def preview(self):
""" Display a preview of the data structure in the preview
window.
"""
self._preview_window.clear()
self._preview_window.add_source(self.data_source)
data = lambda name: self.data_sources[name]
g = Glyph()
g.glyph.glyph_source.glyph_source = \
g.glyph.glyph_source.glyph_list[0]
g.glyph.scale_mode = 'data_scaling_off'
if not (self.has_vector_data or self.data_type_ == 'vector'):
g.glyph.glyph_source.glyph_source.glyph_type = 'cross'
g.actor.property.representation = 'points'
g.actor.property.point_size = 3.
self._preview_window.add_module(g)
if not self.data_type_ in ('point', 'vector') or self.lines:
s = Surface()
s.actor.property.opacity = 0.3
self._preview_window.add_module(s)
if not self.data_type_ == 'point':
self._preview_window.add_filter(ExtractEdges())
s = Surface()
s.actor.property.opacity = 0.2
self._preview_window.add_module(s)
def create_plot(self):
from mayavi.modules.api import Surface, Vectors
self.surface = Surface()
self.surface1 = Surface()
self.surface1.actor.property.representation = 'wireframe'
self.surface1.actor.actor.visibility = self.enable_grid
self.surface.actor.actor.visibility = self.enable_surface
self.vectors = Vectors()
self.engine = self.scene.engine
self.engine.add_source(self.src)
self.engine.add_module(self.surface, obj=self.src)
self.engine.add_module(self.surface1, obj=self.src)
self.engine.add_module(self.vectors, obj=self.src)
self.module_manager = self.engine.scenes[0].children[0].children[0]
self.module_manager.vector_lut_manager.show_legend = True
self.vectors.actor.actor.visibility = self.enable_vectors
self.surface.actor.actor.visibility = self.enable_surface
if self.legend == "Scalar Legend":
self.module_manager.vector_lut_manager.show_legend = False
self.module_manager.scalar_lut_manager.show_legend = True
else:
self.module_manager.vector_lut_manager.show_legend = True
self.module_manager.scalar_lut_manager.show_legend = False
if self.point_cell == "Point Data":
self.module_manager.lut_data_mode = 'point data'
else:
self.module_manager.lut_data_mode = 'cell data'
self.vectors.glyph.glyph.scale_factor = self.vector_scale_size
self.src.point_scalars_name = 'abs^2'
self.src.cell_scalars_name = 'abs^2'
def _show_one_gaussian(self, gauss, engine, scale=1.0):
"""Plot one of the gaussians."""
from mayavi.sources.api import ParametricSurface
from mayavi.modules.api import Surface
source = ParametricSurface()
source.function = 'ellipsoid'
engine.add_source(source)
eigval, eigvec = np.linalg.eig(gauss.sigma)
angles = rotationMatrixToEulerAngles(eigvec.T) * 180.0 / np.pi
surface = Surface()
source.add_module(surface)
actor = surface.actor
actor.property.opacity = 0.5
actor.property.color = tuple(np.random.rand(3))
actor.mapper.scalar_visibility = False
actor.property.backface_culling = True
actor.actor.orientation = np.array([0.0, 0.0, 0.0])
actor.actor.origin = np.array([0.0, 0.0, 0.0])
actor.actor.position = np.array(gauss.mu)
actor.actor.scale = np.array(scale * np.sqrt(eigval))
actor.actor.rotate_x(angles[0])
actor.actor.rotate_y(angles[1])
actor.actor.rotate_z(angles[2])
return surface
def plot_stiffness(self, editor, object):
'''This method gets the input data from the current tstepper
which is the root of the tree. Sets up the context and
gets the stiffness matrix.
'''
K = self._get_stiffness(editor, object)
K_dense = DenseMtx(assemb=K)
# prepare plotting of the matrix in Mayavi
#
z_data = K_dense.mtx.flatten()
z_max = max(z_data)
n_dofs = K.n_dofs
spoints = tvtk.StructuredPoints(origin=(0, 0, 0),
spacing=(1, -1, 1),
dimensions=(n_dofs, n_dofs, 1))
spoints.point_data.scalars = z_data
spoints.point_data.scalars.name = 'Stiffness'
e = get_engine()
src = VTKDataSource(data=spoints)
e.add_source(src)
scale_factor = .1 / float(z_max) * n_dofs
ws = WarpScalar()
ws.filter.scale_factor = scale_factor
e.add_filter(ws)
e.add_filter(PolyDataNormals())
s = Surface()
e.add_module(s)
def setUp(self):
"""Initial setting up of test fixture, automatically called by TestCase before any other test method is invoked"""
e = NullEngine()
