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
|
.. _blendexport:
=====================================
Export volumetric datasets to Blender
=====================================
It is straightforward to generate a binary file from volumetric data that can be used
by Blender. The script is available in *examples/Blender/Exporter*. The following function will do::
def generate_blender_voxeldata(fname, data):
""" Write a binary file readable by Blender
Parameters
----------
fname : String
Filename to store the output, ending with .bin
data : ndarray
If the array is 3 dimensional, assume a structural image
If the array is 4 dimensional, assume a functional image
Note
----
For instructions on how to render the structural or functional images,
see http://brainblend.sourceforge.net/index.html
"""
import struct
import numpy as np
if len(data.shape) == 4:
frames = data.shape[3]
time = True
elif len(data.shape) == 3:
frames = 1
time = False
else:
raise Exception('Data array has no valid dimension!')
xdim = data.shape[0]
ydim = data.shape[1]
zdim = data.shape[2]
# write data to binary file
binfile = open(fname, 'wb')
x = struct.pack('i', xdim)
y = struct.pack('i', ydim)
z = struct.pack('i', zdim)
f = struct.pack('i', frames)
binfile.write(x)
binfile.write(y)
binfile.write(z)
binfile.write(f)
# convert to float32
data = np.array(data, dtype = np.float32)
if time:
for i in range(frames):
print 'write frame... ', i
data[:,:,:,i].tofile(binfile)
else:
data.tofile(binfile)
binfile.close()
You can use the generated file with structural or functional information as volumetric texture.
Please refer to the `BrainBlend documentation <http://brainblend.sourceforge.net/index.html>`_.
You might to want to do some data preprocessing as well.
The `Blender documentation about Volume Rendering <http://www.blender.org/development/release-logs/blender-254-beta/volume-rendering/>`_
has more information. A template Blender file *importing_voxeldata_struct.blend* is provided in the example folder.
|
