Mercurial > hg > orthanc-stone

annotate Framework/Toolbox/ImageToolbox.cpp @ 1484:121d01aa328e

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SeriesThumbnailsLoader working on raw dicom files
author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 22 Jun 2020 17:46:40 +0200
parents 30deba7bc8e2
children
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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) 2017-2020 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 Affero General Public 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 * Affero 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 Affero General Public License
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18 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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19 **/
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20
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21 #include "../OrthancStone.h"
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22 #include "ImageToolbox.h"
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23
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24 #include "../StoneException.h"
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25
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26 #include <Images/ImageProcessing.h>
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27 #include <Images/PixelTraits.h>
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28
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29 #include <Logging.h>
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30 #include <OrthancException.h>
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31
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32 #include <boost/static_assert.hpp>
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33 #include <boost/type_traits.hpp>
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34
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35 #include <vector>
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36
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37 #if !defined(ORTHANC_ENABLE_DCMTK)
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38 # error ORTHANC_ENABLE_DCMTK is not defined
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39 #endif
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40
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41 #if !defined(ORTHANC_ENABLE_DCMTK_JPEG)
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42 # error ORTHANC_ENABLE_DCMTK_JPEG is not defined
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43 #endif
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44
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45 #if !defined(ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS)
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46 # error ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS is not defined
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47 #endif
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48
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49
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50 namespace OrthancStone
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51 {
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52 namespace
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53 {
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54 using Orthanc::PixelTraits;
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55 using Orthanc::PixelFormat;
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56 using Orthanc::ImageAccessor;
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57 using Orthanc::PixelFormat;
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58
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59 template<typename Orthanc::PixelFormat Format>
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60 class PixelBinner
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61 {
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62 // "PixelBinner requires an arithmetic (integer or floating-point) pixel format"
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63 typedef typename Orthanc::PixelTraits<Format>::PixelType PixelType;
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64 BOOST_STATIC_ASSERT(boost::is_arithmetic<PixelType>::value);
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65
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66 public:
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67 PixelBinner(HistogramData& hd, double minValue, double maxValue)
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68 : hd_(hd)
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69 , minValue_(minValue)
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70 , maxValue_(maxValue)
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71 , division_(1.0 / hd_.binSize)
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72 {
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73 ORTHANC_ASSERT(hd_.bins.size() > 0);
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74 ORTHANC_ASSERT(maxValue > minValue);
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75 }
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76
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77 ORTHANC_FORCE_INLINE void AddPixel(PixelType p)
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78 {
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79 if (p <= minValue_)
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80 {
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81 hd_.bins[0] += 1;
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82 }
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83 else if (p >= maxValue_)
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84 {
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85 hd_.bins.back() += 1;
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86 }
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87 else
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88 {
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89 double distanceFromMin = p - minValue_;
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90 size_t binIndex = static_cast<size_t>(
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91 std::floor(distanceFromMin * division_));
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92 if (binIndex >= hd_.bins.size())
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93 binIndex = hd_.bins.size() - 1;
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94 hd_.bins[binIndex] += 1;
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95 }
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96 }
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97 private:
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98 HistogramData& hd_;
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99 double minValue_;
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100 double maxValue_;
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101 double division_;
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102 };
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103
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104 template<PixelFormat Format>
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105 struct Histogram
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106 {
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107 typedef typename PixelTraits<Format>::PixelType PixelType;
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108
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109 static void Apply(const Orthanc::ImageAccessor& img, HistogramData& hd,
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110 double minValue = 0,
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111 double maxValue = 0)
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112 {
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113 ORTHANC_ASSERT(Format == img.GetFormat(),
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114 "Internal error. Wrong template histogram type");
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115
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116 const size_t height = img.GetHeight();
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117 const size_t width = img.GetHeight();
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118
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119 if ((minValue == 0) && (maxValue == 0))
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120 {
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121 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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122 //ORTHANC_ASSERT(boost::is_integral<PixelType>::value,
