annotate Plugin/ParsedDicomImage.cpp @ 38:fec65ef2c7e9

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author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 03 Jul 2015 10:45:51 +0200
parents 111689a2c177
children abdde1dfb3eb
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2015 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 *
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6 * This program is free software: you can redistribute it and/or
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7 * modify it under the terms of the GNU Affero General Public License
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8 * as published by the Free Software Foundation, either version 3 of
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9 * the License, or (at your option) any later version.
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10 *
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11 * This program is distributed in the hope that it will be useful, but
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12 * WITHOUT ANY WARRANTY; without even the implied warranty of
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13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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14 * Affero General Public License for more details.
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15 *
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16 * You should have received a copy of the GNU Affero General Public License
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17 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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18 **/
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19
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20
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21 #include "ParsedDicomImage.h"
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22
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23 #include "../Orthanc/Core/OrthancException.h"
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24 #include "../Orthanc/Core/Toolbox.h"
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25 #include "../Orthanc/Core/ImageFormats/ImageProcessing.h"
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26 #include "../Orthanc/Core/ImageFormats/ImageBuffer.h"
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27 #include "../Orthanc/Core/ImageFormats/PngReader.h"
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28 #include "JpegWriter.h"
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29 #include "ViewerToolbox.h"
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30
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31 #include <gdcmImageReader.h>
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32 #include <gdcmImageChangePlanarConfiguration.h>
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33 #include <gdcmImageChangePhotometricInterpretation.h>
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34 #include <boost/lexical_cast.hpp>
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35 #include <boost/math/special_functions/round.hpp>
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36
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37 #include "../Orthanc/Resources/ThirdParty/base64/base64.h"
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39
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40 namespace OrthancPlugins
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41 {
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42 class ParsedDicomImage::PImpl
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43 {
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44 private:
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45 OrthancPluginContext* context_;
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46 std::string instanceId_;
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47 gdcm::ImageReader reader_;
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48 std::auto_ptr<gdcm::ImageChangePhotometricInterpretation> photometric_;
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49 std::auto_ptr<gdcm::ImageChangePlanarConfiguration> interleaved_;
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50 std::string decoded_;
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51 Orthanc::PngReader png_;
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52 bool insidePng_;
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53 bool isDecoded_;
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54
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55 bool DecodeUsingGdcm()
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56 {
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57 // Change photometric interpretation, if required
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58 {
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59 const gdcm::Image& image = GetImage();
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60 if (image.GetPixelFormat().GetSamplesPerPixel() == 1)
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61 {
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62 if (image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME1 &&
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63 image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME2)
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64 {
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65 photometric_.reset(new gdcm::ImageChangePhotometricInterpretation());
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66 photometric_->SetInput(image);
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67 photometric_->SetPhotometricInterpretation(gdcm::PhotometricInterpretation::MONOCHROME2);
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68 if (!photometric_->Change() ||
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69 GetImage().GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME2)
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70 {
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71 OrthancPluginLogWarning(context_, "GDCM cannot change the photometric interpretation");
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72 return false;
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73 }
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74 }
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75 }
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76 else
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77 {
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78 if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
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79 image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::RGB)
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80 {
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81 photometric_.reset(new gdcm::ImageChangePhotometricInterpretation());
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82 photometric_->SetInput(image);
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83 photometric_->SetPhotometricInterpretation(gdcm::PhotometricInterpretation::RGB);
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84 if (!photometric_->Change() ||
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85 GetImage().GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::RGB)
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86 {
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87 OrthancPluginLogWarning(context_, "GDCM cannot change the photometric interpretation");
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88 return false;
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89 }
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90 }
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91 }
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92 }
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93
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94 // Possibly convert planar configuration to interleaved
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95 {
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96 const gdcm::Image& image = GetImage();
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97 if (image.GetPlanarConfiguration() != 0 &&
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98 image.GetPixelFormat().GetSamplesPerPixel() != 1)
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99 {
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100 interleaved_.reset(new gdcm::ImageChangePlanarConfiguration());
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101 interleaved_->SetInput(image);
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102 if (!interleaved_->Change() ||
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103 GetImage().GetPlanarConfiguration() != 0)
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104 {
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105 OrthancPluginLogWarning(context_, "GDCM cannot change the planar configuration to interleaved");
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106 return false;
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107 }
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108 }
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109 }
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110
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111 // Decode the image to the memory buffer
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112 {
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113 const gdcm::Image& image = GetImage();
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114 decoded_.resize(image.GetBufferLength());
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115
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116 if (decoded_.size() > 0)
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117 {
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118 image.GetBuffer(&decoded_[0]);
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119 }
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120 }
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121
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122 return true;
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123 }
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124
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125
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126 bool DecodeUsingOrthanc()
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127 {
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128 /**
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129 * This is a DICOM image that cannot be properly decoded by
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130 * GDCM. Let's give a try with the Orthanc built-in decoder.