# Uncomment to see visualization for debugging etc.
#e = Engine()
e.start()
e.new_scene()
self.e = e
r = VTKXMLFileReader()
r.initialize(get_example_data('pyramid_ug.vtu'))
e.add_source(r)
r.point_scalars_name = 'temperature'
o = Outline()
e.add_module(o)
c = Contour()
e.add_filter(c)
n = PolyDataNormals()
e.add_filter(n)
aa = SetActiveAttribute()
e.add_filter(aa)
aa.point_scalars_name = 'pressure'
s = Surface()
e.add_module(s)
self.scene = e.current_scene
return
def setup(self):
m = mlab
fname = self.vis3d.file_list[0]
var = self.vis3d.var
self.d = VTKXMLFileReader()
self.d.initialize(fname)
self.src = m.pipeline.add_dataset(self.d)
self.warp_vector = m.pipeline.warp_vector(self.src)
#self.surf = m.pipeline.surface(self.warp_vector)
engine = m.get_engine()
self.etc = ExtractTensorComponents()
engine.add_filter(self.etc, self.warp_vector)
surface2 = Surface()
self.surface = surface2
engine.add_filter(surface2, self.etc)
lut = self.etc.children[0]
lut.scalar_lut_manager.set(show_scalar_bar=True,
show_legend=True,
data_name=var)
lut.scalar_lut_manager.scalar_bar.orientation = 'horizontal'
lut.scalar_lut_manager.scalar_bar_representation.trait_set(
maximum_size=np.array([100000, 100000]),
minimum_size=np.array([1, 1]),
position=np.array([0.3, 0.05]),
position2=np.array([0.65, 0.1]),
)
lut.scalar_lut_manager.label_text_property.trait_set(
font_family='times', italic=False, bold=False)
lut.scalar_lut_manager.title_text_property.trait_set(
font_family='times', italic=False, bold=False)
self.etc.filter.scalar_mode = 'component'
def _add_sources_to_scene(self):
"""Add the sources to the main scene."""
mayavi_engine = self.mlab_model.engine
mayavi_engine.add_source(self.sources[0])
mayavi_engine.add_module(Surface())
self._add_liggghts_source_to_scene(self.sources[1])
self._add_liggghts_source_to_scene(self.sources[2])
def _animate(self):
self.scene.engine.current_scene = self.scene4.mayavi_scene
src = mlab.pipeline.open((self.address+'\density\density_00.vtu'))
src.play = False
src.add_module(Surface(name='animate_density'))
# self.scene.engine.current_scene.children[0].children[0].children[0].enable_contours=True
# self.scene.engine.current_scene.children[0].children[0].children[0].contour.filled_contours=True
self.scene.engine.current_scene.children[0].children[0].children[0].module_manager.scalar_lut_manager.show_legend=True
def create_plot(self):
from mayavi.modules.api import Surface, Vectors
self.surface = Surface()
self.surface1 = Surface()
self.surface1.actor.property.representation = 'wireframe'
self.surface1.actor.actor.visibility = self.enable_grid
self.surface.actor.actor.visibility = self.enable_surface
self.engine = self.scene.engine
self.engine.add_source(self.src)
self.engine.add_module(self.surface, obj=self.src)
self.engine.add_module(self.surface1, obj=self.src)
self.module_manager = self.engine.scenes[0].children[0].children[0]
self.surface.actor.actor.visibility = self.enable_surface
self.module_manager.scalar_lut_manager.show_legend = self.enable_legend
if self.point_cell == "Point Data":
self.module_manager.lut_data_mode = 'point data'
else:
self.module_manager.lut_data_mode = 'cell data'
def generate_data_mayavi(self):
"""Shows how you can generate data using mayavi instead of mlab."""
from mayavi.sources.api import ParametricSurface
from mayavi.modules.api import Outline, Surface
e = self.scene.engine
s = ParametricSurface()
e.add_source(s)
e.add_module(Outline())
e.add_module(Surface())
def xregister_mv_pipelines(self, e):
'''Register as a source in the pipelane
'''
