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annotate OrthancStone/Sources/Volumes/ImageBuffer3D.cpp @ 1782:f053c80ea411

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ImageBuffer3D::CommitSagittalSlice()
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 14 May 2021 16:30:54 +0200
parents 9ac2a65d4172
children 3889ae96d2e9
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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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21
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23 #include "ImageBuffer3D.h"
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25 #include <Images/ImageProcessing.h>
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26 #include <Logging.h>
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27 #include <OrthancException.h>
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28
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29 #include <string.h>
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31 namespace OrthancStone
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32 {
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33 void ImageBuffer3D::GetAxialSliceAccessor(Orthanc::ImageAccessor& target,
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34 unsigned int slice,
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35 bool readOnly)
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36 {
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37 if (slice >= depth_)
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38 {
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39 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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40 }
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41
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42 if (readOnly)
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43 {
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44 target.AssignReadOnly(format_, width_, height_, image_.GetPitch(),
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45 image_.GetConstRow(height_ * (depth_ - 1 - slice)));
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46 }
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47 else
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48 {
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49 target.AssignWritable(format_, width_, height_, image_.GetPitch(),
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50 image_.GetRow(height_ * (depth_ - 1 - slice)));
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51 }
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52 }
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55 void ImageBuffer3D::GetCoronalSliceAccessor(Orthanc::ImageAccessor& target,
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56 unsigned int slice,
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57 bool readOnly)
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58 {
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59 if (slice >= height_)
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60 {
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61 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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62 }
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63
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64 if (readOnly)
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65 {
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66 target.AssignReadOnly(format_, width_, depth_, image_.GetPitch() * height_,
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67 image_.GetConstRow(slice));
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68 }
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69 else
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70 {
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71 target.AssignWritable(format_, width_, depth_, image_.GetPitch() * height_,
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72 image_.GetRow(slice));
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73 }
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74 }
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77 Orthanc::Image* ImageBuffer3D::ExtractSagittalSlice(unsigned int slice) const
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78 {
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79 if (slice >= width_)
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80 {
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81 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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82 }
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83
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84 std::unique_ptr<Orthanc::Image> result(new Orthanc::Image(format_, height_, depth_, false));
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85
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86 const unsigned int bytesPerPixel = Orthanc::GetBytesPerPixel(format_);
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87
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88 for (unsigned int z = 0; z < depth_; z++)
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89 {
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90 uint8_t* q = reinterpret_cast<uint8_t*>(result->GetRow(z));
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91
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92 for (unsigned int y = 0; y < height_; y++)
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93 {
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94 const uint8_t* p = reinterpret_cast<const uint8_t*>(image_.GetConstRow(y + z * height_)) + bytesPerPixel * slice;
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95
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96 for (size_t x = 0; x < bytesPerPixel; ++x)
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97 {
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98 q[x] = p[x];
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99 }
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100
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101 q += bytesPerPixel;
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102 }
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103 }
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104
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105 return result.release();
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106 }
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107
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108
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109 void ImageBuffer3D::CommitSagittalSlice(unsigned int slice,
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110 const Orthanc::ImageAccessor& source)
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111 {
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112 if (slice >= width_)
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113 {
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114 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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115 }
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116
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117 const unsigned int bytesPerPixel = Orthanc::GetBytesPerPixel(format_);
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118
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119 for (unsigned int z = 0; z < depth_; z++)
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120 {
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121 const uint8_t* p = reinterpret_cast<const uint8_t*>(source.GetConstRow(z));
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122
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123 for (unsigned int y = 0; y < height_; y++)
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124 {
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125 uint8_t* q = reinterpret_cast<uint8_t*>(image_.GetRow(y + z * height_)) + bytesPerPixel * slice;
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126
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127 for (size_t x = 0; x < bytesPerPixel; ++x)
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128 {
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129 q[x] = p[x];
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130 }
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131
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132 p += bytesPerPixel;
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133 }
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134 }
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135 }
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137
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138 ImageBuffer3D::ImageBuffer3D(Orthanc::PixelFormat format,
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139 unsigned int width,
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140 unsigned int height,
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141 unsigned int depth,
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142 bool computeRange) :
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143 image_(format, width, height * depth, false),
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144 format_(format),
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145 width_(width),
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146 height_(height),
119
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147 depth_(depth),
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148 computeRange_(computeRange),
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149 hasRange_(false)
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150 {
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151 LOG(TRACE) << "Created a 3D image of size " << width << "x" << height
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152 << "x" << depth << " in " << Orthanc::EnumerationToString(format)
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153 << " (" << (GetEstimatedMemorySize() / (1024ll * 1024ll)) << "MB)";
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154 }
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155
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156
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157 void ImageBuffer3D::Clear()
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158 {
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159 memset(image_.GetBuffer(), 0, image_.GetHeight() * image_.GetPitch());
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160 }
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161
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162
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163 uint64_t ImageBuffer3D::GetEstimatedMemorySize() const
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164 {
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165 return image_.GetPitch() * image_.GetHeight() * Orthanc::GetBytesPerPixel(format_);
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166 }
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167
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168
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169 void ImageBuffer3D::ExtendImageRange(const Orthanc::ImageAccessor& slice)
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170 {
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171 if (!computeRange_ ||
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172 slice.GetWidth() == 0 ||
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173 slice.GetHeight() == 0)
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174 {
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175 return;
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176 }
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177
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178 float sliceMin, sliceMax;
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179
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180 switch (slice.GetFormat())
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181 {
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182 case Orthanc::PixelFormat_Grayscale8:
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183 case Orthanc::PixelFormat_Grayscale16:
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184 case Orthanc::PixelFormat_Grayscale32:
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185 case Orthanc::PixelFormat_SignedGrayscale16:
