Blame view

TubeCanvas.py 25.8 KB
9f9f1788   Pavel Govyadinov   clead up version ...
1
2
3
4
5
6
7
8
9
10
11
12
13
  #!/usr/bin/env python3
  # -*- coding: utf-8 -*-
  """
  Created on Mon Aug  5 15:56:47 2019
  
  @author: pavel
  """
  
  """
      Class that extends the vispy SceneCanvas to draw 3D tubes
  """
  
  from vispy import gloo, scene
2282da38   Pavel Govyadinov   added path select...
14
15
  from vispy.gloo import set_viewport, set_state, clear, set_blend_color, context
  from vispy.gloo import gl
9f9f1788   Pavel Govyadinov   clead up version ...
16
17
18
19
20
21
22
23
24
25
26
  from vispy.util.transforms import perspective, translate, rotate, scale
  import vispy.gloo.gl as glcore
  from vispy.util.quaternion import Quaternion
  
  import numpy as np
  import math
  import network_dep as nwt
  
  
  from tube_shaders import FRAG_SHADER, VERT_SHADER
  
6eb102f5   Pavel Govyadinov   Fixed issue cause...
27
  
6eb102f5   Pavel Govyadinov   Fixed issue cause...
28
  
6aca1767   Pavel Govyadinov   Added a signal to...
29
30
31
32
33
  DEBUG = False
  if DEBUG:
      from mpl_toolkits.mplot3d import Axes3D
      import matplotlib
      import matplotlib.pyplot as plt
9f9f1788   Pavel Govyadinov   clead up version ...
34
35
36
37
38
39
40
41
42
  class TubeDraw(scene.SceneCanvas):
      #sigUpdate = QtCore.pyqtSignal(float, float, float)
  
      #Initiates the canvas.
      def __init__(self, **kwargs):
          #Initialte the class by calling the superclass
          scene.SceneCanvas.__init__(self, size=(512,512), keys='interactive', **kwargs)
          #unfreeze the drawing area to allow for dynamic drawing and interaction
          self.unfreeze()
6aca1767   Pavel Govyadinov   Added a signal to...
43
          self.edge_dict = {}
2282da38   Pavel Govyadinov   added path select...
44
          self.select = False
9f9f1788   Pavel Govyadinov   clead up version ...
45
46
47
48
49
50
51
52
53
54
55
          #generate dummy buffers for the meshes
          self.program = gloo.Program(VERT_SHADER, FRAG_SHADER)
          self.cylinder_data = np.zeros(5*5, dtype=[('a_position', np.float32, 3),
                                    ('a_normal', np.float32, 3),
                                    ('a_fg_color', np.float32, 4),
                                    #('a_linewidth', np.float32, 1),
                                    ])
          self.triangle_data = np.random.randint(size=(5, 3), low=0,
                                    high=(4-1)).astype(np.uint32)
          self.vbo = gloo.VertexBuffer(self.cylinder_data)
          self.triangles = gloo.IndexBuffer(self.triangle_data)
193cb4c6   Pavel Govyadinov   need this to test
56
57
58
59
          
          #generate an index buffer for the caps.
          self.cap_data = np.random.randint(size=(5, 3), low=0, high=(4-1)).astype(np.uint32)
          self.caps = gloo.IndexBuffer(self.cap_data)
9f9f1788   Pavel Govyadinov   clead up version ...
60
61
62
63
64
65
66
67
          self.program.bind(self.vbo)
          self.scale = [1,1,1]
          self.r1 = np.eye(4, dtype=np.float32)
          self.r2 = np.eye(4, dtype=np.float32)
          set_viewport(0,0,*self.physical_size)
          #set_state(clear_color='white', depth_test=True, blend=True,
          #          blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('less'), cull_face='back')
          set_state(clear_color='white', depth_test=True, blend=True,
193cb4c6   Pavel Govyadinov   need this to test
68
                    blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('lequal'))
9f9f1788   Pavel Govyadinov   clead up version ...
69
70
71
72
73
74
75
76
77
78
79
80
          #set_blend_color(color='black')
          #set_state('translucent')
          self.program['u_LightPos'] = [0., 0., -1000.]
          #self.camera = self.central_widget.add_view()
          #self.camera.camera = 'turntable'
          self.down = False
          self.camera = np.asarray([0.0, 0.0, 200.0], dtype=np.float32)
          self.up = np.asarray([0., 1., 0.], dtype=np.float32)
          #self.init_camera = [0.,0.,1000.]
  