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131 **/
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132 std::string file = "/instances/" + instanceId_;
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133
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134 const gdcm::Image& image = GetImage();
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135 if (image.GetPixelFormat().GetSamplesPerPixel() == 3 ||
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136 image.GetPixelFormat().GetSamplesPerPixel() == 4)
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137 {
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138 file += "/preview";
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139 }
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140 else
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141 {
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142 file += "/image-uint16";
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143 }
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144
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145 std::string png;
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146 if (!GetStringFromOrthanc(png, context_, file))
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147 {
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148 return false;
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149 }
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150 else
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diff changeset
151 {
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diff changeset
152 try
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153 {
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154 png_.ReadFromMemory(png);
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155 insidePng_ = true;
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156 return true;
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157 }
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158 catch (Orthanc::OrthancException&)
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159 {
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160 return false;
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161 }
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162 }
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163 }
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164
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165
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166 bool Decode()
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167 {
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168 if (isDecoded_)
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169 {
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170 return true;
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171 }
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172
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173 if (DecodeUsingGdcm())
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174 {
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175 isDecoded_ = true;
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176 return true;
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177 }
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178
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179 // GDCM cannot decode this image, try and use Orthanc built-in functions
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180 photometric_.reset();
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181 interleaved_.reset();
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182 decoded_.clear();
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183
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184 if (DecodeUsingOrthanc())
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185 {
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186 isDecoded_ = true;
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187 return true;
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188 }
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189 else
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190 {
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191 return false;
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192 }
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193 }
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194
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195
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196 public:
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197 PImpl(OrthancPluginContext* context,
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198 const std::string& instanceId) :
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199 context_(context),
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200 instanceId_(instanceId),
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201 insidePng_(false),
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202 isDecoded_(false)
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203 {
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204 }
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205
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206
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207 const gdcm::DataSet& GetDataSet() const
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208 {
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209 return reader_.GetFile().GetDataSet();
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210 }
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diff changeset
211
0
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212
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213 const gdcm::Image& GetImage() const
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214 {
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215 if (interleaved_.get() != NULL)
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216 {
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217 return interleaved_->GetOutput();
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218 }
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219
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220 if (photometric_.get() != NULL)
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221 {
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222 return photometric_->GetOutput();
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223 }
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224
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225 return reader_.GetImage();
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226 }
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227
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228
31
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229 void Parse(const std::string& dicom)
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230 {
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231 // Prepare a memory stream over the DICOM instance
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232 std::stringstream stream(dicom);
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233
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234 // Parse the DICOM instance using GDCM
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235 reader_.SetStream(stream);
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236 if (!reader_.Read())
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237 {
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238 throw Orthanc::OrthancException("GDCM cannot extract an image from this DICOM instance");
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239 }
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diff changeset
240 }
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diff changeset
241
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242
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diff changeset
243 bool GetAccessor(Orthanc::ImageAccessor& accessor)
0
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244 {
31
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diff changeset
245 if (!Decode())
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diff changeset
246 {
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247 return false;
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248 }
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249
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250 if (insidePng_)
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251 {
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252 // The image was decoded using Orthanc's built-in REST API
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253 accessor = png_;
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254 return true;
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255 }
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diff changeset
256
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257 const gdcm::Image& image = GetImage();
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258
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259 size_t size = decoded_.size();
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260 void* buffer = (size ? &decoded_[0] : NULL);
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261 unsigned int height = image.GetRows();
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262 unsigned int width = image.GetColumns();