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186 {
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187 int64_t a, b;
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188 Orthanc::ImageProcessing::GetMinMaxIntegerValue(a, b, slice);
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189 sliceMin = static_cast<float>(a);
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190 sliceMax = static_cast<float>(b);
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191 break;
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192 }
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193
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194 case Orthanc::PixelFormat_Float32:
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195 Orthanc::ImageProcessing::GetMinMaxFloatValue(sliceMin, sliceMax, slice);
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196 break;
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197
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198 default:
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199 return;
119
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200 }
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201
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202 if (hasRange_)
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203 {
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204 minValue_ = std::min(minValue_, sliceMin);
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205 maxValue_ = std::max(maxValue_, sliceMax);
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206 }
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207 else
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208 {
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209 hasRange_ = true;
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210 minValue_ = sliceMin;
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211 maxValue_ = sliceMax;
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212 }
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213 }
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214
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215
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216 bool ImageBuffer3D::GetRange(float& minValue,
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217 float& maxValue) const
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218 {
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219 if (hasRange_)
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220 {
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221 minValue = minValue_;
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222 maxValue = maxValue_;
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223 return true;
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224 }
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225 else
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226 {
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227 return false;
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228 }
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229 }
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230
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231
192
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232 ImageBuffer3D::SliceReader::SliceReader(const ImageBuffer3D& that,
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233 VolumeProjection projection,
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234 unsigned int slice)
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235 {
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236 /**
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237 * NB: The "const_cast" below are OK, as the "readonly" argument
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238 * to "GetAxialSliceAccessor()" and "GetCoronalSliceAccessor()"
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239 * are set to "true", which implies read-only access.
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240 **/
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241
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242 switch (projection)
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243 {
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244 case VolumeProjection_Axial:
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245 const_cast<ImageBuffer3D&>(that).GetAxialSliceAccessor(accessor_, slice, true);
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246 break;
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247
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248 case VolumeProjection_Coronal:
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249 const_cast<ImageBuffer3D&>(that).GetCoronalSliceAccessor(accessor_, slice, true);
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250 break;
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251
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252 case VolumeProjection_Sagittal:
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253 sagittal_.reset(that.ExtractSagittalSlice(slice));
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254 sagittal_->GetReadOnlyAccessor(accessor_);
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255 break;
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256
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257 default:
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258 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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259 }
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260 }
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261
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262
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263 void ImageBuffer3D::SliceWriter::Flush()
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264 {
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265 if (modified_)
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266 {
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267 if (sagittal_.get() != NULL)
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268 {
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269 assert(sagittal_->GetWidth() == that_.height_ &&
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270 sagittal_->GetHeight() == that_.depth_ &&
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271 sagittal_->GetFormat() == that_.format_);
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272
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273 that_.CommitSagittalSlice(slice_, *sagittal_);
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274 }
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275
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276 // Update the dynamic range of the underlying image, if
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277 // "computeRange_" is set to true
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278 that_.ExtendImageRange(accessor_);
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279 }
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280 }
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281
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282
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283 ImageBuffer3D::SliceWriter::SliceWriter(ImageBuffer3D& that,
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284 VolumeProjection projection,
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285 unsigned int slice) :
119
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286 that_(that),
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287 modified_(false),
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288 slice_(slice)
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289 {
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290 switch (projection)
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291 {
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292 case VolumeProjection_Axial:
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293 that.GetAxialSliceAccessor(accessor_, slice, false);
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294 break;
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295
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296 case VolumeProjection_Coronal:
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297 that.GetCoronalSliceAccessor(accessor_, slice, false);
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298 break;
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299
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300 case VolumeProjection_Sagittal:
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301 sagittal_.reset(that.ExtractSagittalSlice(slice));
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302 sagittal_->GetWriteableAccessor(accessor_);
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303 break;
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304
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305 default:
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306 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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307 }
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308 }
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309
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310
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311 uint8_t ImageBuffer3D::GetVoxelGrayscale8(unsigned int x,
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312 unsigned int y,
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313 unsigned int z) const
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314 {
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315 if (format_ != Orthanc::PixelFormat_Grayscale8)
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316 {
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317 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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318 }
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319
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320 if (x >= width_ ||
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321 y >= height_ ||
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322 z >= depth_)
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323 {
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324 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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325 }
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326
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327 const void* p = image_.GetConstRow(y + height_ * (depth_ - 1 - z));
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328 return reinterpret_cast<const uint8_t*>(p) [x];
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329 }
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330
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331
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332 uint16_t ImageBuffer3D::GetVoxelGrayscale16(unsigned int x,
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333 unsigned int y,
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334 unsigned int z) const
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335 {
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336 if (format_ != Orthanc::PixelFormat_Grayscale16)
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337 {
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338 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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339 }
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340
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341 if (x >= width_ ||
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342 y >= height_ ||
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343 z >= depth_)
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344 {
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345 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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346 }
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347
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348 const void* p = image_.GetConstRow(y + height_ * (depth_ - 1 - z));
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349 return reinterpret_cast<const uint16_t*>(p) [x];
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350 }
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351 }