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123 // "Min and max values must be supplied for float-based histogram");
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124 //
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125 //PixelTraits<Format>::SetMinValue(minValue);
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126 //PixelTraits<Format>::SetMaxValue(maxValue);
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127 }
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128
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129 hd.minValue = minValue;
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130
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131 // the following code is not really pretty but ensures
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132 size_t numBins = static_cast<size_t>(
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133 std::ceil((maxValue - minValue) / hd.binSize));
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134
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135 hd.bins.resize(numBins);
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136 std::fill(hd.bins.begin(), hd.bins.end(), 0);
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137
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138 PixelBinner<Format> binner(hd, minValue, maxValue);
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139 for (uint32_t y = 0; y < height; ++y)
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140 {
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141 const PixelType* curPix = reinterpret_cast<const PixelType*>(
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142 img.GetConstRow(y));
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143
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144 for (uint32_t x = 0; x < width; x++, curPix++)
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145 {
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146 binner.AddPixel(*curPix);
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147 }
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148 }
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149 }
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150 };
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151
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152
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153 template<PixelFormat Format>
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154 struct ComputeMinMax__
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155 {
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156 typedef typename PixelTraits<Format>::PixelType PixelType;
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157
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158 static void Apply(const Orthanc::ImageAccessor& img,
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159 PixelType& minValue, PixelType& maxValue)
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160 {
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161 ORTHANC_ASSERT(Format == img.GetFormat(),
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162 "Internal error. Wrong template histogram type");
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163
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164 const size_t height = img.GetHeight();
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165 const size_t width = img.GetHeight();
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166
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167 if (height * width == 0)
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168 {
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169 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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170 }
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171
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172 // min and max are crossed below. Think about it. This is OK :)
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173 PixelTraits<Format>::SetMaxValue(minValue);
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174 PixelTraits<Format>::SetMinValue(maxValue);
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175
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176 for (uint32_t y = 0; y < height; ++y)
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177 {
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178 const PixelType* curPix = reinterpret_cast<const PixelType*>(
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179 img.GetConstRow(y));
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180
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181 for (uint32_t x = 0; x < width; x++, curPix++)
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182 {
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183 if (*curPix <= minValue)
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184 minValue = *curPix;
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185 if (*curPix >= maxValue)
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186 maxValue = *curPix;
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187 }
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188 }
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189 }
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190 };
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191
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192 template<PixelFormat Format>
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193 void ComputeMinMax_(const Orthanc::ImageAccessor& img,
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194 double& minValue, double& maxValue)
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195 {
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196 typedef typename PixelTraits<Format>::PixelType PixelType;
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197 PixelType minValuePix = PixelType();
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198 PixelType maxValuePix = PixelType();
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199 ComputeMinMax__<Format>::Apply(img, minValuePix, maxValuePix);
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200 minValue = static_cast<double>(minValuePix);
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201 maxValue = static_cast<double>(maxValuePix);
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202 }
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203
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204 template<PixelFormat Format>
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205 void ComputeHistogram_(const Orthanc::ImageAccessor& img, HistogramData& hd)
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206 {
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207 typedef typename PixelTraits<Format>::PixelType PixelType;
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208 PixelType minValue = PixelType();
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209 PixelType maxValue = PixelType();
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210 ComputeMinMax__<Format>::Apply(img, minValue, maxValue);
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211
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212 // make bins a little bigger to center integer pixel values
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213 Histogram<Format>::Apply(img, hd,
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214 static_cast<double>(minValue) - 0.5,
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215 static_cast<double>(maxValue) + 0.5);
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216 }
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217 }
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218
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219 void ComputeHistogram(const Orthanc::ImageAccessor& img,
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220 HistogramData& hd, double binSize)
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221 {
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222 using namespace Orthanc;
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223
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224 hd.binSize = binSize;
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225
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226 // dynamic/static bridge
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227 switch (img.GetFormat())
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228 {
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229 case PixelFormat_Grayscale8:
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230 ComputeHistogram_<PixelFormat_Grayscale8> (img, hd);