          ##### prototype #####
          #Set the visualization matrices
2282da38   Pavel Govyadinov   added path select...
81
          self.program['u_selection'] = 0.0
9f9f1788   Pavel Govyadinov   clead up version ...
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
          self.program['u_eye'] = self.camera
          self.program['u_up'] = self.up
          self.program['u_target'] = np.asarray([0., 0., 0.], dtype=np.float32)
  
  
  
      #Load the data necessary to draw all of the microvessels
      def set_data(self, G, bbu, bbl, num_sides):
          self.G = G
          self.num_sides = num_sides
          self.bbu = bbu
          self.bbl = bbl
          bb = nwt.AABB(G).resample_sides(3)
  
  
          #create program
          self.gen_cylinder_vbo(self.G, self.num_sides)
          self.vbo = gloo.VertexBuffer(self.cylinder_data)
193cb4c6   Pavel Govyadinov   need this to test
100
          #self.triangle_data = np.append(self.triangle_data, self.cap_data, axis=0)
9f9f1788   Pavel Govyadinov   clead up version ...
101
          self.triangles = gloo.IndexBuffer(self.triangle_data)
193cb4c6   Pavel Govyadinov   need this to test
102
          self.caps = gloo.IndexBuffer(self.cap_data)
9f9f1788   Pavel Govyadinov   clead up version ...
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
  
          #self.view = np.eye(4, dtype=np.float32)
          self.model = np.eye(4, dtype=np.float32)
          self.projection = np.eye(4, dtype=np.float32)
          self.projection = perspective(90.0, self.physical_size[0]/self.physical_size[1], 1.0, 1000.0)
          #self.projection = perspective(90.0, 1.0, -1.0, 1.0)
          self.program['u_model'] = self.model
          self.program['u_LightPos'] = [0., 0., 1000.]
          #self.program['u_view'] = self.view
          self.program['u_projection'] = self.projection
          self.program.bind(self.vbo)
  
          gloo.set_clear_color('white')
          self.center = (bbu-bbl)/2.0
          self.translate = [-self.center[0], -self.center[1], -self.center[2]]
  
          self.bb = np.ones((26, 3), dtype=np.float32)
          for i in range(26):
              for j in range(3):
                  self.bb[i,j] = bb[i][j]
          self.program['u_bb'] = self.bb
6eb102f5   Pavel Govyadinov   Fixed issue cause...
124
125
          if DEBUG:
              print('bb is ', self.bb)
9f9f1788   Pavel Govyadinov   clead up version ...
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
  #        for i in range(len(self.translate)):
  #            self.camera[i] += self.translate[i]
  
  
          ##### prototype #####
          self.camera = self.camera - self.translate
          self.program['u_eye'] = self.camera
          self.up = np.cross((np.asarray(self.center, dtype=np.float32)-np.asarray(self.camera, dtype=np.float32)), np.asarray(self.up))
          self.program['u_up'] = self.up
          self.program['u_target'] = self.translate
  
  
  
  
          #self.show()
  
      #Called during resize of the window in order to redraw the same image in the
      #larger/smaller area.
      def on_resize(self, event):
          width, height = event.physical_size
          gloo.set_viewport(0, 0, width, height)
6eb102f5   Pavel Govyadinov   Fixed issue cause...
147
148
          if DEBUG:
              print(self.physical_size)
9f9f1788   Pavel Govyadinov   clead up version ...
149
150
151
152
153
154
  
