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
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
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
|
/*=========================================================================
Copyright (c) Kitware, Inc.
All rights reserved.
See Copyright.txt or http://www.kitware.com/VolViewCopyright.htm for details.
This software is distributed WITHOUT ANY WARRANTY; without even
the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
PURPOSE. See the above copyright notice for more information.
=========================================================================*/
/* perform smoothing using an anisotropic diffusion filter */
#include "vvITKFilterModuleWithCasting.h"
#include "itkGradientAnisotropicDiffusionImageFilter.h"
template <class InputPixelType>
class GradientAnisotropicDiffusionRunner
{
public:
typedef float InternalPixelType;
typedef itk::Image< InternalPixelType, 3 > InternalImageType;
typedef itk::GradientAnisotropicDiffusionImageFilter<
InternalImageType,
InternalImageType > FilterType;
typedef InputPixelType OutputPixelType;
typedef VolView::PlugIn::FilterModuleWithCasting< InputPixelType,
FilterType,
OutputPixelType > ModuleType;
public:
GradientAnisotropicDiffusionRunner() {}
void Execute( vtkVVPluginInfo *info, vtkVVProcessDataStruct *pds )
{
const unsigned int numberOfIterations = atoi( info->GetGUIProperty(info, 0, VVP_GUI_VALUE ) );
const float timeStep = atof( info->GetGUIProperty(info, 1, VVP_GUI_VALUE ) );
const float conductance = atof( info->GetGUIProperty(info, 2, VVP_GUI_VALUE ) );
ModuleType module;
module.SetPluginInfo( info );
module.SetUpdateMessage("Smoothing with Gradient Anisotropic Diffusion...");
// Set the parameters on it
module.GetFilter()->SetNumberOfIterations( numberOfIterations );
module.GetFilter()->SetTimeStep( timeStep );
module.GetFilter()->SetConductanceParameter( conductance );
// Execute the filter
module.ProcessData( pds );
}
};
static int ProcessData(void *inf, vtkVVProcessDataStruct *pds)
{
vtkVVPluginInfo *info = (vtkVVPluginInfo *)inf;
try
{
switch( info->InputVolumeScalarType )
{
case VTK_CHAR:
{
GradientAnisotropicDiffusionRunner<signed char> runner;
runner.Execute( info, pds );
break;
}
case VTK_UNSIGNED_CHAR:
{
GradientAnisotropicDiffusionRunner<unsigned char> runner;
runner.Execute( info, pds );
break;
}
case VTK_SHORT:
{
GradientAnisotropicDiffusionRunner<signed short> runner;
runner.Execute( info, pds );
break;
}
case VTK_UNSIGNED_SHORT:
{
GradientAnisotropicDiffusionRunner<unsigned short> runner;
runner.Execute( info, pds );
break;
}
case VTK_INT:
{
GradientAnisotropicDiffusionRunner<signed int> runner;
runner.Execute( info, pds );
break;
}
case VTK_UNSIGNED_INT:
{
GradientAnisotropicDiffusionRunner<unsigned int> runner;
runner.Execute( info, pds );
break;
}
case VTK_LONG:
{
GradientAnisotropicDiffusionRunner<signed long> runner;
runner.Execute( info, pds );
break;
}
case VTK_UNSIGNED_LONG:
{
GradientAnisotropicDiffusionRunner<unsigned long> runner;
runner.Execute( info, pds );
break;
}
case VTK_FLOAT:
{
GradientAnisotropicDiffusionRunner<float> runner;
runner.Execute( info, pds );
break;
}
case VTK_DOUBLE:
{
GradientAnisotropicDiffusionRunner<double> runner;
runner.Execute( info, pds );
break;
}
}
}
catch( itk::ExceptionObject & except )
{
info->SetProperty( info, VVP_ERROR, except.what() );
return -1;
}
return 0;
}
static int UpdateGUI(void *inf)
{
vtkVVPluginInfo *info = (vtkVVPluginInfo *)inf;
info->SetGUIProperty(info, 0, VVP_GUI_LABEL, "Number of Iterations ");
info->SetGUIProperty(info, 0, VVP_GUI_TYPE, VVP_GUI_SCALE);