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231 break;
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232 case PixelFormat_Grayscale16:
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233 ComputeHistogram_<PixelFormat_Grayscale16> (img, hd);
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234 break;
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235 case PixelFormat_SignedGrayscale16:
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236 ComputeHistogram_<PixelFormat_SignedGrayscale16>(img, hd);
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237 break;
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238 case PixelFormat_Float32:
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239 ComputeHistogram_<PixelFormat_Float32> (img, hd);
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240 break;
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241 case PixelFormat_Grayscale32:
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242 ComputeHistogram_<PixelFormat_Grayscale32> (img, hd);
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243 break;
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244 case PixelFormat_Grayscale64:
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245 ComputeHistogram_<PixelFormat_Grayscale64> (img, hd);
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246 break;
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247 default:
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248 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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249 }
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250 }
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251
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252 void ComputeMinMax(const Orthanc::ImageAccessor& img,
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253 double& minValue, double& maxValue)
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254 {
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255 using namespace Orthanc;
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256
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257 // dynamic/static bridge
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258 switch (img.GetFormat())
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259 {
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260 case PixelFormat_Grayscale8:
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261 ComputeMinMax_<PixelFormat_Grayscale8> (img, minValue, maxValue);
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262 break;
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263 case PixelFormat_Grayscale16:
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264 ComputeMinMax_<PixelFormat_Grayscale16> (img, minValue, maxValue);
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265 break;
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266 case PixelFormat_SignedGrayscale16:
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267 ComputeMinMax_<PixelFormat_SignedGrayscale16>(img, minValue, maxValue);
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268 break;
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269 case PixelFormat_Float32:
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270 ComputeMinMax_<PixelFormat_Float32> (img, minValue, maxValue);
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271 break;
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272 case PixelFormat_Grayscale32:
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273 ComputeMinMax_<PixelFormat_Grayscale32> (img, minValue, maxValue);
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274 break;
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275 case PixelFormat_Grayscale64:
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276 ComputeMinMax_<PixelFormat_Grayscale64> (img, minValue, maxValue);
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277 break;
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278 default:
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279 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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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 void DumpHistogramResult(std::string& s, const HistogramData& hd)
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285 {
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286 std::stringstream ss;
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287 ss << "Histogram:\n";
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288 ss << "==========\n";
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289 ss << "\n";
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290 ss << "minValue : " << hd.minValue << "\n";
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291 ss << "binSize : " << hd.binSize << "\n";
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292 ss << "bins.size() : " << hd.bins.size() << "\n";
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293 ss << "bins :\n";
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294 double curBinStart = hd.minValue;
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295 size_t pixCount = 0;
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296 for (size_t i = 0; i < hd.bins.size(); ++i)
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297 {
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298 ss << "index: " << i << " (from " << curBinStart << " to "
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299 << curBinStart + hd.binSize << ") : " << hd.bins[i] << " pixels\n";
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300 curBinStart += hd.binSize;
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301 pixCount += hd.bins[i];
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302 }
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303 ss << "total pix. count: " << pixCount << "\n";
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304 s = ss.str();
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305 }
1484
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306
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307
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308 bool ImageToolbox::IsDecodingSupported(Orthanc::DicomTransferSyntax& transferSyntax)
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309 {
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310 switch (transferSyntax)
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311 {
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312 case Orthanc::DicomTransferSyntax_LittleEndianImplicit:
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313 case Orthanc::DicomTransferSyntax_LittleEndianExplicit:
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314 case Orthanc::DicomTransferSyntax_DeflatedLittleEndianExplicit:
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315 case Orthanc::DicomTransferSyntax_BigEndianExplicit:
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316 case Orthanc::DicomTransferSyntax_RLELossless:
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317 return true;
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318
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319 #if (ORTHANC_ENABLE_DCMTK == 1) && (ORTHANC_ENABLE_DCMTK_JPEG == 1)
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320 case Orthanc::DicomTransferSyntax_JPEGProcess1:
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321 case Orthanc::DicomTransferSyntax_JPEGProcess2_4:
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322 case Orthanc::DicomTransferSyntax_JPEGProcess14:
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323 case Orthanc::DicomTransferSyntax_JPEGProcess14SV1:
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324 return true;
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325 #endif
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326
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327 #if (ORTHANC_ENABLE_DCMTK == 1) && (ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1)
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328 case Orthanc::DicomTransferSyntax_JPEGLSLossless:
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329 case Orthanc::DicomTransferSyntax_JPEGLSLossy:
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330 return true;
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331 #endif
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332
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333 default:
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334 return false;
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335 }
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336 }
1286
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337 }