      #overloaded function called during the self.update() call to update the current
      #frame using the GLSL frag/vert shaders
      def on_draw(self, event):
          clear(color='white', depth=True)
          gloo.set_clear_color('white')
2282da38   Pavel Govyadinov   added path select...
155
156
157
158
159
160
          if self.select:
              set_state(clear_color='white', depth_test=True, blend=True,
                    blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('always'), cull_face='back')
          else:
              set_state(clear_color='white', depth_test=True, blend=True,
                    blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('lequal'), cull_face='back')
9f9f1788   Pavel Govyadinov   clead up version ...
161
          self.program.draw('triangles', self.triangles)
193cb4c6   Pavel Govyadinov   need this to test
162
163
164
165
166
167
168
169
          if self.select:
              set_state(clear_color='white', depth_test=True, blend=True,
                    blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('always'), cull_face=False)
          else:
              set_state(clear_color='white', depth_test=True, blend=True,
                    blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('lequal'), cull_face=False)
          self.program.draw('triangles', self.caps)
  
9f9f1788   Pavel Govyadinov   clead up version ...
170
171
172
173
174
175
176
177
          self.projection = perspective(90.0, self.physical_size[0]/self.physical_size[1], 1.0, 1000.0)
          self.program['u_projection'] = self.projection
  
      #Creates a cylinder around ever segment in the microvascular network.
      def gen_cylinder_vbo(self, G, num_sides = 32):
          i = 0
          num_pts = 0
          num_tri = 0
193cb4c6   Pavel Govyadinov   need this to test
178
          num_tri_caps = 0
9f9f1788   Pavel Govyadinov   clead up version ...
179
180
181
          for e in G.edges():
              num_pts += len(self.G.edge_properties["x"][e])
              num_tri += (len(self.G.edge_properties["x"][e])-1)*num_sides*2
193cb4c6   Pavel Govyadinov   need this to test
182
183
              num_tri_caps += (2*(num_sides-2))
              
9f9f1788   Pavel Govyadinov   clead up version ...
184
185
186
          self.cylinder_data = np.zeros(num_pts*num_sides, dtype=[('a_position', np.float32, 3),
                                    ('a_normal', np.float32, 3),
                                    ('a_fg_color', np.float32, 4),
2282da38   Pavel Govyadinov   added path select...
187
                                    ('a_selection', np.float32, 1),
9f9f1788   Pavel Govyadinov   clead up version ...
188
189
190
                                    ])
          self.triangle_data = np.random.randint(size=(num_tri, 3), low=0,
                                    high=(G.num_edges()-1)).astype(np.uint32)
193cb4c6   Pavel Govyadinov   need this to test
191
192
193
          
          self.cap_data = np.random.randint(size = (num_tri_caps, 3),
                                            low = 0, high=(G.num_edges()-2)).astype(np.uint32)
9f9f1788   Pavel Govyadinov   clead up version ...
194
195
          index = 0
          t_index = 0
193cb4c6   Pavel Govyadinov   need this to test
196
          c_index = 0
9f9f1788   Pavel Govyadinov   clead up version ...
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
          #for each edge generate a cylinder.
          for e in G.edges():
              #print("done")
              #for each fiber get all the points and the radii
              X = self.G.edge_properties["x"][e]
              Y = self.G.edge_properties["y"][e]
              Z = self.G.edge_properties["z"][e]
              R = self.G.edge_properties["r"][e]
              color = G.edge_properties["RGBA"][e]
              pts = np.array([X,Y,Z]).T
              circle_pts = np.zeros((pts.shape[0], num_sides, 3), dtype = np.float32)
              step = 2*np.pi/num_sides
  #            U = np.zeros(pts.shape, dtype=np.float32)
  #            V = np.zeros(pts.shape, dtype=np.float32)
  #            direction = np.zeros(pts.shape, dtype=np.float32)
  
