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
|
/*=========================================================================
*
* 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 itkBinaryStatisticsOpeningImageFilter_h
#define itkBinaryStatisticsOpeningImageFilter_h
#include "itkBinaryImageToLabelMapFilter.h"
#include "itkStatisticsLabelMapFilter.h"
#include "itkStatisticsOpeningLabelMapFilter.h"
#include "itkLabelMapToBinaryImageFilter.h"
namespace itk
{
/** \class BinaryStatisticsOpeningImageFilter
* \brief Remove objects based on the value of their Statistics attribute.
*
* The BinaryStatisticsOpeningImageFilter removes the objects in a binary image
* with an attribute value smaller or greater than a threshold called Lambda.
* The attributes are those of the StatisticsLabelObject.
*
* This implementation was taken from the Insight Journal paper:
* https://hdl.handle.net/1926/584 or
* http://www.insight-journal.org/browse/publication/176
*
* \author Gaetan Lehmann. Biologie du Developpement et de la Reproduction, INRA de Jouy-en-Josas, France.
*
* \sa StatisticsLabelObject, LabelStatisticsOpeningImageFilter, BinaryStatisticsOpeningImageFilter
* \ingroup ImageEnhancement MathematicalMorphologyImageFilters
* \ingroup ITKLabelMap
*/
template< typename TInputImage, typename TFeatureImage >
class ITK_TEMPLATE_EXPORT BinaryStatisticsOpeningImageFilter:
public ImageToImageFilter< TInputImage, TInputImage >
{
public:
/** Standard class typedefs. */
typedef BinaryStatisticsOpeningImageFilter Self;
typedef ImageToImageFilter< TInputImage, TInputImage > Superclass;
typedef SmartPointer< Self > Pointer;
typedef SmartPointer< const Self > ConstPointer;
/** Some convenient typedefs. */
typedef TInputImage InputImageType;
typedef TInputImage OutputImageType;
typedef typename InputImageType::Pointer InputImagePointer;
typedef typename InputImageType::ConstPointer InputImageConstPointer;
typedef typename InputImageType::RegionType InputImageRegionType;
typedef typename InputImageType::PixelType InputImagePixelType;
typedef typename OutputImageType::Pointer OutputImagePointer;
typedef typename OutputImageType::ConstPointer OutputImageConstPointer;
typedef typename OutputImageType::RegionType OutputImageRegionType;
typedef typename OutputImageType::PixelType OutputImagePixelType;
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 SizeValueType LabelType;
typedef StatisticsLabelObject< LabelType, itkGetStaticConstMacro(ImageDimension) > LabelObjectType;
typedef LabelMap< LabelObjectType > LabelMapType;
typedef BinaryImageToLabelMapFilter< InputImageType, LabelMapType > LabelizerType;
typedef StatisticsLabelMapFilter< LabelMapType, FeatureImageType > LabelObjectValuatorType;
typedef typename LabelObjectType::AttributeType AttributeType;
typedef StatisticsOpeningLabelMapFilter< LabelMapType > OpeningType;
typedef LabelMapToBinaryImageFilter< LabelMapType, OutputImageType > BinarizerType;
/** Standard New method. */
itkNewMacro(Self);
/** Runtime information support. */
itkTypeMacro(BinaryStatisticsOpeningImageFilter, ImageToImageFilter);
/**
* Set/Get whether the connected components are defined strictly by
* face connectivity or by face+edge+vertex connectivity.
* Default is FullyConnectedOff.
* For objects that are 1 pixel wide, use FullyConnectedOn.
*/
itkSetMacro(FullyConnected, bool);
itkGetConstReferenceMacro(FullyConnected, bool);
itkBooleanMacro(FullyConnected);
#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 the value used as "foreground" in the output image.
* Defaults to NumericTraits<PixelType>::max().
*/
itkSetMacro(ForegroundValue, OutputImagePixelType);
itkGetConstMacro(ForegroundValue, OutputImagePixelType);
/**
* Set/Get the threshold used to keep or remove the objects.
*/
itkGetConstMacro(Lambda, double);
itkSetMacro(Lambda, double);
/**
* Set/Get the ordering of the objects. By default, the objects with
* an attribute value smaller than Lamba are removed. Turning ReverseOrdering
* to true make this filter remove objects with an attribute value greater
* than Lambda instead.
*/
itkGetConstMacro(ReverseOrdering, bool);
itkSetMacro(ReverseOrdering, bool);
itkBooleanMacro(ReverseOrdering);
/**
* Set/Get the attribute to use to select the object to remove.
* Default is "Size".
*/
itkGetConstMacro(Attribute, AttributeType);
itkSetMacro(Attribute, AttributeType);
void SetAttribute(const std::string & s)
{
this->SetAttribute( LabelObjectType::GetAttributeFromName(s) );
}
/** 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< const 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);
}
protected:
BinaryStatisticsOpeningImageFilter();
~BinaryStatisticsOpeningImageFilter() ITK_OVERRIDE {}
void PrintSelf(std::ostream & os, Indent indent) const ITK_OVERRIDE;
/** BinaryStatisticsOpeningImageFilter needs the entire input to be available.
* Thus, it needs to provide an implementation of GenerateInputRequestedRegion(). */
void GenerateInputRequestedRegion() ITK_OVERRIDE;
/** BinaryStatisticsOpeningImageFilter 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(BinaryStatisticsOpeningImageFilter);
bool m_FullyConnected;
OutputImagePixelType m_BackgroundValue;
OutputImagePixelType m_ForegroundValue;
double m_Lambda;
bool m_ReverseOrdering;
AttributeType m_Attribute;
}; // end of class
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
#include "itkBinaryStatisticsOpeningImageFilter.hxx"
#endif
#endif
|
