name]):
print(path, end="")
SGrid = vtk.vtkStructuredGrid()
self.create_vtk_structured_grid(SGrid, hdf5_file_name)
cellLocator2D = vtk.vtkCellLocator()
cellLocator2D.SetDataSet(SGrid)
# cellLocator2D.SetNumberOfCellsPerBucket(10);
cellLocator2D.BuildLocator()
WSE_2D = SGrid.GetPointData().GetScalars('WSE')
IBC_2D = SGrid.GetPointData().GetScalars('IBC')
Velocity_2D = SGrid.GetPointData().GetScalars('Velocity')
simwse = np.zeros(self.meas_wse.shape[0])
measwse = np.zeros(self.meas_wse.shape[0])
for counter, line in enumerate(self.meas_wse):
point2D = [line[0] - self.xoffset, line[1] - self.yoffset, 0.0]
pt1 = [line[0] - self.xoffset, line[1] - self.yoffset, 10.0]
pt2 = [line[0] - self.xoffset, line[1] - self.yoffset, -10]
idlist1 = vtk.vtkIdList()
cellLocator2D.FindCellsAlongLine(pt1, pt2, 0.0, idlist1)
cellid = idlist1.GetId(0)
tmpwse = self.getCellValue(SGrid, point2D, cellid, WSE_2D)
simwse[counter] = tmpwse
measwse[counter] = line[2]
print(cellid, line[2], tmpwse)
self.resdf.loc[cnt, self.dfcols[0]] = cnt
for key in tcd:
self.resdf.loc[cnt, self.dfcols[int(key + 1)]] = tcd[key]
self.resdf.loc[cnt, 'rmse'] = self.rmse(simwse, measwse)
self.resdf.loc[cnt, 'Discharge'] = self.Q
# trmse = np.column_stack((self.cd0_var_vals.flatten(), self.cd1_var_vals.flatten(), self.rmse_var_data.flatten()))
# print(trmse)
#
# np.savetxt(self.rmse_file, trmse, delimiter=',')
self.resdf.to_csv(self.rmse_file)
# np.savetxt(self.meas_vs_sim_file, self.meas_and_sim_wse_var, delimiter=',')
return self.resdf
def plotGrid3d(field, color=(0.5, 0.1, 0.1), radius=1.0):
import vtk
pt = vtk.vtkPoints()
sg = vtk.vtkStructuredGrid()
mp = vtk.vtkDataSetMapper()
ac = vtk.vtkActor()
# connect
sg.SetPoints(pt)
mp.SetInputData(sg)
ac.SetMapper(mp)
# set
ac.GetProperty().SetColor(color)
latIndex, lonIndex = 0, 1
iBegLat = field.grid.lower_bounds[ESMF.StaggerLoc.CORNER][latIndex]
iEndLat = field.grid.upper_bounds[ESMF.StaggerLoc.CORNER][latIndex]
iBegLon = field.grid.lower_bounds[ESMF.StaggerLoc.CORNER][lonIndex]
iEndLon = field.grid.upper_bounds[ESMF.StaggerLoc.CORNER][lonIndex]
lats = field.grid.get_coords(latIndex,
ESMF.StaggerLoc.CORNER)[iBegLat:iEndLat,
iBegLon:iEndLon]
lons = field.grid.get_coords(lonIndex,
ESMF.StaggerLoc.CORNER)[iBegLat:iEndLat,
iBegLon:iEndLon]
n0, n1 = lats.shape
numPoints = n0 * n1
pt.SetNumberOfPoints(numPoints)
sg.SetDimensions(1, n0, n1)
# fill in the points
k = 0
for i1 in range(n1):
for i0 in range(n0):
x = radius * math.cos(lats[i0, i1] * math.pi / 180.) * math.cos(
lons[i0, i1] * math.pi / 180.)
y = radius * math.cos(lats[i0, i1] * math.pi / 180.) * math.sin(
lons[i0, i1] * math.pi / 180.)
z = radius * math.sin(lats[i0, i1] * math.pi / 180.)
pt.SetPoint(k, x, y, z)
k += 1
# show edges
ed = vtk.vtkExtractEdges()
et = vtk.vtkTubeFilter()
et.SetRadius(0.01)
em = vtk.vtkPolyDataMapper()
ea = vtk.vtkActor()
ed.SetInputData(sg)
et.SetInputConnection(ed.GetOutputPort())
em.SetInputConnection(et.GetOutputPort())
ea.SetMapper(em)
actors = [ac, ea]
return actors, mp, sg, pt
def __init__(self, theta0, dLambda, dTheta, dRadius, n1, n2, n3,):
ntot = (n1 + 1) * (n2 + 1) * (n3 + 1)
dXi1 = 1.0/float(n1)
dXi2 = 1.0/float(n2)
dXi3 = 1.0/float(n3)
self.ptArray = vtk.vtkDoubleArray()
self.ptArray.SetNumberOfComponents(3)
self.ptArray.SetNumberOfTuples(ntot)
self.data = vtk.vtkDoubleArray()
self.data.SetNumberOfComponents(3) # vector
self.data.SetNumberOfTuples(ntot)
index = 0
for i3 in range(n3 + 1):
for i2 in range(n2 + 1):
for i1 in range(n1 + 1):
lam = 0.0 + i1*dLambda/float(n1)
the = theta0 + i2*dTheta/float(n2)
rad = 1.0 + i3*dRadius/float(n3)
x = rad * numpy.cos(the) * numpy.cos(lam)
y = rad * numpy.cos(the) * numpy.sin(lam)
z = rad * numpy.sin(the)
self.ptArray.SetTuple(index, (x, y, z))
xi1 = 0.0 + i1*dXi1
xi2 = 0.0 + i2*dXi2
xi3 = 0.0 + i3*dXi3
basisFunc = -8.*(xi2 - 0.75)*(xi3 - 0.25)*(xi1 - 0.5)
rho = numpy.sqrt(x**2 + y**2)
thetaHat = numpy.array([-z*numpy.cos(lam), -z*numpy.sin(lam), rho]) / rad
rHat = numpy.array([x, y, z]) / rad
basisVec = numpy.cross(thetaHat, rHat) / rad
vx, vy, vz = basisFunc*basisVec
self.data.SetTuple(index, (vx, vy, vz))
index += 1
self.pts = vtk.vtkPoints()
self.pts.SetData(self.ptArray)
self.grid = vtk.vtkStructuredGrid()
self.grid.SetDimensions(n1 + 1, n2 + 1, n3 + 1)
self.grid.SetPoints(self.pts)
self.grid.GetPointData().SetScalars(self.data)
def mesh(x,y,z, rgb=None, color='g', normals=True, renderer=None):
np1,np2 = x.shape
npts = np1*np2
allPoints = vtk.vtkPoints()
allPoints.SetNumberOfPoints(npts)