              #for every point in the edge
              for p in range(pts.shape[0]):
                  #if first point, generate the circles.
                  #In this case we want to generate a cap if we see the first circle or the last.
                  if(p == 0):
                      #get the direction
                      direction = (pts[p+1] - pts[p])
                      #normalize direction
                      direction = direction/np.sqrt(direction[0]*direction[0] + direction[1]*direction[1] + direction[2]*direction[2])
                      #generate a vector to use as an element of the cross product
                      Y = np.zeros((3,), dtype = np.float32)
                      Y[0] = 1.
                      #if direction and Y are parallel, change Y
                      if(np.cos(np.dot(Y, direction)) < 0.087):
                          Y[0] = 0.0
                          Y[2] = 1.0
                      #generate first plane vector
                      U = np.cross(direction, Y)
                      U = U/np.sqrt(U[0]*U[0] + U[1]*U[1] + U[2]*U[2])
                      #generate second plane vector
                      V = np.cross(direction, U)
                      V = V/np.sqrt(V[0]*V[0] + V[1]*V[1] + V[2]*V[2])
                      #print(R[p],pts[p])
                      #generate circle.
                      for s in range(num_sides):
                          circle_pts[p][s][0] =  R[p]*np.cos(s*step)*V[0]*0.5 + R[p]*np.sin(s*step)*U[0]*0.5
                          circle_pts[p][s][1] =  R[p]*np.cos(s*step)*V[1]*0.5 + R[p]*np.sin(s*step)*U[1]*0.5
                          circle_pts[p][s][2] =  R[p]*np.cos(s*step)*V[2]*0.5 + R[p]*np.sin(s*step)*U[2]*0.5
                  #if last point, copy the previous circle.
                  elif(p == pts.shape[0]-1):
                      for s in range(num_sides):
                          circle_pts[p][s] = circle_pts[p-1][s]
                      for v in range(pts.shape[0]):
                          circle_pts[v,:,0] += pts[v][0]
                          circle_pts[v,:,1] += pts[v][1]
                          circle_pts[v,:,2] += pts[v][2]
                  #otherwise, rotate the circle
                  else:
                      #print(R[p], pts[p])
                      #generate a new direction vector.
                      dir_new = (pts[p+1]-pts[p])
                      dir_new = dir_new/np.sqrt(dir_new[0]*dir_new[0] + dir_new[1]*dir_new[1] + dir_new[2]*dir_new[2])
                      dir_new2 = (pts[p]-pts[p-1])
                      dir_new2 = dir_new2/np.sqrt(dir_new2[0]*dir_new2[0] + dir_new2[1]*dir_new2[1] + dir_new2[2]*dir_new2[2])
                      dir_new = dir_new+dir_new2
                      dir_new = dir_new/np.sqrt(dir_new[0]*dir_new[0] + dir_new[1]*dir_new[1] + dir_new[2]*dir_new[2])
                      #print(dir_new, direction)
                      #generate the quaternion rotation vector for the shortest arc
                      k = 1.0 + np.dot(direction, dir_new)
                      s = 1/np.sqrt(k+k)
                      r = s*np.cross(direction, dir_new)
                      theta = k*s
                      #r = np.cross(direction, dir_new)
                      #r = r/np.sqrt(r[0]*r[0] + r[1]*r[1] + r[2]*r[2])
                      #calculate the degree of quaternion rotation.
                      #cos_theta = np.sqrt(np.sqrt(np.dot(dir_new, dir_new)) * np.sqrt(np.dot(direction, direction))) + np.dot(dir_new, direction)
                      #cos_theta = np.dot(direction, dir_new)
                      #theta = np.arccos(cos_theta)/2.0
                      #print(r, cos_theta, theta)
                      #quat = np.append(theta, r)
                      q = Quaternion(w=theta, x = r[0], y = r[1], z = r[2]).normalize()
  
