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annotate OrthancStone/Sources/Volumes/ImageBuffer3D.cpp @ 1870:3889ae96d2e9

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added copyright UCLouvain
author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 11 Jan 2022 11:04:09 +0100
parents f053c80ea411
children 7053b8a0aaec
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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 * Copyright (C) 2021-2021 Sebastien Jodogne, ICTEAM UCLouvain, Belgium
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7 *
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8 * This program is free software: you can redistribute it and/or
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9 * modify it under the terms of the GNU Lesser General Public License
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28956ed68280 agpl license
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10 * as published by the Free Software Foundation, either version 3 of
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11 * the License, or (at your option) any later version.
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12 *
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13 * This program is distributed in the hope that it will be useful, but
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14 * WITHOUT ANY WARRANTY; without even the implied warranty of
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15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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16 * Lesser General Public License for more details.
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3a4ca166fafa ImageAccessor refactoring + implemented Image Cache in SmartLoader
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17 *
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18 * You should have received a copy of the GNU Lesser General Public
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19 * License along with this program. If not, see
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20 * <http://www.gnu.org/licenses/>.
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21 **/
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22
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24 #include "ImageBuffer3D.h"
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25
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26 #include <Images/ImageProcessing.h>
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27 #include <Logging.h>
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28 #include <OrthancException.h>
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29
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4a541cd4fa83 OrthancVolumeImageLoader
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30 #include <string.h>
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32 namespace OrthancStone
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33 {
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34 void ImageBuffer3D::GetAxialSliceAccessor(Orthanc::ImageAccessor& target,
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35 unsigned int slice,
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36 bool readOnly)
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37 {
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38 if (slice >= depth_)
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39 {
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40 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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41 }
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43 if (readOnly)
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44 {
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45 target.AssignReadOnly(format_, width_, height_, image_.GetPitch(),
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46 image_.GetConstRow(height_ * (depth_ - 1 - slice)));
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47 }
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48 else
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49 {
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50 target.AssignWritable(format_, width_, height_, image_.GetPitch(),
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51 image_.GetRow(height_ * (depth_ - 1 - slice)));
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52 }
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53 }
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56 void ImageBuffer3D::GetCoronalSliceAccessor(Orthanc::ImageAccessor& target,
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57 unsigned int slice,
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58 bool readOnly)
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59 {
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60 if (slice >= height_)
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61 {
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62 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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63 }
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65 if (readOnly)
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66 {
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67 target.AssignReadOnly(format_, width_, depth_, image_.GetPitch() * height_,
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68 image_.GetConstRow(slice));
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69 }
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70 else
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71 {
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72 target.AssignWritable(format_, width_, depth_, image_.GetPitch() * height_,
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73 image_.GetRow(slice));
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74 }
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75 }
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78 Orthanc::Image* ImageBuffer3D::ExtractSagittalSlice(unsigned int slice) const
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79 {
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80 if (slice >= width_)
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81 {
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82 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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83 }
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84
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85 std::unique_ptr<Orthanc::Image> result(new Orthanc::Image(format_, height_, depth_, false));
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86
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87 const unsigned int bytesPerPixel = Orthanc::GetBytesPerPixel(format_);
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88
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89 for (unsigned int z = 0; z < depth_; z++)
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90 {
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91 uint8_t* q = reinterpret_cast<uint8_t*>(result->GetRow(z));
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92
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93 for (unsigned int y = 0; y < height_; y++)
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94 {
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95 const uint8_t* p = reinterpret_cast<const uint8_t*>(image_.GetConstRow(y + z * height_)) + bytesPerPixel * slice;
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96
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97 for (size_t x = 0; x < bytesPerPixel; ++x)
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98 {
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99 q[x] = p[x];
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100 }
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101
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102 q += bytesPerPixel;
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103 }
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104 }
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105
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106 return result.release();
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107 }
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108
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109
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110 void ImageBuffer3D::CommitSagittalSlice(unsigned int slice,
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111 const Orthanc::ImageAccessor& source)
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112 {
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113 if (slice >= width_)
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114 {
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115 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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116 }
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117
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118 const unsigned int bytesPerPixel = Orthanc::GetBytesPerPixel(format_);
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119