# Remarks[rch]:
#
# Pipeline construction
# ---------------------
# Maybe this should be done only on demand
# when the visualization is requested either by the update
# event triggered here, or by the user. For a batch-like
# simulation no scenes would be necessary.
#
# In that case, the engine could be simply registered and
# the pipeline construction can be deffered to the explicit
# request.
#
# Further question concerns the multiplicity of the relations.
# One tracer can construct several sources. The source can be
# for example the standard array source or parametric surface.
# There should be no link back to the tracer.
#
# Links between tracers and scenes
# --------------------------------
# On the other hand, several tracers can contribute to a single
# scene. Then the tracer explicitly specifies the name
# of the scene it is contributing to. This type of sharing makes
# sence if the spatial context of the tracer is the same.
#
# The scene management is a separate issue, no general
# rules can be formulated at this time.
#
scene = e.new_scene()
scene.name = 'Polar domain'
# Construct the source
from mayavi.sources.vtk_data_source import VTKDataSource
from tvtk.api import tvtk
self._mv_src = VTKDataSource(name='Time-Strain Cylinder',
data=tvtk.PolyData())
e.add_source(self._mv_src)
# Construct the warp filter
if self.var_warp_on:
from mayavi.filters.api import WarpVector
e.add_filter(WarpVector())
# Construct visualization modules
from mayavi.modules.api import Outline, Surface
s = Surface()
e.add_module(Outline())
e.add_module(s)
s.module_manager.scalar_lut_manager.show_scalar_bar = True
s.module_manager.scalar_lut_manager.reverse_lut = True
def __init__(self, **kw):
e = get_engine()
super(MVPolyData, self).__init__(**kw)
from mayavi.modules.api import Outline, Surface, Labels
self.src = VTKDataSource(name=self.name, data=self.pd)
e.add_source(self.src)
o = Outline()
e.add_module(o)
s = Surface()
e.add_module(s)
def do(self):
script = self.script
############################################################
# Create a new scene and set up the visualization.
scene = self.new_scene()
# Read a VTK (old style) data file.
source = VTKFileReader()
source.initialize(get_example_data('heart.vtk'))
script.add_source(source)
script.add_module(Surface())
# In order to test the restoration of visualization properly
# we should modify the camera
view(130., 44., 65., [14., 14., 14.])
############################################################
# Test if saving a visualization and restoring it works.
# Save visualization.
f = BytesIO()
f.name = abspath('test.mv2') # We simulate a file.
script.save_visualization(f)
f.seek(0) # So we can read this saved data.
# This is the old camera state
old_camera_state = get_state(scene.scene.camera)
# Remove existing scene.
engine = script.engine
engine.close_scene(scene)
# Load visualization
script.load_visualization(f)
scene = engine.current_scene
# Now do the check.
new_camera_state = get_state(scene.scene.camera)
for attr, new_value in new_camera_state.items():
if attr.startswith("_"):
continue
new_value = array(new_value)
old_value = array(old_camera_state[attr])
assert (new_value == old_value).all()
def rebuild_pipeline(self, pd):
src = VTKFileReader(base_file_name='%s_0.vtk' % self.position)
self.engine.add_source(src)
if self.warp:
self.engine.add_filter(WarpVector())
if self.name in src._point_tensors_list:
src.point_tensors_name = self.name
self.engine.add_filter(ExtractTensorComponents())
elif self.name in src._point_vectors_list:
src.point_vectors_name = self.name
self.engine.add_filter(ExtractVectorComponents())
elif self.name in src._point_scalars_list:
src.point_scalars_name = self.name
s = Surface()
s.actor.property.point_size = 5.
self.engine.add_module(s)
src.scene.z_plus_view()
def rebuild_pipeline(self, pd):
src = VTKDataSource(name=self.name, data=pd)
self.engine.add_source(src)
if self.warp:
self.engine.add_filter(WarpVector())
if self.name in src._point_tensors_list:
src.point_tensors_name = self.name
self.engine.add_filter(ExtractTensorComponents())
elif self.name in src._point_vectors_list:
src.point_vectors_name = self.name
self.engine.add_filter(ExtractVectorComponents())
elif self.name in src._point_scalars_list:
src.point_scalars_name = self.name
s = Surface()
s.actor.property.point_size = 5.