                      #print(quat)
                      #q = np.quaternion(quat[0], quat[1], quat[2], quat[3])
                      #rot = Rotation.from_quat(quat, normalized=False)
                      #rot.as_quat()
                      for s in range(num_sides):
                          circle_pts[p][s] = q.rotate_point(circle_pts[p-1][s])
                          #circle_pts[p][s] = rot.apply(circle_pts[p-1][s])
                          #circle_pts[p][s] = q.rotate(circle_pts[p-1][s])
                          #circle_pts[p][s] = np.quaternion.rotate_vectors(q, circle_pts[p][s])
                          #circle_pts[p][s] = q.rotate_vectors(q, circle_pts[p][s])
                          #circle_pts[p][s] = circle_pts[p][s]
                      direction = dir_new
              #generate the triangles
              triangles = np.random.randint(size=((pts.shape[0]-1)*2*(num_sides), 3), low=0,
                                    high=(G.num_edges()-1)).astype(np.uint32)
193cb4c6   Pavel Govyadinov   need this to test
290
              cap_triangles = np.random.randint(size=((num_sides-2)*2 , 3), low=0, high=(num_sides-2)).astype(np.uint32)
9f9f1788   Pavel Govyadinov   clead up version ...
291
              t_index_temp = 0
193cb4c6   Pavel Govyadinov   need this to test
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
              c_index_temp = 0
              #for every ring in the fiber
              for ring in range(0, pts.shape[0], pts.shape[0]-1):
              #if we have the first ring or the last ring add a cap.
                  idx_ori = index+ring*num_sides
                  for side in range(0, num_sides-2):
                      idx_current_point = index+ring*num_sides + side
                      if(side < num_sides-2):
                          cap_tri = [idx_ori, idx_current_point+1, idx_current_point+2]
                      else:
                          cap_tri = [idx_ori, idx_current_point+1, idx_ori]
                      cap_triangles[c_index_temp] = cap_tri
                      self.cap_data[c_index] = cap_tri
                      c_index_temp += 1
                      c_index += 1
              
9f9f1788   Pavel Govyadinov   clead up version ...
308
              for ring in range(pts.shape[0]-1):
193cb4c6   Pavel Govyadinov   need this to test
309
                  #otherwise generate the sides.
9f9f1788   Pavel Govyadinov   clead up version ...
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
                  for side in range(num_sides):
                      if(side < num_sides-1):
                          idx_current_point = index+ring*num_sides + side
                          idx_next_ring = index + (ring+1) * num_sides + side
                          triangle1 = [idx_current_point, idx_next_ring, idx_next_ring+1]
                          triangle2 = [idx_next_ring+1, idx_current_point+1, idx_current_point]
                          triangles[t_index_temp] = [idx_current_point, idx_next_ring, idx_next_ring+1]
                          triangles[t_index_temp+1] = [idx_next_ring+1, idx_current_point+1, idx_current_point]
                          self.triangle_data[t_index] = triangle1
                          self.triangle_data[t_index+1] = triangle2
                          t_index += 2
                          t_index_temp += 2
                      else:
                          idx_current_point = index + ring*num_sides + side
                          idx_next_ring = index + (ring+1)*num_sides + side
                          triangle1 = [idx_current_point, idx_next_ring, idx_next_ring-num_sides+1]
                          triangle2 = [idx_next_ring-num_sides+1, idx_current_point-num_sides+1, idx_current_point]
                          triangles[t_index_temp] = [idx_current_point, idx_next_ring-num_sides, idx_next_ring-num_sides+1]
                          triangles[t_index_temp+1] = [idx_next_ring-num_sides+1, idx_current_point-num_sides+1, idx_current_point]
                          self.triangle_data[t_index] = triangle1
                          self.triangle_data[t_index+1] = triangle2
                          t_index += 2
                          t_index_temp += 2
  