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120 for (unsigned int z = 0; z < depth_; z++)
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121 {
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122 const uint8_t* p = reinterpret_cast<const uint8_t*>(source.GetConstRow(z));
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123
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124 for (unsigned int y = 0; y < height_; y++)
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125 {
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126 uint8_t* q = reinterpret_cast<uint8_t*>(image_.GetRow(y + z * height_)) + bytesPerPixel * slice;
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127
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128 for (size_t x = 0; x < bytesPerPixel; ++x)
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129 {
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130 q[x] = p[x];
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131 }
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132
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133 p += bytesPerPixel;
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134 }
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135 }
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136 }
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137
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138
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139 ImageBuffer3D::ImageBuffer3D(Orthanc::PixelFormat format,
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140 unsigned int width,
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141 unsigned int height,
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142 unsigned int depth,
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143 bool computeRange) :
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144 image_(format, width, height * depth, false),
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145 format_(format),
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146 width_(width),
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147 height_(height),
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148 depth_(depth),
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149 computeRange_(computeRange),
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150 hasRange_(false)
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151 {
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152 LOG(TRACE) << "Created a 3D image of size " << width << "x" << height
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153 << "x" << depth << " in " << Orthanc::EnumerationToString(format)
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154 << " (" << (GetEstimatedMemorySize() / (1024ll * 1024ll)) << "MB)";
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155 }
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156
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157
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158 void ImageBuffer3D::Clear()
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159 {
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160 memset(image_.GetBuffer(), 0, image_.GetHeight() * image_.GetPitch());
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161 }
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162
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163
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164 uint64_t ImageBuffer3D::GetEstimatedMemorySize() const
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165 {
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166 return image_.GetPitch() * image_.GetHeight() * Orthanc::GetBytesPerPixel(format_);
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167 }
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168
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169
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170 void ImageBuffer3D::ExtendImageRange(const Orthanc::ImageAccessor& slice)
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171 {
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172 if (!computeRange_ ||
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173 slice.GetWidth() == 0 ||
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174 slice.GetHeight() == 0)
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175 {
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176 return;
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177 }
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178
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179 float sliceMin, sliceMax;
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180
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181 switch (slice.GetFormat())
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182 {
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183 case Orthanc::PixelFormat_Grayscale8:
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184 case Orthanc::PixelFormat_Grayscale16:
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185 case Orthanc::PixelFormat_Grayscale32:
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186 case Orthanc::PixelFormat_SignedGrayscale16:
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187 {
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188 int64_t a, b;
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189 Orthanc::ImageProcessing::GetMinMaxIntegerValue(a, b, slice);
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190 sliceMin = static_cast<float>(a);
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191 sliceMax = static_cast<float>(b);
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192 break;
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193 }
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194
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195 case Orthanc::PixelFormat_Float32:
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196 Orthanc::ImageProcessing::GetMinMaxFloatValue(sliceMin, sliceMax, slice);
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197 break;
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198
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199 default:
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200 return;
119
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201 }
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202
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203 if (hasRange_)
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204 {
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205 minValue_ = std::min(minValue_, sliceMin);
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206 maxValue_ = std::max(maxValue_, sliceMax);
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207 }
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208 else
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209 {
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210 hasRange_ = true;
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211 minValue_ = sliceMin;
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212 maxValue_ = sliceMax;
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213 }
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214 }
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215
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216
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217 bool ImageBuffer3D::GetRange(float& minValue,
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218 float& maxValue) const
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219 {
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220 if (hasRange_)
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221 {
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222 minValue = minValue_;
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223 maxValue = maxValue_;
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224 return true;
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225 }
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226 else
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227 {
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228 return false;
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229 }
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230 }
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231
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232
192
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233 ImageBuffer3D::SliceReader::SliceReader(const ImageBuffer3D& that,
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234 VolumeProjection projection,
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235 unsigned int slice)
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236 {
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237 /**
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238 * NB: The "const_cast" below are OK, as the "readonly" argument
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239 * to "GetAxialSliceAccessor()" and "GetCoronalSliceAccessor()"
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240 * are set to "true", which implies read-only access.