info->SetGUIProperty(info, 0, VVP_GUI_DEFAULT, "5");
info->SetGUIProperty(info, 0, VVP_GUI_HELP, "Number of times that the diffusion approximation will be computed. The more iterations, the stronger the smoothing");
info->SetGUIProperty(info, 0, VVP_GUI_HINTS , "1 100 1");
info->SetGUIProperty(info, 1, VVP_GUI_LABEL, "Time Step");
info->SetGUIProperty(info, 1, VVP_GUI_TYPE, VVP_GUI_SCALE);
info->SetGUIProperty(info, 1, VVP_GUI_DEFAULT, "0.05");
info->SetGUIProperty(info, 1, VVP_GUI_HELP, "Discretization of time for approximating the diffusion process.");
info->SetGUIProperty(info, 1, VVP_GUI_HINTS , "0.01 1.0 0.005");
info->SetGUIProperty(info, 2, VVP_GUI_LABEL, "Conductance");
info->SetGUIProperty(info, 2, VVP_GUI_TYPE, VVP_GUI_SCALE);
info->SetGUIProperty(info, 2, VVP_GUI_DEFAULT, "3.0");
info->SetGUIProperty(info, 2, VVP_GUI_HELP, "Factor that multiplies the image gradient in order to compute the effective conductance locally. The higher the value of this parameter, the stronger the diffusion will be");
info->SetGUIProperty(info, 2, VVP_GUI_HINTS , "0.1 10.0 0.1");
const char * stringValue = info->GetGUIProperty(info, 0, VVP_GUI_VALUE );
if( !stringValue )
{
info->SetProperty(info, VVP_REQUIRED_Z_OVERLAP, "0");
}
else
{
info->SetProperty(info, VVP_REQUIRED_Z_OVERLAP, stringValue);
}
info->OutputVolumeScalarType = info->InputVolumeScalarType;
info->OutputVolumeNumberOfComponents = info->InputVolumeNumberOfComponents;
info->OutputVolumeDimensions[0] = info->InputVolumeDimensions[0]; // + 2 * numberOfIterations;
info->OutputVolumeDimensions[1] = info->InputVolumeDimensions[1]; // + 2 * numberOfIterations;
info->OutputVolumeDimensions[2] = info->InputVolumeDimensions[2]; // + 2 * numberOfIterations;
memcpy(info->OutputVolumeSpacing,info->InputVolumeSpacing,
3*sizeof(float));
memcpy(info->OutputVolumeOrigin,info->InputVolumeOrigin,
3*sizeof(float));
// provide accurate estimate of memory required
// always requires 2 floats per voxel
int sizeReq = 2*sizeof(float);
// if multicomponent also requires one scalar more
if (info->InputVolumeNumberOfComponents > 1)
{
sizeReq += info->InputVolumeScalarSize;
}
char tmps[500];
sprintf(tmps,"%i",sizeReq);
info->SetProperty(info, VVP_PER_VOXEL_MEMORY_REQUIRED, tmps);
return 1;
}
extern "C" {
void VV_PLUGIN_EXPORT vvITKGradientAnisotropicDiffusionInit(vtkVVPluginInfo *info)
{
vvPluginVersionCheck();
// setup information that never changes
info->ProcessData = ProcessData;
info->UpdateGUI = UpdateGUI;
info->SetProperty(info, VVP_NAME, "Gradient Anisotropic Diffusion (ITK)");
info->SetProperty(info, VVP_GROUP, "Noise Suppression");
info->SetProperty(info, VVP_TERSE_DOCUMENTATION,
"Anisotropic diffusion smoothing");
info->SetProperty(info, VVP_FULL_DOCUMENTATION,
"This filter applies an edge-preserving smoothing to a volume by computing the evolution of an anisotropic diffusion partial differential equation. Diffusion is regulated by the gradient of the image. This filter processes the whole image in one piece, and does not change the dimensions, data type, or spacing of the volume.");
info->SetProperty(info, VVP_SUPPORTS_IN_PLACE_PROCESSING, "0");
info->SetProperty(info, VVP_SUPPORTS_PROCESSING_PIECES, "0");
info->SetProperty(info, VVP_NUMBER_OF_GUI_ITEMS, "3");
info->SetProperty(info, VVP_REQUIRED_Z_OVERLAP, "0");
info->SetProperty(info, VVP_PER_VOXEL_MEMORY_REQUIRED, "8");
info->SetProperty(info, VVP_REQUIRES_SERIES_INPUT, "0");
info->SetProperty(info, VVP_SUPPORTS_PROCESSING_SERIES_BY_VOLUMES, "0");
info->SetProperty(info, VVP_PRODUCES_OUTPUT_SERIES, "0");
info->SetProperty(info, VVP_PRODUCES_PLOTTING_OUTPUT, "0");
}
}
|