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diff changeset
263
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264 if (image.GetPixelFormat().GetSamplesPerPixel() == 1 &&
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265 (image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::MONOCHROME1 ||
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diff changeset
266 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::MONOCHROME2))
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diff changeset
267 {
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268 switch (image.GetPixelFormat())
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diff changeset
269 {
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diff changeset
270 case gdcm::PixelFormat::UINT16:
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271 accessor.AssignWritable(Orthanc::PixelFormat_Grayscale16, width, height, 2 * width, buffer);
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diff changeset
272 return true;
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diff changeset
273
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diff changeset
274 case gdcm::PixelFormat::INT16:
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275 accessor.AssignWritable(Orthanc::PixelFormat_SignedGrayscale16, width, height, 2 * width, buffer);
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diff changeset
276 return true;
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diff changeset
277
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diff changeset
278 case gdcm::PixelFormat::UINT8:
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diff changeset
279 accessor.AssignWritable(Orthanc::PixelFormat_Grayscale8, width, height, width, buffer);
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diff changeset
280 return true;
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diff changeset
281
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diff changeset
282 default:
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diff changeset
283 return false;
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diff changeset
284 }
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diff changeset
285 }
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286 else if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
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287 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::RGB)
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288 {
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289 switch (image.GetPixelFormat())
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290 {
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291 case gdcm::PixelFormat::UINT8:
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292 accessor.AssignWritable(Orthanc::PixelFormat_RGB24, width, height, 3 * width, buffer);
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293 return true;
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diff changeset
294
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diff changeset
295 default:
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diff changeset
296 return false;
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diff changeset
297 }
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diff changeset
298 }
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diff changeset
299
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diff changeset
300 return false;
0
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301 }
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302 };
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303
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304
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305 template <typename TargetType, typename SourceType>
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306 static void ChangeDynamics(Orthanc::ImageAccessor& target,
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307 const Orthanc::ImageAccessor& source,
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308 SourceType source1, TargetType target1,
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309 SourceType source2, TargetType target2)
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310 {
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311 if (source.GetWidth() != target.GetWidth() ||
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312 source.GetHeight() != target.GetHeight())
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313 {
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314 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageSize);
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315 }
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316
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317 float scale = static_cast<float>(target2 - target1) / static_cast<float>(source2 - source1);
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318 float offset = static_cast<float>(target1) - scale * static_cast<float>(source1);
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319
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320 const float minValue = static_cast<float>(std::numeric_limits<TargetType>::min());
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321 const float maxValue = static_cast<float>(std::numeric_limits<TargetType>::max());
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322
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323 for (unsigned int y = 0; y < source.GetHeight(); y++)
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324 {
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325 const SourceType* p = reinterpret_cast<const SourceType*>(source.GetConstRow(y));
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326 TargetType* q = reinterpret_cast<TargetType*>(target.GetRow(y));
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327
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328 for (unsigned int x = 0; x < source.GetWidth(); x++, p++, q++)
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329 {
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330 float v = (scale * static_cast<float>(*p)) + offset;
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331
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332 if (v > maxValue)
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333 {
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334 *q = std::numeric_limits<TargetType>::max();
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335 }
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336 else if (v < minValue)
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337 {
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338 *q = std::numeric_limits<TargetType>::min();
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339 }
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340 else
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341 {
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342 *q = static_cast<TargetType>(boost::math::iround(v));
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343 }
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344 }
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345 }
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346 }
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347
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348
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349 ParsedDicomImage::ParsedDicomImage(OrthancPluginContext* context,
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350 const std::string& instanceId) :
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351 pimpl_(new PImpl(context, instanceId))
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352 {
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353 std::string file = "/instances/" + instanceId + "/file";
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354
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355 std::string dicom;
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356 if (!GetStringFromOrthanc(dicom, context, file))
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357 {
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358 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource);
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359 }
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360
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361 pimpl_->Parse(dicom);
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362 }
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363
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364
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365 bool ParsedDicomImage::GetTag(std::string& result,
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366 uint16_t group,
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367 uint16_t element,
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368 bool stripSpaces)
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369 {
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370 const gdcm::Tag tag(group, element);
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371
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372 if (pimpl_->GetDataSet().FindDataElement(tag))
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373 {
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374 const gdcm::ByteValue* value = pimpl_->GetDataSet().GetDataElement(tag).GetByteValue();