self.engine.add_module(s)
src.scene.z_plus_view()
def atomic_displacement_ellipsoids(self, ux, uy, uz,
Uxx, Uyy, Uzz, Uyz, Uxz, Uxy,
colors, p=0.99):
self.fig.scene.disable_render = True
n_atm = ux.shape[0]
for i in range(n_atm):
s, a = self.__probability_ellipsoid(Uxx[i], Uyy[i], Uzz[i],
Uyz[i], Uxz[i], Uxy[i], p)
source = ParametricSurface()
source.function = 'ellipsoid'
self.engine.add_source(source)
surface = Surface()
source.add_module(surface)
actor = surface.actor
actor.property.opacity = 1.0
actor.property.color = colors[i]
actor.mapper.scalar_visibility = False
actor.property.backface_culling = True
actor.property.diffuse = 1.0
actor.property.specular = 0.0
actor.actor.origin = np.array([0,0,0])
actor.actor.position = np.array([ux[i],uy[i],uz[i]])
actor.actor.scale = np.array([s[0],s[1],s[2]])
actor.actor.orientation = np.array([a[0],a[1],a[2]]) #ZXY
actor.enable_texture = True
actor.property.representation = 'surface'
self.fig.scene.disable_render = False
def setup(self):
m = mlab
fname = self.vis3d.file_list[0]
self.d = VTKXMLFileReader()
self.d.initialize(fname)
self.src = m.pipeline.add_dataset(self.d)
self.warp_vector = m.pipeline.warp_vector(self.src)
self.surf = m.pipeline.surface(self.warp_vector)
engine = m.get_engine()
etc = ExtractTensorComponents()
engine.add_filter(etc, self.warp_vector)
surface2 = Surface()
engine.add_filter(surface2, etc)
etc.filter.scalar_mode = 'component'
lut = etc.children[0]
lut.scalar_lut_manager.set(show_scalar_bar=True,
show_legend=True,
data_name='strain field')
lut.scalar_lut_manager.scalar_bar.set(height=0.1,
width=0.7,
position=np.array([0.1, 0.1]))
def __init__(self, **kw):
super(MVStructuredGrid, self).__init__(**kw)
e = get_engine()
from mayavi.modules.api import \
StructuredGridOutline, GridPlane
self.src = VTKDataSource(name=self.name, data=self.pd)
e.add_source(self.src)
o = StructuredGridOutline()
e.add_module(o)
for axis in ['x', 'y', 'z']:
g = GridPlane(name='%s - grid plane' % axis)
g.grid_plane.axis = axis
e.add_module(g)
if self.scalars or self.vectors or self.tensors:
s = Surface()
e.add_module(s)
def main():
mayavi.new_scene()
# Read the example data: fire_ug.vtu.
r = VTKXMLFileReader()
filename = join(mayavi2.get_data_dir(dirname(abspath(__file__))),
'fire_ug.vtu')
r.initialize(filename)
mayavi.add_source(r)
# Set the active point scalars to 'u'.
r.point_scalars_name = 'u'
# Simple outline for the data.
o = Outline()
mayavi.add_module(o)
# Branch the pipeline with a contour -- the outline above is
# directly attached to the source whereas the contour below is a
# filter and will branch the flow of data. An isosurface in the
# 'u' data attribute is generated and normals generated for it.
c = Contour()
mayavi.add_filter(c)
n = PolyDataNormals()
mayavi.add_filter(n)
# Now we want to show the temperature 't' on the surface of the 'u'
# iso-contour. This is easily done by using the SetActiveAttribute
# filter below.
aa = SetActiveAttribute()
mayavi.add_filter(aa)
aa.point_scalars_name = 't'
# Now view the iso-contours of 't' with a Surface filter.
s = Surface(enable_contours=True)
mayavi.add_module(s)
def _mayavi(self):
"""Shows how you can generate data using mayavi instead of mlab."""
print('updating mayavi')
e = self.scene.engine
#网格scene配置
e.current_scene = self.scene.mayavi_scene
e.add_source(self.simp_solver.resultdata.vtkdatasource_mesh)
e.add_module(Surface(name = 'mesh_wireframe'))
e.current_scene.children[0].children[0].children[0].actor.property.representation = 'wireframe'
e.current_scene.children[0].children[0].children[0].actor.property.color = (0,0,0)
e.current_scene.children[0].children[0].children[0].actor.property.line_width = 1.0
e.add_module(Surface(name='mesh_solid'))
#位移scene配置
e.current_scene = self.scene0.mayavi_scene
e.add_source(self.simp_solver.resultdata.vtkdatasource_displacement)
e.add_module(Surface(name = 'displacement'))
self.scene.engine.current_scene.children[0].children[0].children[0].enable_contours = True
self.scene.engine.current_scene.children[0].children[0].children[0].contour.filled_contours = True
self.scene.engine.current_scene.children[0].children[0].children[0].module_manager.scalar_lut_manager.show_legend = True
#应力scene配置
e.current_scene = self.scene1.mayavi_scene
e.add_source(self.simp_solver.resultdata.vtkdatasource_stress)
e.add_module(Surface(name = 'stress'))
self.scene.engine.current_scene.children[0].children[0].children[0].enable_contours = True