for i,xi in enumerate([x,y,z]):
flt = xi.ravel()
ci = numpy_support.numpy_to_vtk(flt, deep=False)
allPoints.GetData().CopyComponent(i,ci,0)
#
grid = vtk.vtkStructuredGrid()
grid.SetDimensions(1,np2,np1)
grid.SetPoints(allPoints)
if rgb is not None:
cols = vtk.vtkUnsignedCharArray()
cols.SetNumberOfComponents(3)
cols.SetName("Colors")
cols.SetNumberOfTuples(npts)
for i,cc in enumerate(rgb):
cj = (cc.ravel()*255).astype(np.uint8)
ci = numpy_support.numpy_to_vtk(cj, deep=True)
cols.CopyComponent(i,ci,0)
#
grid.GetPointData().SetScalars(cols)
#
if normals:
conv = vtk.vtkStructuredGridGeometryFilter()
vtkConnectDataInput(grid, conv)
normals = vtk.vtkPolyDataNormals()
vtkConnectOutputInput(conv, normals)
mapped = vtk.vtkPolyDataMapper()
vtkConnectOutputInput(normals, mapped)
else:
mapped = vtk.vtkDataSetMapper()
vtkConnectDataInput(grid, mapped)
#
grac = vtk.vtkActor()
grac.SetMapper(mapped)
if rgb is None:
color = colors.to_rgb(color)
grac.GetProperty().SetColor(*color)
#
if renderer is not None:
renderer.AddActor2D(grac)
#
return grac
def __init__( self, Data=None, tag=None, DataOrder=None, DataType=None, shape=None, \
vtkFile="out.vtu", vtkFileType=None, DataFormat="ascii", newFile=True, \
DataLabel=None ):
# ------------------------------------------------- #
# --- call fieldDataManager initialization --- #
# ------------------------------------------------- #
super().__init__( Data=Data, tag=tag, DataOrder=DataOrder, \
DataType=DataType, shape=shape, DataLabel=DataLabel )
# ------------------------------------------------- #
# --- vtk native variables --- #
# ------------------------------------------------- #
self.vtkFile = vtkFile
self.DataFormat = DataFormat
# ------------------------------------------------- #
# --- inspect vtkFileType --- #
# ------------------------------------------------- #
extention = ( vtkFile.split( "." ) )[-1]
if ( extention == "vti" ):
self.vtkFileType = "ImageData"
self.image = vtk.vtkImageData()
elif ( extention == "vts" ):
self.vtkFileType = "StructuredGrid"
self.sGrid = vtk.vtkStructuredGrid()
elif ( extention == "vtu" ):
self.vtkFileType = "UnstructuredGrid"
self.uGrid = vtk.vtkUnstructuredGrid()
elif ( extention == "vtp" ):
self.vtkFileType = "PolyData"
self.pData = vtk.vtkPolyData()
else:
print( "[vtkDataWriter] Unknown extention :: {0}".format( extention ) )
print( "[vtkDataWriter] vtkFile :: {0}".format( vtkFile ) )
print( "[vtkDataWriter] please specify extention from .vti, .vts, .vtu " )
sys.exit()
# ------------------------------------------------- #
# --- single Data convert --- #
# ------------------------------------------------- #
if ( ( Data is not None ) and ( tag is not None ) ):
if ( self.vtkFileType == "ImageData" ):
self.convert__imageData2vti( tag=tag )
if ( self.vtkFileType == "StructuredGrid" ):
self.convert__pointData2vts( tag=tag )
if ( self.vtkFileType == "UnstructuredGrid" ):
self.convert__pointData2vtu( tag=tag )
if ( self.vtkFileType == "PolyData" ):
self.generate__surfacePolyData( tag=tag )
def addGrid(self, grid):
nx, ny, nz = grid.shape[1:]
self.display.append(True)
self.grids.append(vtk.vtkStructuredGrid())
self.grids[-1].SetExtent(0, nz-1, 0, ny-1, 0, nx-1)
p = vtk.vtkPoints()
shp = grid.shape
grid.shape = (3, nx*ny*nz)
p.SetData(vtknp.numpy_to_vtk(np.ascontiguousarray(grid.T), deep=True, array_type=vtknp.get_vtk_array_type(grid.dtype)))
grid.shape = shp
self.grids[-1].SetPoints(p)
#Couleur
color = np.random.rand(3)
#Create a vtkOutlineFilter to draw the bounding box of the data set.
ol = vtk.vtkOutlineFilter()
if (vtk.vtkVersion().GetVTKMajorVersion()>=6):
ol.SetInputData(self.grids[-1])
else:
ol.SetInput(self.grids[-1])
olm = vtk.vtkPolyDataMapper()
olm.SetInputConnection(ol.GetOutputPort())
ola = vtk.vtkActor()
ola.SetMapper(olm)
ola.GetProperty().SetColor(color)
s=vtk.vtkShrinkFilter()
if (vtk.vtkVersion().GetVTKMajorVersion()>=6):
s.SetInputData(self.grids[-1])
else:
s.SetInput(self.grids[-1])
s.SetShrinkFactor(0.8)
#
mapper = vtk.vtkDataSetMapper()
#map.SetInputData(data)
mapper.SetInputConnection(s.GetOutputPort())
act = vtk.vtkLODActor()
act.SetMapper(mapper)
#act.GetProperty().SetRepresentationToWireframe()
#act.GetProperty().SetRepresentationToPoints()
act.GetProperty().SetColor(color)
act.GetProperty().SetEdgeColor(color)
act.GetProperty().EdgeVisibilityOff()
self.actors.append(act)
self.setBounds()
self.ren.SetActiveCamera(self.cam)
def saveVectorField(self):
nxv, nyv = 101, 101
vi = mint.VectorInterp()
vi.setGrid(self.grid)
vi.buildLocator(numCellsPerBucket=100, periodX=0.)