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241 **/
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242
0
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243 switch (projection)
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244 {
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245 case VolumeProjection_Axial:
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246 const_cast<ImageBuffer3D&>(that).GetAxialSliceAccessor(accessor_, slice, true);
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247 break;
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248
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249 case VolumeProjection_Coronal:
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250 const_cast<ImageBuffer3D&>(that).GetCoronalSliceAccessor(accessor_, slice, true);
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251 break;
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252
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253 case VolumeProjection_Sagittal:
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254 sagittal_.reset(that.ExtractSagittalSlice(slice));
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255 sagittal_->GetReadOnlyAccessor(accessor_);
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256 break;
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257
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258 default:
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259 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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260 }
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261 }
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262
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263
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264 void ImageBuffer3D::SliceWriter::Flush()
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265 {
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266 if (modified_)
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267 {
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268 if (sagittal_.get() != NULL)
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269 {
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270 assert(sagittal_->GetWidth() == that_.height_ &&
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271 sagittal_->GetHeight() == that_.depth_ &&
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272 sagittal_->GetFormat() == that_.format_);
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273
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274 that_.CommitSagittalSlice(slice_, *sagittal_);
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275 }
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276
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277 // Update the dynamic range of the underlying image, if
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278 // "computeRange_" is set to true
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279 that_.ExtendImageRange(accessor_);
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280 }
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281 }
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282
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283
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284 ImageBuffer3D::SliceWriter::SliceWriter(ImageBuffer3D& that,
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285 VolumeProjection projection,
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286 unsigned int slice) :
119
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287 that_(that),
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288 modified_(false),
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289 slice_(slice)
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290 {
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291 switch (projection)
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292 {
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293 case VolumeProjection_Axial:
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294 that.GetAxialSliceAccessor(accessor_, slice, false);
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295 break;
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296
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297 case VolumeProjection_Coronal:
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298 that.GetCoronalSliceAccessor(accessor_, slice, false);
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299 break;
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300
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301 case VolumeProjection_Sagittal:
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302 sagittal_.reset(that.ExtractSagittalSlice(slice));
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303 sagittal_->GetWriteableAccessor(accessor_);
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304 break;
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305
684
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306 default:
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307 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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308 }
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309 }
139
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310
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311
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312 uint8_t ImageBuffer3D::GetVoxelGrayscale8(unsigned int x,
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313 unsigned int y,
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314 unsigned int z) const
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315 {
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316 if (format_ != Orthanc::PixelFormat_Grayscale8)
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317 {
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318 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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319 }
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320
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321 if (x >= width_ ||
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322 y >= height_ ||
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323 z >= depth_)
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324 {
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325 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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326 }
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327
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328 const void* p = image_.GetConstRow(y + height_ * (depth_ - 1 - z));
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329 return reinterpret_cast<const uint8_t*>(p) [x];
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330 }
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331
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332
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333 uint16_t ImageBuffer3D::GetVoxelGrayscale16(unsigned int x,
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334 unsigned int y,
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335 unsigned int z) const
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336 {
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337 if (format_ != Orthanc::PixelFormat_Grayscale16)
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338 {
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339 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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340 }
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341
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342 if (x >= width_ ||
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343 y >= height_ ||
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344 z >= depth_)
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345 {
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346 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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347 }
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348
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349 const void* p = image_.GetConstRow(y + height_ * (depth_ - 1 - z));
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350 return reinterpret_cast<const uint16_t*>(p) [x];
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351 }
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352 }