self.scene.engine.current_scene.children[0].children[0].children[0].contour.filled_contours = True
self.scene.engine.current_scene.children[0].children[0].children[0].module_manager.scalar_lut_manager.show_legend = True
#应变scene配置
e.current_scene = self.scene2.mayavi_scene
e.add_source(self.simp_solver.resultdata.vtkdatasource_strain)
e.add_module(Surface(name = 'strain'))
self.scene.engine.current_scene.children[0].children[0].children[0].enable_contours = True
self.scene.engine.current_scene.children[0].children[0].children[0].contour.filled_contours = True
self.scene.engine.current_scene.children[0].children[0].children[0].module_manager.scalar_lut_manager.show_legend = True
#密度scene配置
e.current_scene = self.scene3.mayavi_scene
e.add_source(self.simp_solver.resultdata.vtkdatasource_density)
e.add_module(Surface(name = 'density'))
self.scene.engine.current_scene.children[0].children[0].children[0].module_manager.scalar_lut_manager.show_legend = True
def tresdeizar(X, Y, anchox, anchoy, angulo):
engine = Engine()
engine.start()
scene = engine.new_scene()
scene.scene.disable_render = True # for speed
visual.set_viewer(scene)
surfaces = []
for k in range(0, len(X)):
source = ParametricSurface()
source.function = 'ellipsoid'
engine.add_source(source)
surface = Surface()
source.add_module(surface)
actor = surface.actor # mayavi actor, actor.actor is tvtk actor
actor.property.opacity = 0.7
actor.property.color = (0, 0, 1) # tuple(np.random.rand(3))
actor.mapper.scalar_visibility = False # don't colour ellipses by their scalar indices into colour map
actor.actor.orientation = np.array([90, angulo[k], 0
]) #* 90 #(angulo[k]) # in degrees
actor.actor.position = np.array([X[k], Y[k], 0])
actor.actor.scale = np.array(
[anchox[k] / 2, anchox[k] / 2, anchoy[k] / 2])
surfaces.append(surface)
source.scene.background = (1.0, 1.0, 1.0)
CellScann.set_img_3deizada(mlab)
return mlab.show()
def visStack(v, opacity=.5, color=(1, 0, 0), mode=''):
if mode != 'same':
mlab.figure(bgcolor=(1, 1, 1))
s = mlab.get_engine() # Returns the running mayavi engine.
scene = s.current_scene # Returns the current scene.
scene.scene.disable_render = True # for speed
origion = [0, 0, 0]
label = 'Segmentation'
A = ArraySource(scalar_data=v)
A.origin = np.array(origion)
D = s.add_source(A) # add the data to the Mayavi engine
#Apply gaussain 3d filter to smooth visualization
# F=mlab.pipeline.user_defined(D, filter='ImageGaussianSmooth')
# F.filter.set_standard_deviation(0,0,0)
contour = Contour()
s.add_filter(contour)
# smooth = mlab.pipeline.user_defined(contour, filter='SmoothPolyDataFilter')
# smooth.filter.number_of_iterations = 1
# smooth.filter.relaxation_factor = 0
surface = Surface()
s.add_module(surface)
surface.module_manager.scalar_lut_manager.lut_mode = u'coolwarm'
surface.module_manager.scalar_lut_manager.reverse_lut = True
surface.actor.property.opacity = opacity
surface.actor.mapper.scalar_visibility = False
surface.actor.property.color = color #color
return surface
def setUp(self):
"""Initial setting up of test fixture, automatically called by TestCase before any other test method is invoked"""
e = NullEngine()
# Uncomment to see visualization for debugging etc.
#e = Engine()
e.start()
e.new_scene()
self.e=e
sgrid=datasets.generateStructuredGrid()
src = VTKDataSource(data = sgrid)
e.add_source(src)
c = Contour()
# `name` is used for the notebook tabs.
n = PolyDataNormals(name='Normals')
o = Optional(filter=n, label_text='Compute normals')
coll = Collection(filters=[c, o], name='IsoSurface')
e.add_filter(coll)
s = Surface()
e.add_module(s)
self.coll = coll
self.scene = e.current_scene
return
def init_view_objects(self, *args):
"""Initialize (or re-initialize) all the view elements in the scene.
This needs to be called when q-space modeled area changes (changing the outline) or
q-resolution, etc.
"""
#Prevent drawing all the intermediate steps
self.scene.disable_render = True
#First, we need to remove any data sources and modules from a previous run,
# if they exist.
# (this is only needed when chaning q-space parameters)
for x in [
'data_src', 'point_data_src', 'iso', 'points_module_surface',
'points_module_glyph', 'outline', 'mouse_text', 'mouse_cube'
]:
if hasattr(self, x):
getattr(self, x).remove()
#Now the corner labels
if hasattr(self, 'corner_text'):
for txt in self.corner_text:
txt.remove()
engine = self.engine
#We get the qspace_displayed array from experiment and make a copy of it.