xx, yy = numpy.meshgrid(
numpy.linspace(self.xymin[0], self.xymax[0], nxv),
numpy.linspace(self.xymin[1], self.xymax[1], nyv))
xyz = numpy.zeros((nxv * nyv, 3), numpy.float64)
xyz[:, 0] = xx.flat
xyz[:, 1] = yy.flat
vi.findPoints(xyz)
vectors_edge = vi.getEdgeVectors(self.data,
placement=mint.CELL_BY_CELL_DATA)
vectors_face = vi.getFaceVectors(self.data,
placement=mint.CELL_BY_CELL_DATA)
ptsData = vtk.vtkDoubleArray()
ptsData.SetNumberOfComponents(3)
ptsData.SetNumberOfTuples(nxv * nyv)
ptsData.SetVoidArray(xyz, nxv * nyv * 3, 1)
pts = vtk.vtkPoints()
pts.SetData(ptsData)
# add vector field
vecDataEdge = vtk.vtkDoubleArray()
vecDataEdge.SetName('vector_edge')
vecDataEdge.SetNumberOfComponents(3)
vecDataEdge.SetNumberOfTuples(nxv * nyv)
vecDataEdge.SetVoidArray(vectors_edge, nxv * nyv * 3, 1)
vecDataFace = vtk.vtkDoubleArray()
vecDataFace.SetName('vector_face')
vecDataFace.SetNumberOfComponents(3)
vecDataFace.SetNumberOfTuples(nxv * nyv)
vecDataFace.SetVoidArray(vectors_face, nxv * nyv * 3, 1)
sgrid = vtk.vtkStructuredGrid()
sgrid.SetDimensions((nxv, nyv, 1))
sgrid.SetPoints(pts)
sgrid.GetPointData().AddArray(vecDataEdge)
sgrid.GetPointData().AddArray(vecDataFace)
writer = vtk.vtkStructuredGridWriter()
writer.SetFileName('vectors.vtk')
writer.SetInputData(sgrid)
writer.Update()
def plotWithVTK(n, x, u):
# Stockage des donnees au format VTK
pts = vtk.vtkPoints()
pts.SetData(numpy_support.numpy_to_vtk(x))
uvtk = numpy_support.numpy_to_vtk(u)
uvtk.SetName("u")
data = vtk.vtkStructuredGrid()
nn = n + [1]*(3 - len(n))
data.SetDimensions(nn)
data.SetPoints(pts)
data.GetPointData().SetScalars(uvtk)
data.Update()
# Sortie fichier
w = vtk.vtkXMLStructuredGridWriter()
w.SetFileName("poisson.vts")
w.SetInput(data)
w.Write()
def testStructured2D(self):
planes = ['XY', 'XZ', 'YZ']
expectedNCells = [42, 34, 68]
for plane, nCells in zip(planes,expectedNCells):
rt = vtk.vtkRTAnalyticSource()
if plane == 'XY':
rt.SetWholeExtent(-5, 5, -5, 5, 0, 0)
elif plane == 'XZ':
rt.SetWholeExtent(-5, 5, 0, 0, -5, 5)
else:
rt.SetWholeExtent(0, 0, -5, 5, -5, 5)
rt.Update()
i = rt.GetOutput()
st = vtk.vtkStructuredGrid()
st.SetDimensions(i.GetDimensions())
nps = i.GetNumberOfPoints()
ps = vtk.vtkPoints()
ps.SetNumberOfPoints(nps)
for idx in range(nps):
ps.SetPoint(idx, i.GetPoint(idx))
st.SetPoints(ps)
cyl = vtk.vtkCylinder()
cyl.SetRadius(2)
cyl.SetCenter(0,0,0)
transform = vtk.vtkTransform()
transform.RotateWXYZ(45,20,1,10)
cyl.SetTransform(transform)
c = vtk.vtkTableBasedClipDataSet()
c.SetInputData(st)
c.SetClipFunction(cyl)
c.SetInsideOut(1)
c.Update()
self.assertEqual(c.GetOutput().GetNumberOfCells(), nCells)
def genGridOnPoints(data1,gm,deep=True,grid=None,geo=None):
continents = False
xm,xM,ym,yM = None, None, None, None
useStructuredGrid = True
try:
g=data1.getGrid()
if grid is None:
x = g.getLongitude()[:]
y = g.getLatitude()[:]
xm = x[0]
xM = x[-1]
ym = y[0]
yM = y[-1]
continents=True
wrap=[0,360]
if isinstance(g,cdms2.gengrid.AbstractGenericGrid): # Ok need unstrctured grid
useStructuredGrid = False
except:
#hum no grid that's much easier
wrap=None
if grid is None:
x=data1.getAxis(-1)[:]
y=data1.getAxis(-2)[:]
xm = x[0]
xM = x[-1]
ym = y[0]
yM = y[-1]
if grid is None:
if x.ndim==1:
y = y[:,numpy.newaxis]*numpy.ones(x.shape)[numpy.newaxis,:]
x = x[numpy.newaxis,:]*numpy.ones(y.shape)
x=x.flatten()
y=y.flatten()
sh =list(x.shape)
sh.append(1)
x=numpy.reshape(x,sh)