              #generate the points data structure
              circle_pts_data = circle_pts.reshape((pts.shape[0]*num_sides, 3))
              self.cylinder_data['a_position'][index:(pts.shape[0]*num_sides+index)] = circle_pts_data
              self.cylinder_data['a_fg_color'][index:(pts.shape[0]*num_sides+index)] = color
2282da38   Pavel Govyadinov   added path select...
338
              self.cylinder_data['a_selection'][index:(pts.shape[0]*num_sides+index)] = 0.0
9f9f1788   Pavel Govyadinov   clead up version ...
339
340
341
342
343
344
345
346
347
348
349
              #generate the normals data structure
              pts_normals = circle_pts.copy()
              for p in range(pts.shape[0]):
                  pts_normals[p][:] = pts_normals[p][:] - pts[p]
                  for s in range(num_sides):
                      pts_normals[p][s] = pts_normals[p][s]/np.sqrt(pts_normals[p][s][0]*pts_normals[p][s][0] \
                                + pts_normals[p][s][1]*pts_normals[p][s][1] + pts_normals[p][s][2]*pts_normals[p][s][2])
              self.cylinder_data['a_normal'][index:(pts.shape[0]*num_sides+index)] = \
                  pts_normals.reshape((pts.shape[0]*num_sides, 3))
  
              index += pts.shape[0]*num_sides
2282da38   Pavel Govyadinov   added path select...
350
              self.edge_dict[(int(e.source()), int(e.target()))] = (index-pts.shape[0]*num_sides, index)
9f9f1788   Pavel Govyadinov   clead up version ...
351
352
353
354
              
              #Add the caps for each of the endpoints.
  
  
6eb102f5   Pavel Govyadinov   Fixed issue cause...
355
356
357
358
359
360
361
362
              if DEBUG:
                  if(i == 2):
                      fig = plt.figure()
                      ax = fig.add_subplot(111, projection='3d')
                      #ax.scatter(circle_pts[:,:,0], circle_pts[:,:,1], circle_pts[:,:,2])
                      ax.plot(pts[:,0], pts[:,1], pts[:,2])
                      for j in range(pts.shape[0]):
                          ax.plot(circle_pts[j,:,0], circle_pts[j,:,1], circle_pts[j,:,2])
193cb4c6   Pavel Govyadinov   need this to test
363
364
365
366
367
368
369
                      for j in range(cap_triangles.shape[0]):
                          tri = np.zeros((3,4))
                          tri[:,0] = self.cylinder_data['a_position'][cap_triangles[j][0]]
                          tri[:,1] = self.cylinder_data['a_position'][cap_triangles[j][1]]
                          tri[:,2] = self.cylinder_data['a_position'][cap_triangles[j][2]]
                          tri[:,3] = self.cylinder_data['a_position'][cap_triangles[j][0]]
                          ax.plot(tri[0,:], tri[1,:], tri[2,:], c='b')
6eb102f5   Pavel Govyadinov   Fixed issue cause...
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
                      for j in range(triangles.shape[0]):
                          tri = np.zeros((3,4))
                          tri[:,0] = self.cylinder_data['a_position'][triangles[j][0]]
                          tri[:,1] = self.cylinder_data['a_position'][triangles[j][1]]
                          tri[:,2] = self.cylinder_data['a_position'][triangles[j][2]]
                          tri[:,3] = self.cylinder_data['a_position'][triangles[j][0]]
                          ax.plot(tri[0,:], tri[1,:], tri[2,:], c='b')
                      for j in range(triangles.shape[0]):
                          tri = np.zeros((3,3))
                          tri[:,0] = self.cylinder_data['a_position'][triangles[j][0]]
                          tri[:,1] = self.cylinder_data['a_position'][triangles[j][1]]
                          tri[:,2] = self.cylinder_data['a_position'][triangles[j][2]]
                          norm = np.zeros((3,3))
                          norm[:,0] = self.cylinder_data['a_normal'][triangles[j][0]]
                          norm[:,1] = self.cylinder_data['a_normal'][triangles[j][1]]
                          norm[:,2] = self.cylinder_data['a_normal'][triangles[j][2]]
                          ax.quiver(tri[0,:], tri[1,:], tri[2,:], norm[0,:], norm[1,:], norm[2,:], colors = 'r')
                      plt.show()
9f9f1788   Pavel Govyadinov   clead up version ...
388
389
390
              i+=1
          #create the data.
          