# This object will REMAIN here and just have its data updated.
self.data_src = ArraySource(
scalar_data=model.experiment.exp.get_qspace_displayed().copy())
self.data_src.scalar_name = "coverage"
self.data_src.visible = False
engine.add_source(self.data_src)
# --- Text overlay for warnings ----
txt = Text(text="(Points were thinned down)", position_in_3d=False)
txt.x_position = 0.02
txt.y_position = 0.98
txt.actor.text_scale_mode = "none"
txt.actor.text_property.font_size = 14
txt.actor.text_property.vertical_justification = "top"
self.warning_text = txt
engine.add_module(self.warning_text)
self.warning_text.visible = self.warning_text_visible
#---- Make the isosurface object that goes with the volume coverage data -----
iso = IsoSurface()
self.iso = iso
#Scale the isosurface so that the size is actually q-vector
iso.actor.actor.scale = tuple(
np.array([1.0, 1.0, 1.0]) * model.experiment.exp.inst.q_resolution)
#And we offset the position so that the center is at q-space (0,0,0)
iso.actor.actor.position = tuple(
np.array([1.0, 1.0, 1.0]) * -model.experiment.exp.inst.qlim)
# When set to 1, This helps them to show up right in partially transparent mode.
iso.actor.property.backface_culling = 0
iso.actor.property.frontface_culling = 0
#Add the module to the data source, to make it plot that data
self.data_src.add_module(iso)
# ---- Now we make a point data source, for the individual reflection plot ---
self.point_data_src = VTKDataSource(name="Reflection point positions")
self.point_data_src.visible = False
engine.add_source(self.point_data_src)
self.point_data_src.data = self.make_point_data(
) #still needs to get set.
# ---- Make a module of simple points, using the Surface module ----
self.points_module_surface = Surface()
self.points_module_surface.name = "Single reflections as pixels (Surface)"
self.point_data_src.add_module(self.points_module_surface)
# points representation = just plot a pixel for each vertex.
self.points_module_surface.actor.property.set(representation='points',
point_size=3)
# ---- Make a module of glyphs, making spheres for each point ----
self.points_module_glyph = Glyph()
self.points_module_glyph.name = "Single reflections as spheres (Glyph)"
#No scaling of glyph size with scalar data
self.points_module_glyph.glyph.scale_mode = 'data_scaling_off'
gs = self.points_module_glyph.glyph.glyph_source
gs.glyph_source = gs.glyph_dict['sphere_source']
#How many vertices does each sphere have? 3 = fastest.
gs.glyph_source.phi_resolution = 3
gs.glyph_source.theta_resolution = 3
#And how big does each sphere end up?
gs.glyph_source.radius = 0.1
#Add the module to the same point data source, to show it
self.point_data_src.add_module(self.points_module_glyph)
# Hide points initially
self.points_module_surface.visible = False
self.points_module_glyph.visible = False
#Get the color look-up table
self.points_lut = self.points_module_glyph.module_manager.scalar_lut_manager.lut.table.to_array(
)
self.points_lut_original = 1 * self.points_lut
# ---- Simple outline for all of the data. -----
self.outline = Outline()
#Manually make the outline = the modeled volume, which is +- qlim = 1/d_min
self.outline.manual_bounds = True
self.outline.bounds = tuple(
np.array([-1., 1., -1., 1., -1., 1.]) *
model.experiment.exp.inst.qlim)
#Add it to the scene directly.