y=numpy.reshape(y,sh)
#Ok we have our points in 2D let's create unstructured points grid
if xm is None:
xm=x.min()
if xM is None:
xM=x.max()
if ym is None:
ym=y.min()
if yM is None:
yM=y.max()
z = numpy.zeros(x.shape)
m3 = numpy.concatenate((x,y),axis=1)
m3 = numpy.concatenate((m3,z),axis=1)
deep = True
pts = vtk.vtkPoints()
## Convert nupmy array to vtk ones
ppV = numpy_to_vtk_wrapper(m3,deep=deep)
pts.SetData(ppV)
else:
xm,xM,ym,yM,tmp,tmp2 = grid.GetPoints().GetBounds()
vg = grid
projection = vcs.elements["projection"][gm.projection]
xm,xM,ym,yM = getRange(gm,xm,xM,ym,yM)
if geo is None:
geo, geopts = project(pts,projection,[xm,xM,ym,yM])
## Sets the vertices into the grid
if grid is None:
if useStructuredGrid:
vg = vtk.vtkStructuredGrid()
vg.SetDimensions(data1.shape[1],data1.shape[0],1)
else:
vg = vtk.vtkUnstructuredGrid()
vg.SetPoints(geopts)
else:
vg=grid
out={"vtk_backend_grid":vg,
"xm":xm,
"xM":xM,
"ym":ym,
"yM":yM,
"continents":continents,
"wrap":wrap,
"geo":geo,
}
return out
os.remove("test-dim.vtk")
assert(r.GetOutput().GetExtent() == (0,2,0,2,0,2))
w.SetInputData(rg)
w.SetFileName("test-dim.vtk")
w.SetWriteExtent(True)
w.Write()
r.Modified()
r.Update()
assert(r.GetOutput().GetExtent() == (1,3,1,3,1,3))
sg = vtk.vtkStructuredGrid()
extents = (1, 3, 1, 3, 1, 3)
sg.SetExtent(extents)
ptsa = vtk.vtkFloatArray()
ptsa.SetNumberOfComponents(3)
ptsa.SetNumberOfTuples(27)
# We don't really care about point coordinates being correct
for i in range(27):
ptsa.InsertNextTuple3(0, 0, 0)
pts = vtk.vtkPoints()
pts.SetData(ptsa)
sg.SetPoints(pts)
w = vtk.vtkStructuredGridWriter()
w.SetInputData(sg)
w.SetFileName("test-dim.vtk")
from NACA import create_wing
import numpy
import vtk
import dakota_utils
n_naca_pts = 50
wing=create_wing("/home/david/Documents/Projet/Optim_INSA_5GMM/examples/Dakota/test_wing/TEST",n_naca_pts) # desole pour le chemin
n_sections=len(wing)
n_section_pts = 2*n_naca_pts-1
# build mesh
vtk_model = vtk.vtkStructuredGrid()
vtk_model.SetDimensions(n_section_pts,n_sections,1)
# build points
vtk_points = vtk.vtkPoints()
for j in xrange(n_sections):
upper_pts = numpy.array([wing[j][1],wing[j][3]]).T
lower_pts = numpy.array([wing[j][2],wing[j][4]]).T
section_pts = numpy.concatenate((lower_pts[::-1],upper_pts[1:]))
for i in xrange(n_section_pts):
vtk_points.InsertNextPoint(section_pts[i,0],wing[j][0],section_pts[i,1])
# set points
vtk_model.SetPoints(vtk_points)
# convert to poly data
pdata_filter = vtk.vtkGeometryFilter()
if vtk.VTK_MAJOR_VERSION <= 5:
pdata_filter.SetInput(vtk_model)
else:
pdata_filter.SetInputData(vtk_model)
def create_mesh_linear_interp(filename,root,tip,span,n_sections,n_naca_points=150):
if n_sections%2 == 0:
raise ValueError("Merci de donner un nombre de sections impair")
if type(root) is not list:
raise TypeError("Le deuxieme argument doit etre une liste contenant M,P,T et Chord pour la section root.")
if type(tip) is not list:
raise TypeError("Le troisieme argument doit etre une liste contenant M,P,T et Chord pour la section tip.")
if type(filename) is not str:
raise TypeError("Le premier argument doit etre un string (nom du fichier de sortie).")
if len(root)!=4:
raise ValueError("Le deuxieme argument doit etre une liste contenant 4 valeurs (M,P,T,Chord).")
if len(tip)!=4:
raise ValueError("Le troisieme argument doit etre une liste contenant 4 valeurs (M,P,T,Chord).")
ind_root=(n_sections-1)//2
semi_span = span/2.
