def __init__(self,
ipyvolume_viewer=None,
state=None,
layer=None,
layer_state=None):
super(IpyvolumeVolumeLayerArtist, self).__init__(layer)
self.layer = layer or layer_state.layer
self.ipyvolume_viewer = ipyvolume_viewer
self.figure = self.ipyvolume_viewer.figure
self.state = layer_state or IpyvolumeLayerState(layer=self.layer)
self.transfer_function = ipv.TransferFunction(
rgba=_transfer_function_rgba(self.state.color))
self.volume = ipv.Volume(extent_original=[[0, 1]] * 3,
data_original=data0,
tf=self.transfer_function,
data_max_shape=128)
self.figure.volumes = self.figure.volumes + [
self.volume,
]
self._viewer_state = ipyvolume_viewer.state
assert ipyvolume_viewer.state == state
if self.state not in self._viewer_state.layers:
self._viewer_state.layers.append(self.state)
#ipv.figure(self.ipyvolume_viewer.figure)
self.last_shape = None
def __init__(self,
ipyvolume_viewer=None,
state=None,
layer=None,
layer_state=None):
super(IpyvolumeVolumeLayerArtist, self).__init__(layer)
self.layer = layer or layer_state.layer
self.ipyvolume_viewer = ipyvolume_viewer
self.figure = self.ipyvolume_viewer.figure
self.state = layer_state or VolumeLayerState(layer=self.layer)
self.transfer_function = ipv.TransferFunction(
rgba=_transfer_function_rgba(self.state.color))
self.volume = ipv.Volume(extent_original=[[0, 1]] * 3,
data_original=data0,
tf=self.transfer_function,
data_max_shape=128)
self.figure.volumes = self.figure.volumes + [
self.volume,
]
self._viewer_state = ipyvolume_viewer.state
assert ipyvolume_viewer.state == state
if self.state not in self._viewer_state.layers:
self._viewer_state.layers.append(self.state)
#ipv.figure(self.ipyvolume_viewer.figure)
self.last_shape = None
link((self.state, 'lighting'), (self.volume, 'lighting'))
link((self.state, 'render_method'), (self.volume, 'rendering_method'))
link((self.state, 'max_resolution'), (self.volume, 'data_max_shape'))
link((self.state, 'vmin'), (self.volume, 'show_min'))
link((self.state, 'vmax'), (self.volume, 'show_max'))
link((self.state, 'data_min'), (self.volume, 'data_min'))
link((self.state, 'data_max'), (self.volume, 'data_max'))
link((self.state, 'clamp_min'), (self.volume, 'clamp_min'))
link((self.state, 'clamp_max'), (self.volume, 'clamp_max'))
link((self.state, 'opacity_scale'), (self.volume, 'opacity_scale'))
on_change([(self.state, 'color', 'alpha')
])(self._update_transfer_function)
def volshow(data, lighting=False, data_min=None, data_max=None,
max_shape=256, tf=None, stereo=False,
ambient_coefficient=0.5, diffuse_coefficient=0.8,
specular_coefficient=0.5, specular_exponent=5,
downscale=1,
level=[0.1, 0.5, 0.9], opacity=[0.01, 0.05, 0.1], level_width=0.1,
controls=True, max_opacity=0.2, memorder='C', extent=None):
"""Visualize a 3d array using volume rendering.
Currently only 1 volume can be rendered.
:param data: 3d numpy array
:param origin: origin of the volume data, this is to match meshes which have a different origin
:param domain_size: domain size is the size of the volume
:param bool lighting: use lighting or not, if set to false, lighting parameters will be overriden
:param float data_min: minimum value to consider for data, if None, computed using np.nanmin
:param float data_max: maximum value to consider for data, if None, computed using np.nanmax
:parap int max_shape: maximum shape for the 3d cube, if larger, the data is reduced by skipping/slicing (data[::N]), set to None to disable.
:param tf: transfer function (or a default one)
:param bool stereo: stereo view for virtual reality (cardboard and similar VR head mount)
:param ambient_coefficient: lighting parameter
:param diffuse_coefficient: lighting parameter
:param specular_coefficient: lighting parameter
:param specular_exponent: lighting parameter
:param float downscale: downscale the rendering for better performance, for instance when set to 2, a 512x512 canvas will show a 256x256 rendering upscaled, but it will render twice as fast.
:param level: level(s) for the where the opacity in the volume peaks, maximum sequence of length 3
:param opacity: opacity(ies) for each level, scalar or sequence of max length 3
:param level_width: width of the (gaussian) bumps where the opacity peaks, scalar or sequence of max length 3
:param bool controls: add controls for lighting and transfer function or not
:param float max_opacity: maximum opacity for transfer function controls
:param extent: list of [[xmin, xmax], [ymin, ymax], [zmin, zmax]] values that define the bounds of the volume, otherwise the viewport is used
:return:
"""
fig = gcf()
if tf is None:
tf = transfer_function(level, opacity, level_width, controls=controls, max_opacity=max_opacity)
if data_min is None:
data_min = np.nanmin(data)
if data_max is None:
data_max = np.nanmax(data)
if memorder is 'F':
data = data.T
if extent is None:
extent = [(0, k) for k in data.shape[::-1]]
if extent:
_grow_limits(*extent)
vol = ipv.Volume(data_original = data,
tf=tf,
data_min = data_min,
data_max = data_max,
show_min = data_min,
show_max = data_max,
extent_original = extent,
data_max_shape = max_shape,
ambient_coefficient = ambient_coefficient,
diffuse_coefficient = diffuse_coefficient,
specular_coefficient = specular_coefficient,
specular_exponent = specular_exponent,
rendering_lighting = lighting)
vol._listen_to(fig)
if controls:
widget_opacity_scale = ipywidgets.FloatLogSlider(base=10, min=-2, max=2,
description="opacity")
widget_brightness = ipywidgets.FloatLogSlider(base=10, min=-1, max=1,
description="brightness")
ipywidgets.jslink((vol, 'opacity_scale'), (widget_opacity_scale, 'value'))
ipywidgets.jslink((vol, 'brightness'), (widget_brightness, 'value'))
widgets_bottom = [ipywidgets.HBox([widget_opacity_scale, widget_brightness])]
current.container.children += tuple(widgets_bottom, )
fig.volumes = fig.volumes + [vol]
return vol