2282da38   Pavel Govyadinov   added path select...
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
      def select_edges(self, edges):
          #gloo.context.set_current_canvas(gloo.context.get_current_canvas())
          if len(edges) > 0:
              self.select = True
              #gloo.set_depth_func('always')
              #clear(color='white', depth=True)
              #gl.GL_DEPTH_FUNC('always')
              #print(gloo.wrappers.get_gl_configuration())
              self.program['u_selection'] = 1.0
              for e in edges:
                  if e in self.edge_dict:
                      idx = self.edge_dict[e]
                      #print(self.canvas.edge_dict[e])
                  elif (e[1], e[0]) in self.edge_dict:
                      idx = self.edge_dict[(e[1],e[0])]
                  else:
                      print("WHAT THE FUCK HAPPENED")
                  self.cylinder_data["a_selection"][idx[0]:idx[1]] = 1.0   
              self.vbo = gloo.VertexBuffer(self.cylinder_data)
              self.program.bind(self.vbo)
              #self.update()
          else:
              self.program['u_selection'] = 0.0
              self.select = False
              #set_state(clear_color='white', depth_test=True, blend=True,
              #      blend_func=('src_alpha', 'one_minus_src_alpha'), depth_func = ('lequal'))
              #gloo.set_depth_func('lequal')
              #clear(color='white', depth=True)
              #print(gloo.wrappers.get_gl_configuration())
          self.update()
                  #print(self.canvas.edge_dict[(e[1], e[0])])
9f9f1788   Pavel Govyadinov   clead up version ...
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
      #Handles the mouse wheel event, i.e., zoom
      def on_mouse_wheel(self, event):
  #        self.scale[0] = self.scale[0] + self.scale[0]*event.delta[1]*0.05
  #        self.scale[1] = self.scale[1] + self.scale[1]*event.delta[1]*0.05
  #        self.scale[2] = self.scale[2] + self.scale[2]*event.delta[1]*0.05
  ##        self.view[0][0] = self.scale[0]
  ##        self.view[1][1] = self.scale[1]
  ##        self.view[2][2] = self.scale[2]
  #        print("in mouse wheel ", self.r1, self.r2)
  #        self.view = np.matmul(translate((self.translate[0], self.translate[1], self.translate[2])), self.r1)
  #        self.view = np.matmul(self.view, self.r2)
  #        self.view = np.matmul(self.view, scale((self.scale[0], self.scale[1], self.scale[2])))
  #        #self.view = np.matmul(self.view, self.r1)
  #        #self.view = np.matmul(self.view, self.r2)
  #        #self.view = np.matmul(translate((self.translate[0], self.translate[1], self.translate[2])), scale((self.scale[0], self.scale[1], self.scale[2])))
  #        #self.rotate = [0., 0.]
  #        #self.camera =
  #
  #        #self.view[1][1] = self.view[1][1]+self.view[1][1]*event.delta[1]*0.05
  #        #print(self.view[0][0], " ",self.view[1][1])
  #        #print(self.view)
  #        self.camera = [0.0, 0.0, -100.0, 1.0]
  ##        for i in range(len(self.translate)):
  ##            self.camera[i] += self.translate[i]
  #        self.program['u_view'] = self.view
  
  #        if(np.asarray(self.camera).all() == np.asarray([0., 0., 0.]).all()):
  #            self.camera = np.asarray([0., 0., 0.])
  #        else:
          direction = np.asarray(self.translate) - np.asarray(self.camera)
          direction = direction/np.sqrt(np.dot(direction, direction))
          for i in range(3):
              self.camera[i] = self.camera[i] + direction[i]*event.delta[1]*2.0
  
          self.program['u_eye'] = self.camera
          #print(self.view)
          #print(event.delta[1])
          self.update()
  
  
  