theta = numpy.linspace(0.,numpy.pi,n_sections)
y_list = -semi_span*numpy.cos(theta)
y_list[ind_root]=0. # souvent 10^-16
m_root,p_root,t_root,chord_root=root
m_tip,p_tip,t_tip,chord_tip=tip
Xu_tip,Xl_tip,Yu_tip,Yl_tip = NACA.create(m_tip,p_tip,t_tip,chord_tip,n_naca_points)
upper_tip = numpy.array([Xu_tip,Yu_tip]).T
lower_tip = numpy.array([Xl_tip,Yl_tip]).T
tip_section = numpy.concatenate((lower_tip[::-1],upper_tip[1:]))
Xu_root,Xl_root,Yu_root,Yl_root = NACA.create(m_root,p_root,t_root,chord_root,n_naca_points)
upper_root = numpy.array([Xu_root,Yu_root]).T
lower_root = numpy.array([Xl_root,Yl_root]).T
root_section = numpy.concatenate((lower_root[::-1],upper_root[1:]))
# build mesh
vtk_model = vtk.vtkStructuredGrid()
vtk_model.SetDimensions(2*n_naca_points-1,n_sections,1)
# build points
vtk_points = vtk.vtkPoints()
for i in xrange(n_sections):
r = numpy.abs(y_list[i])/semi_span
current_section = (1.-r)*root_section + r*tip_section
for j in xrange(2*n_naca_points-1):
vtk_points.InsertNextPoint(current_section[j,0],y_list[i],current_section[j,1])
# set points
vtk_model.SetPoints(vtk_points)
# convert to poly data
pdata_filter = vtk.vtkGeometryFilter()
if vtk.VTK_MAJOR_VERSION <= 5:
pdata_filter.SetInput(vtk_model)
else:
pdata_filter.SetInputData(vtk_model)
pdata_filter.Update()
poly_data = pdata_filter.GetOutput()
# compute normals
norms = vtk.vtkPolyDataNormals()
if vtk.VTK_MAJOR_VERSION <= 5:
norms.SetInput(poly_data)
else:
norms.SetInputData(poly_data)
norms.ComputePointNormalsOff()
norms.ComputeCellNormalsOn()
norms.ConsistencyOn()
norms.Update()
# clean poly data
clean_poly = vtk.vtkCleanPolyData()
clean_poly.ToleranceIsAbsoluteOn()
clean_poly.SetAbsoluteTolerance(1.e-6)
if vtk.VTK_MAJOR_VERSION <= 5:
clean_poly.SetInput(norms.GetOutput())
else:
clean_poly.SetInputData(norms.GetOutput())
clean_poly.Update()
# write output mesh
writer = vtk.vtkXMLPolyDataWriter()
if vtk.VTK_MAJOR_VERSION <= 5:
writer.SetInput(clean_poly.GetOutput())
else:
writer.SetInputData(clean_poly.GetOutput())
writer.SetFileName(filename+'.vtp')
writer.Write()
# In the case of Windows, these classes cause a crash. classWindowsExceptions = set([ "vtkWin32VideoSource", # Update() works the first time but a subsequent run calls up the webcam which crashes on close. "vtkCMLMoleculeReader", "vtkCPExodusIIInSituReader", "vtkMINCImageWriter", "vtkQtInitialization" ]) classExceptions = set() emptyPD = vtk.vtkPolyData() emptyID = vtk.vtkImageData() emptySG = vtk.vtkStructuredGrid() emptyUG = vtk.vtkUnstructuredGrid() emptyRG = vtk.vtkRectilinearGrid() # This will hold the classes to be tested. vtkClasses = set() classNames = None # Keep a record of the classes tested. nonexistentClasses = set() abstractClasses = set() noConcreteImplementation = set() noUpdate = set() noShutdown = set() noSetInput = set() noObserver = set()
def render_geometry(self, vx, vy, vz, mv, **kwargs):
""" create geometry """
self.hasData = False
gridData = kwargs.get('gridData', True)
if gridData:
self.gridfunc = vtk.vtkStructuredGrid()
else:
self.gridfunc = vtk.vtkRectilinearGrid()
# check data structure
if type(vx) is not numpy.ndarray or type(vy) is not numpy.ndarray:
logging.error('X,Y vectors must be numpy arrays')
return False
if type(vz) is not numpy.ndarray:
logging.error('Z vector must be numpy array')
return False
if isinstance(mv, (list, tuple)) and len(mv) > 0:
logging.error('V scalars must be numpy array')
return False
if len(vx) == 0 or len(vy) == 0 or len(vz) == 0:
logging.error('Zero size data')
return False
mva = isinstance(mv, numpy.ndarray) and mv.any()
if vz.ndim != 2:
logging.error('Z must be 2 dimensional numpy matrix')
return False
if vz[0].size != vy.size:
logging.error('Y dimension not match')
return False
if vz.transpose()[0].size != vx.size:
logging.error('X dimension not match')
return False
if mva:
if mv.size != vz.size or vz[0].size != mv[0].size or vz[1].size != mv[1].size:
logging.error('Z and V dimension not match')
return False
Nx = vx.size
Ny = vy.size
Nz = vz.size
# put data, z, into a 2D structured grid
self.Points = vtk.vtkPoints()
[self.Points.InsertNextPoint(vx[i], vy[j], vz[i, j]) for j in xrange(Ny) for i in xrange(Nx)]
if gridData:
self.gridfunc.SetDimensions(Nx, Ny, 1)
self.gridfunc.SetPoints(self.Points)
else:
xCoords = vtk.vtkFloatArray()
[xCoords.InsertNextValue(vx[i]) for i in xrange(Nx)]
yCoords = vtk.vtkFloatArray()
[yCoords.InsertNextValue(vy[j]) for j in xrange(Ny)]
s = list(vz.flatten())
vz = numpy.array(s)
# vz.sort()
Nz = vz.size
zCoords = vtk.vtkFloatArray()
[zCoords.InsertNextValue(vz[k]) for k in xrange(Nz)]
vCoords = vtk.vtkFloatArray()
[vCoords.InsertNextValue(n) for n in xrange(1)]
self.gridfunc.SetDimensions(Nx, Ny, 1)
self.gridfunc.SetXCoordinates(xCoords)
self.gridfunc.SetYCoordinates(yCoords)
self.gridfunc.SetZCoordinates(vCoords)
# get scalar field from z/v-values
self.Colors = vtk.vtkFloatArray()
self.Colors.SetNumberOfComponents(1)
self.Colors.SetNumberOfTuples(Nx * Ny)
pt = mv if mva else vz
[self.Colors.InsertComponent(i + j * Nx, 0, pt[i, j]) for j in xrange(Ny) for i in xrange(Nx)]
self.gridfunc.GetPointData().SetScalars(self.Colors)
self.hasData = True
# scaling
Xrange = vx.max() - vx.min()
Yrange = vy.max() - vy.min()
# filter none
Zrange = numpy.nanmax(vz) - numpy.nanmin(vz)
# must have x or y ranges
if 0 in (Xrange, Yrange):
logging.error('Zero X or Y Axis Range: %s', (Xrange, Yrange))
self.hasData = False
raise Exception('Zero X or Y Axis Range: %s', (Xrange, Yrange))
self.XLimit = (vx.min(), vx.max())
self.YLimit = (vy.min(), vy.max())
self.ZLimit = (numpy.nanmin(vz), numpy.nanmax(vz))
