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
|
/*=========================================================================
*
* Copyright Insight Software Consortium
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
// Software Guide : BeginLatex
//
// \index{itk::DTITubeSpatialObject}
//
// \doxygen{DTITubeSpatialObject} derives from \doxygen{TubeSpatialObject}.
// It represents a fiber tracts from Diffusion Tensor Imaging.
// A DTITubeSpatialObject is described as a list of centerline points which
// have a position, a radius, normals, the fractional anisotropy (FA) value, the ADC value,
// the geodesic anisotropy (GA) value, the eigenvalues and vectors as well as the full
// tensor matrix.
//
// Let's start by including the appropriate header file.
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
#include "itkDTITubeSpatialObject.h"
// Software Guide : EndCodeSnippet
int main( int , char *[] )
{
// Software Guide : BeginLatex
//
// DTITubeSpatialObject is templated over the dimension of the space. A
// DTITubeSpatialObject contains a list of DTITubeSpatialObjectPoints.
//
// First we define some type definitions and we create the tube.
//
// Software Guide : EndLatex
unsigned int i;
// Software Guide : BeginCodeSnippet
typedef itk::DTITubeSpatialObject<3> DTITubeType;
typedef itk::DTITubeSpatialObjectPoint<3> DTITubePointType;
DTITubeType::Pointer dtiTube = DTITubeType::New();
// Software Guide : EndCodeSnippet
// Software Guide : BeginLatex
//
// We create a point list and we set:
// \begin{enumerate}
// \item The position of each point in the local coordinate system using the
// \code{SetPosition()} method.
// \item The radius of the tube at this position using \code{SetRadius()}.
// \item The FA value using \code{AddField(DTITubePointType::FA)}.
// \item The ADC value using \code{AddField(DTITubePointType::ADC)}.
// \item The GA value using \code{AddField(DTITubePointType::GA)}.
// \item The full tensor matrix supposed to be symmetric definite positive value using \code{SetTensorMatrix()}.
// \item The color of the point is set to red in our case.
// \end{enumerate}
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
DTITubeType::PointListType list;
for (i=0; i<5; ++i)
{
DTITubePointType p;
p.SetPosition(i,i+1,i+2);
p.SetRadius(1);
p.AddField(DTITubePointType::FA,i);
p.AddField(DTITubePointType::ADC,2*i);
p.AddField(DTITubePointType::GA,3*i);
p.AddField("Lambda1",4*i);
p.AddField("Lambda2",5*i);
p.AddField("Lambda3",6*i);
float* v = new float[6];
for(unsigned int k=0;k<6;k++)
{
v[k] = k;
}
p.SetTensorMatrix(v);
delete[] v;
p.SetColor(1,0,0,1);
list.push_back(p);
}
// Software Guide : EndCodeSnippet
// Software Guide : BeginLatex
//
// Next, we create the tube and set its name using \code{SetName()}. We also
// set its identification number with \code{SetId()} and, at the end, we add
// the list of points previously created.
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
dtiTube->GetProperty()->SetName("DTITube");
dtiTube->SetId(1);
dtiTube->SetPoints(list);
// Software Guide : EndCodeSnippet
// Software Guide : BeginLatex
//
// The \code{GetPoints()} method return a reference to the internal list of
// points of the object.
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
DTITubeType::PointListType pointList = dtiTube->GetPoints();
std::cout << "Number of points representing the fiber tract: ";
std::cout << pointList.size() << std::endl;
// Software Guide : EndCodeSnippet
// Software Guide : BeginLatex
//
// Then we can access the points using STL iterators. \code{GetPosition()}
// and \code{GetColor()} functions return respectively the position and the
// color of the point.
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
DTITubeType::PointListType::const_iterator it = dtiTube->GetPoints().begin();
i=0;
while(it != dtiTube->GetPoints().end())
{
std::cout << std::endl;
std::cout << "Point #" << i << std::endl;
std::cout << "Position: " << (*it).GetPosition() << std::endl;
std::cout << "Radius: " << (*it).GetRadius() << std::endl;
std::cout << "FA: " << (*it).GetField(DTITubePointType::FA) << std::endl;
std::cout << "ADC: " << (*it).GetField(DTITubePointType::ADC) << std::endl;
std::cout << "GA: " << (*it).GetField(DTITubePointType::GA) << std::endl;
std::cout << "Lambda1: " << (*it).GetField("Lambda1") << std::endl;
std::cout << "Lambda2: " << (*it).GetField("Lambda2") << std::endl;
std::cout << "Lambda3: " << (*it).GetField("Lambda3") << std::endl;
std::cout << "TensorMatrix: " << (*it).GetTensorMatrix()[0] << " : ";
std::cout << (*it).GetTensorMatrix()[1] << " : ";
std::cout << (*it).GetTensorMatrix()[2] << " : ";
std::cout << (*it).GetTensorMatrix()[3] << " : ";
std::cout << (*it).GetTensorMatrix()[4] << " : ";
std::cout << (*it).GetTensorMatrix()[5] << std::endl;
std::cout << "Color = " << (*it).GetColor() << std::endl;
++it;
++i;
}
// Software Guide : EndCodeSnippet
return EXIT_SUCCESS;
}
|