engine.add_module(self.outline)
#--- Label the HKL of the corners ---
if config_gui.cfg.label_corners:
q = model.instrument.inst.qlim
#This the reciprocal lattice vectors
rec = model.experiment.exp.crystal.reciprocal_lattice
self.corner_text = []
for x in [-q, q]:
for y in [-q, q]:
for z in [-q, q]:
(h, k, l) = model.crystal_calc.get_hkl_from_q(
column([x, y, z]), rec)
label = "%d,%d,%d" % (h, k, l)
txt = Text(text=label, position_in_3d=False)
txt.position_in_3d = True
txt.x_position = x
txt.y_position = y
txt.z_position = z
txt.actor.text_scale_mode = "none"
txt.actor.text_property.font_size = 14
txt.actor.text_property.vertical_justification = "top"
txt.actor.text_property.justification = "left"
txt.actor.property.color = (0.75, 1.0, 1.0)
engine.add_module(txt)
self.corner_text.append(txt)
# ---- A text overlay, to show what is under the mouse -----
# self.mouse_text = Text(text=self.MOUSE_TEXT_WITH_NO_REFLECTION, position_in_3d=False)
# self.mouse_text.x_position=0.02
# self.mouse_text.y_position=0.98
# self.mouse_text.actor.text_scale_mode = "none"
# self.mouse_text.actor.text_property.font_size = 20
# self.mouse_text.actor.text_property.vertical_justification = "top"
# engine.add_module(self.mouse_text)
# ---- A cube highlighting where the mouse is ----
self.mouse_cube = Glyph()
self.mouse_cube.name = "Cube highlighting mouse position (Glyph)"
#No scaling of glyph size with scalar data
self.mouse_cube.glyph.scale_mode = 'data_scaling_off'
self.mouse_cube.glyph.color_mode = 'no_coloring'
gs = self.mouse_cube.glyph.glyph_source
gs.glyph_source = gs.glyph_dict['cube_source']
self.mouse_cube.actor.property.representation = "wireframe"
self.mouse_cube.actor.property.specular = 1.0 # to make edge always white
self.mouse_point_data_src = VTKDataSource()
self.mouse_point_data_src.name = "Mouse position (VTK Data)"
self.mouse_point_data_src.visible = True
engine.add_source(self.mouse_point_data_src)
self.mouse_point_data_src.data = self.make_single_point_data((0, 0, 0))
self.mouse_point_data_src.add_module(self.mouse_cube)
self.mouse_cube.visible = False
# #--- Reciprocal axes 3D view ----
# c = model.experiment.exp.crystal #@type c Crystal
# (a,b,c) = (c.recip_a, c.recip_b, c.recip_c)
# offset = model.experiment.exp.inst.qlim
# self.scene.mlab.plot3d([offset, offset+a[0]], [offset, offset+a[1]], [offset, offset+a[2]], color=(1,0,0))
# self.scene.mlab.plot3d([offset, offset+b[0]], [offset, offset+b[1]], [offset, offset+b[2]], color=(0,1,0))
# self.scene.mlab.plot3d([offset, offset+c[0]], [offset, offset+c[1]], [offset, offset+c[2]], color=(0,0,1))
#Re-enable drawing
self.scene.disable_render = False
self._engine.add_module(module)
def add_filter(self, filter):
self._engine.add_module(filter)
def clear(self):
self._engine.current_scene.scene.disable_render = True
self._engine.current_scene.children[:] = []
self._engine.current_scene.scene.disable_render = False
#-----------------------------------------------------------------------
# Private API
#-----------------------------------------------------------------------
def __engine_default(self):
e = Engine()
e.start()
e.new_scene(self._scene)
return e
if __name__ == '__main__':
from pyface.api import GUI
from mayavi.sources.api import ParametricSurface
from mayavi.modules.api import Outline, Surface
pw = PreviewWindow()
pw.add_source(ParametricSurface())
pw.add_module(Outline())
pw.add_module(Surface())
pw.edit_traits()
def do(self):
"""Test for the SetActiveAttribute filter.
"""
from mayavi.sources.api import VTKXMLFileReader
from mayavi.filters.contour import Contour
from mayavi.filters.api import PolyDataNormals
from mayavi.filters.set_active_attribute import SetActiveAttribute
from mayavi.modules.api import Surface, Outline
mayavi = script = self.script
scene = self.new_scene()
r = VTKXMLFileReader()
r.initialize(get_example_data('fire_ug.vtu'))
mayavi.add_source(r)
r.point_scalars_name = 'u'
o = Outline()
mayavi.add_module(o)
c = Contour()
mayavi.add_filter(c)
n = PolyDataNormals()
mayavi.add_filter(n)
aa = SetActiveAttribute()
mayavi.add_filter(aa)
aa.point_scalars_name = 't'
s = Surface()
mayavi.add_module(s)
scene.scene.isometric_view()
# Check if things are OK.
self.check()
############################################################
# Test if saving a visualization and restoring it works.
# Save visualization.
f = BytesIO()
f.name = abspath('test.mv2') # We simulate a file.
mayavi.save_visualization(f)
f.seek(0) # So we can read this saved data.
# Remove existing scene.
engine = mayavi.engine
engine.close_scene(s)
# Load visualization
mayavi.load_visualization(f)
s = engine.current_scene
# Now do the check.
s.scene.isometric_view()
self.check()
############################################################
# Test if the Mayavi2 visualization can be deep-copied.
# Pop the source object.
source = s.children.pop()
# Add it back to see if that works without error.
s.children.append(source)
# Now do the check.
self.check()
# Now deepcopy the source and replace the existing one with
# the copy. This basically simulates cutting/copying the
# object from the UI via the right-click menu on the tree
# view, and pasting the copy back.
source1 = copy.deepcopy(source)
s.children[0] = source1
# Now do the check.
s.scene.isometric_view()
self.check()
def view_data():
s = Surface()
mayavi.add_module(s)
s.module_manager.scalar_lut_manager.show_scalar_bar = True
def do(self):
"""Test for the SetActiveAttribute filter.
