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
|
/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: $RCSfile: itkBrains2MaskImageIOTest.cxx,v $
Language: C++
Date: $Date: 2006-11-03 00:00:03 $
Version: $Revision: 1.11 $
Copyright (c) Insight Software Consortium. All rights reserved.
See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.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 notices for more information.
=========================================================================*/
#if defined(_MSC_VER)
#pragma warning ( disable : 4786 )
#endif
#include <string>
#include "itkImage.h"
#include "itkExceptionObject.h"
#include "itkNumericTraits.h"
#include "itkImageRegionIterator.h"
#include "itkImageIOFactory.h"
#include "itkBrains2MaskImageIO.h"
#include "itkBrains2MaskImageIOFactory.h"
#include "stdlib.h"
#include <itksys/SystemTools.hxx>
#include "itkImageFileWriter.h"
#include "itkImageFileReader.h"
//#include "itkFlipImageFilter.h"
#include "itkSpatialOrientationAdapter.h"
#include "vnl/vnl_sample.h"
int itkBrains2MaskTest(int ac, char *av[])
{
typedef itk::Image<unsigned int,3> ImageType;
typedef itk::ImageFileReader<ImageType> ImageReaderType;
typedef itk::ImageFileWriter<ImageType> ImageWriterType;
//
// create a random image to write out.
const ImageType::SizeType imageSize = {{4,4,4}};
const ImageType::IndexType imageIndex = {{0,0,0}};
ImageType::RegionType region;
region.SetSize(imageSize);
region.SetIndex(imageIndex);
ImageType::Pointer img = ImageType::New();
img->SetLargestPossibleRegion(region);
img->SetBufferedRegion(region);
img->SetRequestedRegion(region);
img->Allocate();
itk::SpatialOrientationAdapter::DirectionType CORdir=itk::SpatialOrientationAdapter().ToDirectionCosines(itk::SpatialOrientation::ITK_COORDINATE_ORIENTATION_RIP);
img->SetDirection(CORdir);
vnl_sample_reseed(8775070);
itk::ImageRegionIterator<ImageType> ri(img,region);
try
{
unsigned int counter = 0;
while(!ri.IsAtEnd())
{
unsigned int val
= static_cast<unsigned int>(vnl_sample_uniform(0.0, 16384.0));
val = val > 8192 ? 255 : 0;
if(counter && counter % 8 == 0)
std::cerr << val << std::endl;
else
std::cerr << val << " ";
counter++;
ri.Set(val);
++ri;
}
std::cerr << std::endl << std::endl;
}
catch(itk::ExceptionObject & ex)
{
ex.Print(std::cerr);
return EXIT_FAILURE;
}
itk::ImageIOBase::Pointer io;
io = itk::Brains2MaskImageIO::New();
if(ac < 2)
{
std::cout << "Must specify directory containing Brains2Test.mask"
<< std::endl;
return EXIT_FAILURE;
}
std::string fileName(av[1]);
fileName = fileName + "/Brains2Test.mask";
ImageWriterType::Pointer imageWriter = ImageWriterType::New();
imageWriter->SetImageIO(io);
imageWriter->SetFileName(fileName.c_str());
imageWriter->SetInput(img);
try
{
imageWriter->Write();
}
catch (itk::ExceptionObject &ex)
{
std::string message;
message = "Problem found while writing image ";
message += fileName;
message += "\n";
message += ex.GetLocation();
message += "\n";
message += ex.GetDescription();
std::cerr << message << std::endl;
itksys::SystemTools::RemoveFile(fileName.c_str());
return EXIT_FAILURE;
}
ImageType::Pointer readImage;
try
{
ImageReaderType::Pointer imageReader = ImageReaderType::New();
imageReader->SetImageIO(io);
imageReader->SetFileName(fileName.c_str());
imageReader->Update();
readImage = imageReader->GetOutput();
}
catch (itk::ExceptionObject& ex)
{
std::string message;
message = "Problem found while reading image ";
message += fileName;
message += "\n";
message += ex.GetLocation();
message += "\n";
message += ex.GetDescription();
std::cerr << message << std::endl;
itksys::SystemTools::RemoveFile(fileName.c_str());
return EXIT_FAILURE;
}
ri.GoToBegin();
itk::ImageRegionIterator<ImageType> ri2(readImage,region);
try
{
unsigned int counter = 0;
while(!ri.IsAtEnd() && !ri2.IsAtEnd())
{
unsigned int x = ri.Get();
unsigned int y = ri2.Get();
if(counter && counter % 8 == 0)
std::cerr << y << std::endl;
else
std::cerr << y << " ";
if(x != y)
{
std::cerr <<
"Error comparing Input Image and File Image of Brains2 Mask" <<
std::endl;
return EXIT_FAILURE;
}
counter++;
++ri;
++ri2;
}
if(!ri.IsAtEnd() || !ri2.IsAtEnd())
{
std::cerr << "Error, inconsistent image sizes " << std::endl;
return EXIT_FAILURE;
}
}
catch(itk::ExceptionObject & ex)
{
ex.Print(std::cerr);
return EXIT_FAILURE;
}
//
// test the factory interface. This ImageIO class doesn't get
// added to the list of Builtin factories, so add it explicitly, and
// then try and open the mask file.
itk::ObjectFactoryBase::RegisterFactory(itk::Brains2MaskImageIOFactory::New() );
try
{
ImageReaderType::Pointer imageReader = ImageReaderType::New();
imageReader->SetFileName(fileName.c_str());
imageReader->Update();
readImage = imageReader->GetOutput();
}
catch(itk::ExceptionObject & ex)
{
ex.Print(std::cerr);
return EXIT_FAILURE;
}
return EXIT_SUCCESS;
}
|
