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
|
/*=========================================================================
*
* 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.
*
*=========================================================================*/
#ifndef itkLabelImageToStatisticsLabelMapFilter_h
#define itkLabelImageToStatisticsLabelMapFilter_h
#include "itkStatisticsLabelObject.h"
#include "itkLabelImageToLabelMapFilter.h"
#include "itkStatisticsLabelMapFilter.h"
namespace itk
{
/** \class LabelImageToStatisticsLabelMapFilter
* \brief a convenient class to convert a label image to a label map and valuate the statistics attributes at once
*
* \author Gaetan Lehmann. Biologie du Developpement et de la Reproduction, INRA de Jouy-en-Josas, France.
*
* This implementation was taken from the Insight Journal paper:
* https://hdl.handle.net/1926/584 or
* http://www.insight-journal.org/browse/publication/176
*
* \sa StatisticsLabelObject, LabelStatisticsOpeningImageFilter, LabelStatisticsOpeningImageFilter
* \ingroup ImageEnhancement MathematicalMorphologyImageFilters
* \ingroup ITKLabelMap
*/
template< typename TInputImage, typename TFeatureImage, typename TOutputImage =
LabelMap< StatisticsLabelObject< typename TInputImage::PixelType,
TInputImage::ImageDimension > > >
class ITK_TEMPLATE_EXPORT LabelImageToStatisticsLabelMapFilter:
public ImageToImageFilter< TInputImage, TOutputImage >
{
public:
/** Standard class typedefs. */
typedef LabelImageToStatisticsLabelMapFilter Self;
typedef ImageToImageFilter< TInputImage, TOutputImage > Superclass;
typedef SmartPointer< Self > Pointer;
typedef SmartPointer< const Self > ConstPointer;
/** Some convenient typedefs. */
typedef TInputImage InputImageType;
typedef typename InputImageType::Pointer InputImagePointer;
typedef typename InputImageType::ConstPointer InputImageConstPointer;
typedef typename InputImageType::RegionType InputImageRegionType;
typedef typename InputImageType::PixelType InputImagePixelType;
typedef TOutputImage OutputImageType;
typedef typename OutputImageType::Pointer OutputImagePointer;
typedef typename OutputImageType::ConstPointer OutputImageConstPointer;
typedef typename OutputImageType::RegionType OutputImageRegionType;
typedef typename OutputImageType::PixelType OutputImagePixelType;
typedef typename OutputImageType::LabelObjectType LabelObjectType;
typedef TFeatureImage FeatureImageType;
typedef typename FeatureImageType::Pointer FeatureImagePointer;
typedef typename FeatureImageType::ConstPointer FeatureImageConstPointer;
typedef typename FeatureImageType::PixelType FeatureImagePixelType;
/** ImageDimension constants */
itkStaticConstMacro(InputImageDimension, unsigned int,
TInputImage::ImageDimension);
itkStaticConstMacro(OutputImageDimension, unsigned int,
TInputImage::ImageDimension);
itkStaticConstMacro(ImageDimension, unsigned int,
TInputImage::ImageDimension);
typedef LabelImageToLabelMapFilter< InputImageType, OutputImageType > LabelizerType;
typedef StatisticsLabelMapFilter< OutputImageType, FeatureImageType > LabelObjectValuatorType;
/** Standard New method. */
itkNewMacro(Self);
/** Runtime information support. */
itkTypeMacro(LabelImageToStatisticsLabelMapFilter,
ImageToImageFilter);
#ifdef ITK_USE_CONCEPT_CHECKING
// Begin concept checking
itkConceptMacro( InputEqualityComparableCheck,
( Concept::EqualityComparable< InputImagePixelType > ) );
itkConceptMacro( IntConvertibleToInputCheck,
( Concept::Convertible< int, InputImagePixelType > ) );
itkConceptMacro( InputOStreamWritableCheck,
( Concept::OStreamWritable< InputImagePixelType > ) );
// End concept checking
#endif
/**
* Set/Get the value used as "background" in the output image.
* Defaults to NumericTraits<PixelType>::NonpositiveMin().
*/
itkSetMacro(BackgroundValue, OutputImagePixelType);
itkGetConstMacro(BackgroundValue, OutputImagePixelType);
/**
* Set/Get whether the maximum Feret diameter should be computed or not. The
* defaut value is false, because of the high computation time required.
*/
itkSetMacro(ComputeFeretDiameter, bool);
itkGetConstReferenceMacro(ComputeFeretDiameter, bool);
itkBooleanMacro(ComputeFeretDiameter);
/**
* Set/Get whether the perimeter should be computed or not. The defaut value
* is false, because of the high computation time required.
*/
itkSetMacro(ComputePerimeter, bool);
itkGetConstReferenceMacro(ComputePerimeter, bool);
itkBooleanMacro(ComputePerimeter);
/** Set the feature image */
void SetFeatureImage(const TFeatureImage *input)
{
// Process object is not const-correct so the const casting is required.
this->SetNthInput( 1, const_cast< TFeatureImage * >( input ) );
}
/** Get the feature image */
const FeatureImageType * GetFeatureImage()
{
return static_cast< FeatureImageType * >( this->ProcessObject::GetInput(1) );
}
/** Set the input image */
void SetInput1(const InputImageType *input)
{
this->SetInput(input);
}
/** Set the feature image */
void SetInput2(const FeatureImageType *input)
{
this->SetFeatureImage(input);
}
/**
* Set/Get whether the histogram should be attached to the label object or not.
* This option defaults to `true`, but because the histogram may take a lot of memory
* compared to the other attributes, this option is useful to reduce the memory usage
* when the histogram is not required.
*/
itkSetMacro(ComputeHistogram, bool);
itkGetConstReferenceMacro(ComputeHistogram, bool);
itkBooleanMacro(ComputeHistogram);
/**
* Set/Get the number of bins in the histogram. Note that the histogram is used
* to compute the median value, and that this option may have an effect on the
* value of the median.
*/
itkSetMacro(NumberOfBins, unsigned int);
itkGetConstReferenceMacro(NumberOfBins, unsigned int);
protected:
LabelImageToStatisticsLabelMapFilter();
~LabelImageToStatisticsLabelMapFilter() ITK_OVERRIDE {}
void PrintSelf(std::ostream & os, Indent indent) const ITK_OVERRIDE;
/** LabelImageToStatisticsLabelMapFilter needs the entire input be
* available. Thus, it needs to provide an implementation of
* GenerateInputRequestedRegion(). */
void GenerateInputRequestedRegion() ITK_OVERRIDE;
/** LabelImageToStatisticsLabelMapFilter will produce the entire output. */
void EnlargeOutputRequestedRegion( DataObject *itkNotUsed(output) ) ITK_OVERRIDE;
/** Single-threaded version of GenerateData. This filter delegates
* to GrayscaleGeodesicErodeImageFilter. */
void GenerateData() ITK_OVERRIDE;
private:
ITK_DISALLOW_COPY_AND_ASSIGN(LabelImageToStatisticsLabelMapFilter);
OutputImagePixelType m_BackgroundValue;
bool m_ComputeFeretDiameter;
bool m_ComputePerimeter;
unsigned int m_NumberOfBins;
bool m_ComputeHistogram;
}; // end of class
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
#include "itkLabelImageToStatisticsLabelMapFilter.hxx"
#endif
#endif
|