# check for constant Z range
if Zrange == 0:
Zrange = max(Xrange, Yrange)
self.XScale = float(Zrange) / float(Xrange)
self.YScale = float(Zrange) / float(Yrange)
self.ZScale = float(Zrange) / float(Zrange)
# fire callbacks
if self.hasData:
self.fireCallbacks(callback='OnDataRange')
logging.debug('Parameters: %s' % str((
Nx, Ny, Nz, ':', Xrange, Yrange, Zrange, ':', self.XScale, self.YScale,
self.ZScale, ':', self.XLimit, self.YLimit, self.ZLimit)))
return self.hasData
mbw.PointData.append(na2, 'foo') assert mbw.GetBlock(0).GetPointData().GetNumberOfArrays() == 1 assert mbw.GetBlock(1).GetPointData().GetNumberOfArrays() == 0 assert mbw.GetBlock(0).GetPointData().GetArray(0).GetName() == 'foo' mbw.PointData.append(algs.max(na2), "maxfoo") assert mbw.GetBlock(0).GetPointData().GetNumberOfArrays() == 2 assert mbw.GetBlock(1).GetPointData().GetNumberOfArrays() == 1 assert mbw.GetBlock(0).GetPointData().GetArray(1).GetName() == 'maxfoo' # -------------------------------------- mb = vtk.vtkMultiBlockDataSet() mb.SetBlock(0, vtk.vtkImageData()) mb.SetBlock(1, vtk.vtkImageData()) assert dsa.WrapDataObject(mb).Points is na mb = vtk.vtkMultiBlockDataSet() mb.SetBlock(0, vtk.vtkStructuredGrid()) mb.SetBlock(1, vtk.vtkImageData()) assert dsa.WrapDataObject(mb).Points is na mb = vtk.vtkMultiBlockDataSet() sg = vtk.vtkStructuredGrid() sg.SetPoints(vtk.vtkPoints()) mb.SetBlock(0, sg) mb.SetBlock(1, vtk.vtkImageData()) assert dsa.WrapDataObject(mb).Points.Arrays[0] is not na assert dsa.WrapDataObject(mb).Points.Arrays[1] is na
def GetSource(dataType):
s = vtk.vtkRTAnalyticSource()
if dataType == 'ImageData':
return s
elif dataType == 'UnstructuredGrid':
dst = vtk.vtkDataSetTriangleFilter()
dst.SetInputConnection(s.GetOutputPort())
return dst
elif dataType == 'RectilinearGrid':
s.Update()
input = s.GetOutput()
rg = vtk.vtkRectilinearGrid()
rg.SetExtent(input.GetExtent())
dims = input.GetDimensions()
spacing = input.GetSpacing()
x = vtk.vtkFloatArray()
x.SetNumberOfTuples(dims[0])
for i in range(dims[0]):
x.SetValue(i, spacing[0]*i)
y = vtk.vtkFloatArray()
y.SetNumberOfTuples(dims[1])
for i in range(dims[1]):
y.SetValue(i, spacing[1]*i)
z = vtk.vtkFloatArray()
z.SetNumberOfTuples(dims[2])
for i in range(dims[2]):
z.SetValue(i, spacing[2]*i)
rg.SetXCoordinates(x)
rg.SetYCoordinates(y)
rg.SetZCoordinates(z)
rg.GetPointData().ShallowCopy(input.GetPointData())
pf.SetInputData(rg)
return pf
elif dataType == 'StructuredGrid':
s.Update()
input = s.GetOutput()
sg = vtk.vtkStructuredGrid()
sg.SetExtent(input.GetExtent())
pts = vtk.vtkPoints()
sg.SetPoints(pts)
npts = input.GetNumberOfPoints()
for i in range(npts):
pts.InsertNextPoint(input.GetPoint(i))
sg.GetPointData().ShallowCopy(input.GetPointData())
pf.SetInputData(sg)
return pf
elif dataType == 'Table':
s.Update()
input = s.GetOutput()
table = vtk.vtkTable()
RTData = input.GetPointData().GetArray(0)
nbTuples = RTData.GetNumberOfTuples()
array = vtk.vtkFloatArray()
array.SetName("RTData")
array.SetNumberOfTuples(nbTuples)
for i in range(0, nbTuples):
array.SetTuple1(i, float(RTData.GetTuple1(i)))
table.AddColumn(array)
pf.SetInputData(table)
return pf
def build_mesh(filename,semi_span,root_chord,tip_chord,root_m,root_p,tip_m,tip_p,t,nu=50,nv=21):
# build root section
Xu,Xl,Yu,Yl = create_naca(root_m,root_p,t,C=root_chord,n=nu)
upper = numpy.array([Xu,Yu]).T
lower = numpy.array([Xl,Yl]).T
root_section = numpy.concatenate((lower[::-1],upper[1:]))
# set x position
root_section[:,0]-=0.25*root_chord
# build tip section
Xu,Xl,Yu,Yl = create_naca(tip_m,tip_p,t,C=tip_chord,n=nu)
upper = numpy.array([Xu,Yu]).T
lower = numpy.array([Xl,Yl]).T
tip_section = numpy.concatenate((lower[::-1],upper[1:]))
# set x position
tip_section[:,0]-=0.25*tip_chord
# build mesh
vtk_model = vtk.vtkStructuredGrid()
vtk_model.SetDimensions(2*nu-1,nv,1)
# build points
vtk_points = vtk.vtkPoints()
theta = numpy.linspace(0.,numpy.pi,nv)
y_array = -semi_span*numpy.cos(theta)
#y_array = numpy.linspace(-semi_span,semi_span,nv)
for j,y in enumerate(y_array):
r = abs(y)/semi_span
current_section = (1.-r)*root_section+r*tip_section
for i in xrange(2*nu-1):
vtk_points.InsertNextPoint(current_section[i,0],y,current_section[i,1])
# set points
vtk_model.SetPoints(vtk_points)
# convert to poly data
pdata_filter = vtk.vtkGeometryFilter()
if vtk.VTK_MAJOR_VERSION <= 5:
pdata_filter.SetInput(vtk_model)
else:
pdata_filter.SetInputData(vtk_model)
pdata_filter.Update()
poly_data = pdata_filter.GetOutput()
# compute normals
norms = vtk.vtkPolyDataNormals()
if vtk.VTK_MAJOR_VERSION <= 5:
norms.SetInput(poly_data)
else:
norms.SetInputData(poly_data)
norms.ComputePointNormalsOff()
norms.ComputeCellNormalsOn()
norms.ConsistencyOn()
norms.Update()
# clean poly data
clean_poly = vtk.vtkCleanPolyData()
clean_poly.ToleranceIsAbsoluteOn()
clean_poly.SetAbsoluteTolerance(1.e-6)
if vtk.VTK_MAJOR_VERSION <= 5:
clean_poly.SetInput(norms.GetOutput())
else:
clean_poly.SetInputData(norms.GetOutput())
clean_poly.Update()
# write output mesh
writer = vtk.vtkXMLPolyDataWriter()
if vtk.VTK_MAJOR_VERSION <= 5:
writer.SetInput(clean_poly.GetOutput())
else:
writer.SetInputData(clean_poly.GetOutput())
writer.SetFileName(filename)
writer.Write()
blankedPlane = vtk.vtkStructuredGridGeometryFilter()
blankedPlane.SetInputConnection(blankIt.GetOutputPort())
blankedPlane.SetExtent(0, 100, 0, 100, 0, 0)
planeMapper = vtk.vtkPolyDataMapper()
planeMapper.SetInputConnection(blankedPlane.GetOutputPort())
planeMapper.SetScalarRange(0.197813, 0.710419)
planeActor = vtk.vtkActor()
planeActor.SetMapper(planeMapper)
