-
Notifications
You must be signed in to change notification settings - Fork 0
/
volume_render.py
155 lines (126 loc) · 5.55 KB
/
volume_render.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Fri Jan 25 11:43:47 2019
@author: syxtreme
"""
import numpy as np
from mayavi import mlab
from traits.api import HasTraits, Range, Instance, on_trait_change, Button, Event, Str
from traitsui.api import View, Item, Group, HSplit, InstanceEditor
from traitsui.menu import Menu, MenuBar, Action, ToolBar
from pyface.api import FileDialog, OK
from mayavi.core.api import PipelineBase
from mayavi.core.ui.api import MayaviScene, SceneEditor, MlabSceneModel
import os
class Panel(HasTraits):
open_file_event = Event
view = View()
open_file = Action(name="Load data", action='openFile')
class VolumeRender(HasTraits):
def __init__(self):
super(VolumeRender, self).__init__()
# self.scatter_scene.background = (0.9411764705882353, 0.9411764705882353, 0.8509803921568627)
# self.volume_scene.background = (0.9411764705882353, 0.9411764705882353, 0.8509803921568627)
panel = Instance(Panel, ())
scatter_scene = Instance(MlabSceneModel, ())
volume_scene = Instance(MlabSceneModel, ())
reset_plane_butt = Button('Reset plane')
z_reduction = Range(1, 2000, 1000, mode="slider")
def openFile(self):
wildcard = 'MayaVi2 files (*.npy)|*.npy|' + FileDialog.WILDCARD_ALL
dialog = FileDialog(title='Open numpy data file',
action='open', wildcard=wildcard)
if dialog.open() == OK:
if not os.path.isfile(dialog.path):
raise Exception("File '%s' does not exist" % dialog.path)
return
self.loadData(dialog.path)
self.generatePlotVolumeData()
self.generatePlotScatterData()
self.reset_plane()
@on_trait_change('reset_plane_butt')
def reset_plane(self):
self.slicer.ipw.plane_orientation = "z_axes"
self.volume_scene.camera.position = [808.944540639155, 829.3458612118793, 775.2145331434656]
self.volume_scene.camera.focal_point = [240.5, 180.5, 1.0]
self.volume_scene.camera.view_angle = 30.0
self.volume_scene.camera.view_up = [-0.4774879890979074, -0.468564520936391, 0.7432714914396268]
self.volume_scene.camera.clipping_range = [712.7852412300919, 1723.7390002418533]
self.volume_scene.camera.compute_view_plane_normal()
self.volume_scene.render()
mlab.sync_camera(self.volume_scene, self.scatter_scene)
@on_trait_change('z_reduction')
def z_reduction_changed(self):
self.generatePlotVolumeData()
self.updateScatterData()
def loadData(self, path):
data = np.load(path)
self.x = data[:, 1]
self.y = data[:, 2]
self.z = data[:, 0]
self.s = data[:, 3]
if 0 in np.unique(self.s) and -1 not in np.unique(self.s):
self.s[np.where(self.s == 0)] = -1
self.dz = np.unique(self.z)[1:] - np.unique(self.z)[:-1]
def generatePlotScatterData(self):
mlab.clf(figure=self.scatter_scene.mayavi_scene)
self.points = mlab.points3d(self.x, self.y, self.__scale_z_data(), self.s, mode="point", figure=self.scatter_scene.mayavi_scene, colormap="seismic", vmin=np.min(self.s), vmax=np.max(self.s))
def __scale_z_data(self):
return self.z * len(self.z) / self.z_reduction * 10
def updateScatterData(self):
self.points.mlab_source.z = self.__scale_z_data()
def generatePlotVolumeData(self):
z_step = np.median(self.dz) * self.z_reduction
vx, vy, vz = np.arange(0, np.max(self.x) + 1), np.arange(
0, np.max(self.y) + 1), np.arange(np.min(self.z), np.max(self.z), z_step)
scalars = np.zeros(
(np.size(vx), np.size(vy), np.size(vz)), dtype=np.int8)
scalar_z_idx = 0
scalar_tz = vz[scalar_z_idx]
scalar_z_th = scalar_tz + z_step
for z_idx, tz in enumerate(self.z):
if tz >= scalar_z_th:
scalar_z_idx += 1
scalar_tz = vz[scalar_z_idx]
scalar_z_th = scalar_tz + z_step
tx, ty, ts = int(self.x[z_idx]), int(self.y[z_idx]), self.s[z_idx]
scalars[tx, ty, scalar_z_idx] += ts
mlab.clf(figure=self.volume_scene.mayavi_scene)
valueLimit = max(abs(np.min(scalars)), np.max(scalars))
self.slicer = mlab.volume_slice(scalars, figure=self.volume_scene.mayavi_scene, colormap="seismic", plane_orientation="z_axes", vmin=-valueLimit, vmax=valueLimit, extent=[np.min(self.x), np.max(self.x), np.min(self.y), np.max(self.y), 0, np.size(vz)])
self.slicer.module_manager.scalar_lut_manager.lut.table[128] = (255.0, 255.0, 245.0, 255.0)
if __name__ == "__main__":
resolution = (1900, 1000)
view = View(
Item(
'panel',
editor=InstanceEditor(),
style='custom',
show_label=False,
),
HSplit(
Group(
Item('scatter_scene',
editor=SceneEditor(),
height=resolution[1] - 300,
width=resolution[0] / 2 - 100),
'z_reduction',
show_labels=False,
),
Group(
Item('volume_scene',
editor=SceneEditor(),
height=resolution[1] - 300,
width=resolution[0] / 2 - 100,
show_label=False),
'reset_plane_butt',
show_labels=False,
),
),
toolbar=ToolBar(open_file),
resizable=True,
title="Volumeteor"
)
m = VolumeRender()
m.configure_traits(view=view)