"""
from mayavi.sources.api import VTKXMLFileReader
from mayavi.filters.contour import Contour
from mayavi.filters.api import PolyDataNormals
from mayavi.filters.set_active_attribute import SetActiveAttribute
from mayavi.modules.api import Surface, Outline
mayavi = script = self.script
scene = self.new_scene()
r = VTKXMLFileReader()
r.initialize(get_example_data('fire_ug.vtu'))
mayavi.add_source(r)
r.point_scalars_name = 'u'
o = Outline()
mayavi.add_module(o)
c = Contour()
mayavi.add_filter(c)
n = PolyDataNormals()
mayavi.add_filter(n)
aa = SetActiveAttribute()
mayavi.add_filter(aa)
aa.point_scalars_name = 't'
s = Surface()
mayavi.add_module(s)
scene.scene.isometric_view()
# Check if things are OK.
self.check()
############################################################
# Test if saving a visualization and restoring it works.
# Save visualization.
f = BytesIO()
f.name = abspath('test.mv2') # We simulate a file.
mayavi.save_visualization(f)
f.seek(0) # So we can read this saved data.
# Remove existing scene.
engine = mayavi.engine
engine.close_scene(s)
# Load visualization
mayavi.load_visualization(f)
s = engine.current_scene
# Now do the check.
s.scene.isometric_view()
self.check()
############################################################
# Test if the Mayavi2 visualization can be deep-copied.
# Pop the source object.
source = s.children.pop()
# Add it back to see if that works without error.
s.children.append(source)
# Now do the check.
self.check()
# Now deepcopy the source and replace the existing one with
# the copy. This basically simulates cutting/copying the
# object from the UI via the right-click menu on the tree
# view, and pasting the copy back.
source1 = copy.deepcopy(source)
s.children[0] = source1
# Now do the check.
s.scene.isometric_view()
self.check()
def do(self):
############################################################
# Imports.
script = self.script
from mayavi.sources.vtk_file_reader import VTKFileReader
from mayavi.filters.contour import Contour
from mayavi.filters.optional import Optional
from mayavi.filters.collection import Collection
from mayavi.filters.api import PolyDataNormals
from mayavi.modules.api import Surface
############################################################
# Create a new scene and set up the visualization.
s = self.new_scene()
# Read a VTK (old style) data file.
r = VTKFileReader()
r.initialize(get_example_data('heart.vtk'))
script.add_source(r)
c = Contour()
# `name` is used for the notebook tabs.
n = PolyDataNormals(name='Normals')
o = Optional(filter=n, label_text='Compute normals')
coll = Collection(filters=[c, o], name='IsoSurface')
script.add_filter(coll)
s = Surface()
script.add_module(s)
########################################
# do the testing.
def check(coll):
"""Check if test status is OK given the collection."""
c, o = coll.filters
c = c.filter
n = o.filter
assert coll.outputs[0].point_data.scalars.range == (127.5, 127.5)
# Adding a contour should create the appropriate output in
# the collection.
c.contours.append(200)
assert coll.outputs[0].point_data.scalars.range == (127.5, 200.0)
# the collection's output should be that of the normals.
assert coll.outputs[0] is n.outputs[0]
# disable the optional filter and check.
o.enabled = False
assert 'disabled' in o.name
assert coll.outputs[0] is c.outputs[0]
# Set back everything to original state.
c.contours.pop()
o.enabled = True
assert coll.outputs[0].point_data.scalars.range == (127.5, 127.5)
assert coll.outputs[0] is n.outputs[0]
assert 'disabled' not in o.name
check(coll)
############################################################
# Test if saving a visualization and restoring it works.
# Save visualization.
f = StringIO()
f.name = abspath('test.mv2') # We simulate a file.
script.save_visualization(f)
f.seek(0) # So we can read this saved data.
# Remove existing scene.
engine = script.engine
engine.close_scene(s)
# Load visualization
script.load_visualization(f)
s = engine.current_scene
# Now do the check.
coll = s.children[0].children[0]
check(coll)
############################################################
# Test if the Mayavi2 visualization can be deep-copied.
# Pop the source object.
source = s.children.pop()
# Add it back to see if that works without error.
s.children.append(source)
# Now do the check.
coll = s.children[0].children[0]
check(coll)
# Now deepcopy the source and replace the existing one with
# the copy. This basically simulates cutting/copying the
# object from the UI via the right-click menu on the tree
# view, and pasting the copy back.
source1 = copy.deepcopy(source)
s.children[0] = source1
# Now do the check.
coll = s.children[0].children[0]
check(coll)