# The second blanking technique uses grid data values to create the blanking.
# Here we borrow the image data and threshold on that.
#
anotherGrid = vtk.vtkStructuredGrid()
anotherGrid.CopyStructure(plane.GetOutput())
anotherGrid.GetPointData().SetScalars(blankImage.GetPointData().GetScalars())
blankGrid = vtk.vtkBlankStructuredGrid()
blankGrid.SetInputData(anotherGrid)
blankGrid.SetArrayName("blankScalars")
blankGrid.SetMinBlankingValue(-0.5)
blankGrid.SetMaxBlankingValue(0.5)
blankedPlane2 = vtk.vtkStructuredGridGeometryFilter()
blankedPlane2.SetInputConnection(blankGrid.GetOutputPort())
blankedPlane2.SetExtent(0, 100, 0, 100, 0, 0)
planeMapper2 = vtk.vtkPolyDataMapper()
planeMapper2.SetInputConnection(blankedPlane2.GetOutputPort())
points = vtk.vtkPoints() points.InsertNextPoint(-1,1,0) points.InsertNextPoint(0,1,0) points.InsertNextPoint(1,1,0) points.InsertNextPoint(-1,0,0) points.InsertNextPoint(0,0,0) points.InsertNextPoint(1,0,0) points.InsertNextPoint(-1,-1,0) points.InsertNextPoint(0,-1,0) points.InsertNextPoint(1,-1,0) faceColors = vtk.vtkFloatArray() faceColors.InsertNextValue(0) faceColors.InsertNextValue(1) faceColors.InsertNextValue(1) faceColors.InsertNextValue(2) sgrid = vtk.vtkStructuredGrid() sgrid.SetDimensions(3,3,1) sgrid.SetPoints(points) sgrid.GetCellData().SetScalars(faceColors) Cell2Point = vtk.vtkCellDataToPointData() Cell2Point.SetInputData(sgrid) Cell2Point.PassCellDataOn() Cell2Point.Update() mapper = vtk.vtkDataSetMapper() mapper.SetInputData(Cell2Point.GetStructuredGridOutput()) mapper.SetScalarModeToUsePointData() mapper.SetScalarRange(0,2) actor = vtk.vtkActor() actor.SetMapper(mapper) # Add the actors to the renderer, set the background and size ren1.AddActor(actor)
VTK_DATA_ROOT = vtkGetDataRoot() # Remove cullers so single vertex will render ren1 = vtk.vtkRenderer() ren1.GetCullers().RemoveAllItems() renWin = vtk.vtkRenderWindow() renWin.AddRenderer(ren1) iren = vtk.vtkRenderWindowInteractor() iren.SetRenderWindow(renWin) cell = vtk.vtkGenericCell() ptIds = vtk.vtkIdList() # 0D ZeroDPts = vtk.vtkPoints() ZeroDPts.SetNumberOfPoints(1) ZeroDPts.SetPoint(0,0,0,0) ZeroDGrid = vtk.vtkStructuredGrid() ZeroDGrid.SetDimensions(1,1,1) ZeroDGrid.SetPoints(ZeroDPts) ZeroDGrid.GetCell(0) ZeroDGrid.GetCell(0,cell) ZeroDGrid.GetCellPoints(0,ptIds) ZeroDGeom = vtk.vtkStructuredGridGeometryFilter() ZeroDGeom.SetInputData(ZeroDGrid) ZeroDGeom.SetExtent(0,2,0,2,0,2) ZeroDMapper = vtk.vtkPolyDataMapper() ZeroDMapper.SetInputConnection(ZeroDGeom.GetOutputPort()) ZeroDActor = vtk.vtkActor() ZeroDActor.SetMapper(ZeroDMapper) ZeroDActor.SetPosition(0,0,0) ren1.AddActor(ZeroDActor) # 1D - X
def GetSource(dataType):
s = vtk.vtkRTAnalyticSource()
# Fake serial source
if rank == 0:
s.Update()
if dataType == 'ImageData':
return s.GetOutput()
elif dataType == 'UnstructuredGrid':
dst = vtk.vtkDataSetTriangleFilter()
dst.SetInputData(s.GetOutput())
dst.Update()
return dst.GetOutput()
elif dataType == 'RectilinearGrid':
input = s.GetOutput()
rg = vtk.vtkRectilinearGrid()
rg.SetExtent(input.GetExtent())
dims = input.GetDimensions()
spacing = input.GetSpacing()
x = vtk.vtkFloatArray()
x.SetNumberOfTuples(dims[0])
for i in range(dims[0]):
x.SetValue(i, spacing[0]*i)
y = vtk.vtkFloatArray()
y.SetNumberOfTuples(dims[1])
for i in range(dims[1]):
y.SetValue(i, spacing[1]*i)
z = vtk.vtkFloatArray()
z.SetNumberOfTuples(dims[2])
for i in range(dims[2]):
z.SetValue(i, spacing[2]*i)
rg.SetXCoordinates(x)
rg.SetYCoordinates(y)
rg.SetZCoordinates(z)
rg.GetPointData().ShallowCopy(input.GetPointData())
return rg
elif dataType == 'StructuredGrid':
input = s.GetOutput()
sg = vtk.vtkStructuredGrid()
