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annotate OrthancStone/Sources/Volumes/ImageBuffer3D.h @ 1783:75d3e2ab1fe1

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BREAKING: SubvoxelReader using the same Z-axis ordering as ImageBuffer3D
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 14 May 2021 18:30:24 +0200
parents f053c80ea411
children 58bebc904191
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1 /**
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2 * Stone of Orthanc
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2021 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU Lesser General Public License
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28956ed68280 agpl license
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Lesser General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Lesser General Public
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18 * License along with this program. If not, see
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19 * <http://www.gnu.org/licenses/>.
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20 **/
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23 #pragma once
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24
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25 #include "../StoneEnumerations.h"
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26 #include "../Toolbox/LinearAlgebra.h"
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27
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28 #include <Compatibility.h>
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29 #include <Images/Image.h>
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31 namespace OrthancStone
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32 {
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33 /*
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34
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35 This classes stores volume images sliced across the Z axis,
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36 vertically, in the DECREASING Z-order along the normal (this is the
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37 REVERSE of the intuitive order):
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39 +---------------+
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40 | |
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41 | SLICE N-1 |
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42 | |
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43 +---------------+
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44 | |
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45 | SLICE N-2 |
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46 | |
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47 +---------------+
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48 | |
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49 | SLICE N-3 |
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50 | |
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51 . .
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52 ...... ......
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53 . .
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54 | |
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55 | SLICE 2 |
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56 | |
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57 +---------------+
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58 | |
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59 | SLICE 1 |
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60 | |
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61 +---------------+
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62 | |
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63 | SLICE 0 |
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64 | |
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65 +---------------+
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66
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67 As you can see, if the 3d image has size width, height, depth, the 2d image has :
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68 - 2d width = 3d width
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69 - 2d height = 3d height * 3d depth
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70
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71 This explains the "depth_ - 1 - z" that are used throughout this class.
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73 EXPLANATION: This allows to have the "SliceReader" and "SliceWriter"
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74 accessors for axial and coronal projections to directly access the
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75 same memory buffer (no memcpy is required), while being consistent
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76 with the Z-axis in coronal projection. The sagittal projection
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77 nevertheless needs a memcpy.
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78
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79 */
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80
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81 class ImageBuffer3D : public boost::noncopyable
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82 {
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83 private:
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84 Orthanc::Image image_;
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85 Orthanc::PixelFormat format_;
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86 unsigned int width_;
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87 unsigned int height_;
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88 unsigned int depth_;
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89 bool computeRange_;
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90 bool hasRange_;
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91 float minValue_;
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92 float maxValue_;
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93 Matrix transform_;
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94 Matrix transformInverse_;
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95
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96 void ExtendImageRange(const Orthanc::ImageAccessor& slice);
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97
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98 void GetAxialSliceAccessor(Orthanc::ImageAccessor& target,
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99 unsigned int slice,
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100 bool readOnly);
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101
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102 void GetCoronalSliceAccessor(Orthanc::ImageAccessor& target,
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103 unsigned int slice,
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104 bool readOnly);
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105
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106 Orthanc::Image* ExtractSagittalSlice(unsigned int slice) const;
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107
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108 void CommitSagittalSlice(unsigned int slice,
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109 const Orthanc::ImageAccessor& source);
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110
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111 template <typename T>
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112 T GetPixelUnchecked(unsigned int x,
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113 unsigned int y,
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114 unsigned int z) const
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115 {
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116 const uint8_t* buffer = reinterpret_cast<const uint8_t*>(image_.GetConstBuffer());
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117 const uint8_t* row = buffer + (y + height_ * (depth_ - 1 - z)) * image_.GetPitch();
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118 return reinterpret_cast<const T*>(row) [x];
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119 }
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120
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121 public:
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122 ImageBuffer3D(Orthanc::PixelFormat format,
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123 unsigned int width,
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124 unsigned int height,
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125 unsigned int depth,
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126 bool computeRange);
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127
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128 void Clear();
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129
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130 const Orthanc::ImageAccessor& GetInternalImage() const
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131 {
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132 return image_;
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133 }
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134
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135 unsigned int GetWidth() const
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136 {
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137 return width_;
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138 }
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139
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140 unsigned int GetHeight() const
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141 {
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142 return height_;
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143 }
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144
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145 unsigned int GetDepth() const
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146 {
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147 return depth_;
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148 }
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149
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150 Orthanc::PixelFormat GetFormat() const
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151 {
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152 return format_;
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153 }
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154
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155 unsigned int GetBytesPerPixel() const
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156 {
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157 return Orthanc::GetBytesPerPixel(format_);
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158 }
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159
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160 uint64_t GetEstimatedMemorySize() const;
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161
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162 bool GetRange(float& minValue,
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163 float& maxValue) const;
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164
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165 uint8_t GetVoxelGrayscale8Unchecked(unsigned int x,
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166 unsigned int y,
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167 unsigned int z) const
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168 {
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169 return GetPixelUnchecked<uint8_t>(x, y, z);
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170 }
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171
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172 uint16_t GetVoxelGrayscale16Unchecked(unsigned int x,
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173 unsigned int y,
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174 unsigned int z) const
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175 {
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176 return GetPixelUnchecked<uint16_t>(x, y, z);
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177 }
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178
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179 int16_t GetVoxelSignedGrayscale16Unchecked(unsigned int x,
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180 unsigned int y,
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181 unsigned int z) const
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182 {
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183 return GetPixelUnchecked<int16_t>(x, y, z);
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184 }
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185
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186 uint8_t GetVoxelGrayscale8(unsigned int x,
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187 unsigned int y,
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188 unsigned int z) const;
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189
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190 uint16_t GetVoxelGrayscale16(unsigned int x,
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191 unsigned int y,
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192 unsigned int z) const;
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193
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194
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195 class SliceReader : public boost::noncopyable
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196 {
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197 private:
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198 Orthanc::ImageAccessor accessor_;
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199 std::unique_ptr<Orthanc::Image> sagittal_; // Unused for axial and coronal
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200
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201 public:
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202 SliceReader(const ImageBuffer3D& that,
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203 VolumeProjection projection,
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204 unsigned int slice);
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205
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206 const Orthanc::ImageAccessor& GetAccessor() const
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207 {
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208 return accessor_;
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209 }
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210 };
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211
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212
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213 class SliceWriter : public boost::noncopyable
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214 {
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215 private:
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216 ImageBuffer3D& that_;
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217 bool modified_;
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218 Orthanc::ImageAccessor accessor_;
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219 std::unique_ptr<Orthanc::Image> sagittal_; // Unused for axial and coronal
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220 unsigned int slice_;
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221
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222 void Flush();
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223
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224 public:
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225 SliceWriter(ImageBuffer3D& that,
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226 VolumeProjection projection,
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227 unsigned int slice);
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228
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229 ~SliceWriter()
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230 {
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231 Flush();
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232 }
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233
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234 const Orthanc::ImageAccessor& GetAccessor() const
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235 {
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236 return accessor_;
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237 }
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238
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239 Orthanc::ImageAccessor& GetAccessor()
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240 {
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241 modified_ = true;
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242 return accessor_;
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243 }
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244 };
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245 };
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246 }