      #Handles the mouse press event to rotate the camera if the left mouse button
      #if clicked down.
      def on_mouse_press(self, event):
          def update_view():
              self.location = event.pos
              #self.program['u_view'] = self.view
              self.down = True
  
          if(event.button == 1):
              update_view()
  
  
      #Handles the rotation of the camera using a quaternion centered around the
      #focus point.
      def on_mouse_move(self, event):
          if(self.down == True):
              coord = self.transforms.get_transform('canvas', 'render').map(self.location)[:2]
              coord2 = self.transforms.get_transform('canvas', 'render').map(event.pos)[:2]
              #coord[1] = 0
              #coord2[1] = 0
  
              theta = (coord[0]-coord2[0])*360.0/2.0/np.pi
              phi = (coord[1]-coord2[1])*360.0/2.0/np.pi
6eb102f5   Pavel Govyadinov   Fixed issue cause...
486
487
              if DEBUG:
                  print(theta*360.0/2.0/np.pi, -phi*360.0/2.0/np.pi)
9f9f1788   Pavel Govyadinov   clead up version ...
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
              self.camera = self.camera - self.translate
              q1 = Quaternion.create_from_axis_angle(angle=phi, ax=0.0, ay=1.0, az=0.0, degrees=True)
              q2 = Quaternion.create_from_axis_angle(angle=theta, ax=1.0, ay=0.0, az=0.0, degrees=True)
              #q1 = Quaternion(w=theta, x = 0, y = 1, z = 0).inverse().normalize()
              #q2 = Quaternion(w=-phi, x = 1, y = 0, z = 0).inverse().normalize()
  
              q = q1*q2
  
  #            #print("Angle in Degrees is ", theta, " ", phi, coord[0] - coord2[0])
  #            self.r1 = rotate(theta, (0, 1, 0))
  #            self.r2 = rotate(-phi, (1, 0, 0))
  #
  #            print("in on mouse move ", self.r1, self.r2)
  #
  #            self.view = np.matmul(self.view, self.r1)
  #            #print("r1", self.view)
  #            self.view = np.matmul(self.view, self.r2)
  #            #print("r2", self.view)
  #
  ##            self.view = np.matmul(self.view, q1.get_matrix().T)
  ##            self.view = np.matmul(self.view, q2.get_matrix().T)
  #
  #            self.program['u_view'] = self.view
  #
              self.location = event.pos
  #            #print("Angle in Degrees is ", theta, " ", phi)
  #            #print(self.camera)
              self.camera = np.asarray(q.rotate_point(self.camera), dtype=np.float)
              self.camera = self.camera + self.translate
              self.up = np.asarray(q.rotate_point(self.up), dtype=np.float)
              self.up = self.up/np.sqrt(np.dot(self.up, self.up))
              #self.rotate[0] = self.rotate[0] + theta
              #self.rotate[1] = self.rotate[1] + phi
              #print(self.rotate)f
              #radius = np.sqrt(np.dot(self.center, self.center))*2
              #test = np.linalg.inv(self.view).T
              #print(test)
  
  
  
              #self.camera = sph2cart(self.rotate[0]/360.0*2.0*np.pi+np.pi, self.rotate[1]/360.0*2.0*np.pi+np.pi, 1000.0)
              #self.camera[0] = self.camera[0] + self.center[0]
              #self.camera[1] = self.camera[1] + self.center[1]
              #self.camera[2] = self.camera[2] - self.center[2]
6eb102f5   Pavel Govyadinov   Fixed issue cause...
532
533
              if DEBUG:
                  print("current position ", self.camera, " and up vector ", self.up)
9f9f1788   Pavel Govyadinov   clead up version ...
534
535
536
537
538
539
540
541
              self.program['u_eye'] = self.camera
              self.program['u_up'] = self.up
              self.program['u_LightPos'] = [self.camera[0], self.camera[1], self.camera[2]]
              self.update()
  
      #reverts the mouse state during release.
      def on_mouse_release(self, event):
          self.down = False