sg.SetExtent(input.GetExtent())
pts = vtk.vtkPoints()
sg.SetPoints(pts)
npts = input.GetNumberOfPoints()
for i in xrange(npts):
pts.InsertNextPoint(input.GetPoint(i))
sg.GetPointData().ShallowCopy(input.GetPointData())
return sg
def create_mesh_linear_interp(m_root,p_root,t_root,m_tip,p_tip,t_tip,ystart,yend,chord,n_sections,n_naca_points=150):
if n_sections%2 == 0:
raise ValueError("Merci de donner un nombre de sections impair")
ind_root=(n_sections-1)//2
semi_span = (ystart-yend)/2
theta = numpy.linspace(0.,numpy.pi,n_sections)
y_list = -semi_span*numpy.cos(theta)
y_list[ind_root]=0. # souvent 10^-16
Xu_tip,Xl_tip,Yu_tip,Yl_tip = create(m_tip,p_tip,t_tip,chord,n_naca_points)
upper_tip = numpy.array([Xu_tip,Yu_tip]).T
lower_tip = numpy.array([Xl_tip,Yl_tip]).T
tip_section = numpy.concatenate((upper_tip[::-1],lower_tip[1:]))
Xu_root,Xl_root,Yu_root,Yl_root = create(m_root,p_root,t_root,chord,n_naca_points)
upper_root = numpy.array([Xu_root,Yu_root]).T
lower_root = numpy.array([Xl_root,Yl_root]).T
root_section = numpy.concatenate((upper_root[::-1],lower_root[1:]))
# build mesh
vtk_model = vtk.vtkStructuredGrid()
vtk_model.SetDimensions(2*n_naca_points-1,n_sections,1)
# build points
vtk_points = vtk.vtkPoints()
for i in xrange(n_sections):
r = numpy.abs(y_list[i])/semi_span
current_section = (1.-r)*root_section + r*tip_section
for j in xrange(2*n_naca_points-1):
vtk_points.InsertNextPoint(current_section[j,0],y_list[i],current_section[j,1])
# set points
vtk_model.SetPoints(vtk_points)
# convert to poly data
pdata_filter = vtk.vtkGeometryFilter()
if vtk.VTK_MAJOR_VERSION <= 5:
pdata_filter.SetInput(vtk_model)
else:
pdata_filter.SetInputData(vtk_model)
pdata_filter.Update()
poly_data = pdata_filter.GetOutput()
# compute normals
norms = vtk.vtkPolyDataNormals()
if vtk.VTK_MAJOR_VERSION <= 5:
norms.SetInput(poly_data)
else:
norms.SetInputData(poly_data)
norms.ComputePointNormalsOff()
norms.ComputeCellNormalsOn()
norms.ConsistencyOn()
norms.Update()
# clean poly data
clean_poly = vtk.vtkCleanPolyData()
clean_poly.ToleranceIsAbsoluteOn()
clean_poly.SetAbsoluteTolerance(1.e-6)
if vtk.VTK_MAJOR_VERSION <= 5:
clean_poly.SetInput(norms.GetOutput())
else:
clean_poly.SetInputData(norms.GetOutput())
clean_poly.Update()
# write output mesh
writer = vtk.vtkXMLPolyDataWriter()
if vtk.VTK_MAJOR_VERSION <= 5:
writer.SetInput(clean_poly.GetOutput())
else:
writer.SetInputData(clean_poly.GetOutput())
writer.SetFileName('output.vtp')
writer.Write()
ExtractGrid1.SetIncludeBoundary(0)
ExtractGrid2 = vtk.vtkExtractGrid()
ExtractGrid2.SetInputData(output)
ExtractGrid2.SetVOI(29,56,0,32,0,24)
ExtractGrid2.SetSampleRate(1,1,1)
ExtractGrid2.SetIncludeBoundary(0)
LineSourceWidget0 = vtk.vtkLineSource()
LineSourceWidget0.SetPoint1(3.05638,-3.00497,28.2211)
LineSourceWidget0.SetPoint2(3.05638,3.95916,28.2211)
LineSourceWidget0.SetResolution(20)
mbds = vtk.vtkMultiBlockDataSet()
mbds.SetNumberOfBlocks(3)
i = 0
while i < 3:
locals()[get_variable_name("ExtractGrid", i, "")].Update()
locals()[get_variable_name("sg", i, "")] = vtk.vtkStructuredGrid()
locals()[get_variable_name("sg", i, "")].ShallowCopy(locals()[get_variable_name("ExtractGrid", i, "")].GetOutput())
mbds.SetBlock(i,locals()[get_variable_name("sg", i, "")])
del locals()[get_variable_name("sg", i, "")]
i = i + 1
Stream0 = vtk.vtkStreamTracer()
Stream0.SetInputData(mbds)
Stream0.SetSourceConnection(LineSourceWidget0.GetOutputPort())
Stream0.SetIntegrationStepUnit(2)
Stream0.SetMaximumPropagation(20)
Stream0.SetInitialIntegrationStep(0.5)
Stream0.SetIntegrationDirection(0)
Stream0.SetIntegratorType(0)
Stream0.SetMaximumNumberOfSteps(2000)
Stream0.SetTerminalSpeed(1e-12)