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375 if (value)
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376 {
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377 result = std::string(value->GetPointer(), value->GetLength());
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378
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379 if (stripSpaces)
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380 {
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381 result = Orthanc::Toolbox::StripSpaces(result);
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382 }
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383
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384 return true;
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385 }
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386 }
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387
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388 return false;
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389 }
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390
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391
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392 bool ParsedDicomImage::GetCornerstoneMetadata(Json::Value& json)
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393 {
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394 using namespace Orthanc;
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395
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396 ImageAccessor accessor;
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diff changeset
397 if (!pimpl_->GetAccessor(accessor))
0
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398 {
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399 return false;
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400 }
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401
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402 float windowCenter, windowWidth;
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403
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404 switch (accessor.GetFormat())
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405 {
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406 case PixelFormat_Grayscale8:
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407 case PixelFormat_Grayscale16:
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408 case PixelFormat_SignedGrayscale16:
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409 {
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410 int64_t a, b;
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411 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor);
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412 json["minPixelValue"] = (a < 0 ? static_cast<int32_t>(a) : 0);
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413 json["maxPixelValue"] = (b > 0 ? static_cast<int32_t>(b) : 1);
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414 json["color"] = false;
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415
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416 windowCenter = static_cast<float>(a + b) / 2.0f;
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417
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418 if (a == b)
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419 {
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420 windowWidth = 256.0f; // Arbitrary value
0
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421 }
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422 else
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423 {
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424 windowWidth = static_cast<float>(b - a) / 2.0f;
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425 }
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426
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427 break;
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428 }
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429
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430 case PixelFormat_RGB24:
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431 json["minPixelValue"] = 0;
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432 json["maxPixelValue"] = 255;
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433 json["color"] = true;
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434 windowCenter = 127.5f;
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435 windowWidth = 256.0f;
0
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436 break;
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437
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438 default:
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439 return false;
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440 }
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441
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442 const gdcm::Image& image = pimpl_->GetImage();
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443 json["slope"] = image.GetSlope();
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444 json["intercept"] = image.GetIntercept();
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445 json["rows"] = image.GetRows();
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446 json["columns"] = image.GetColumns();
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447 json["height"] = image.GetRows();
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448 json["width"] = image.GetColumns();
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449 json["columnPixelSpacing"] = image.GetSpacing(1);
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450 json["rowPixelSpacing"] = image.GetSpacing(0);
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451
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452 json["windowCenter"] = windowCenter * image.GetSlope() + image.GetIntercept();
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453 json["windowWidth"] = windowWidth * image.GetSlope();
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454
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diff changeset
455 try
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456 {
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diff changeset
457 std::string width, center;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
458 if (GetTag(center, 0x0028, 0x1050 /*DICOM_TAG_WINDOW_CENTER*/) &&
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
459 GetTag(width, 0x0028, 0x1051 /*DICOM_TAG_WINDOW_WIDTH*/))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
460 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
461 float a = boost::lexical_cast<float>(width);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
462 float b = boost::lexical_cast<float>(center);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
463 json["windowWidth"] = a;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
464 json["windowCenter"] = b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
465 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
466 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
467 catch (boost::bad_lexical_cast&)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
468 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
469 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
470
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
471 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
472 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
473
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
474
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
475 bool ParsedDicomImage::EncodeUsingDeflate(Json::Value& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
476 uint8_t compressionLevel /* between 0 and 9 */)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
477 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
478 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
479
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
480 ImageAccessor accessor;
31
111689a2c177 fix issue 29
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parents: 26
diff changeset
481 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
482 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
483 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
484 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
485
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
486 result = Json::objectValue;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
487 result["Orthanc"] = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
488 if (!GetCornerstoneMetadata(result))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
489 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
490 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
491 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
492
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
493 ImageBuffer buffer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
494 buffer.SetMinimalPitchForced(true);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
495
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
496 ImageAccessor converted;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
497
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
498
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
499 switch (accessor.GetFormat())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
500 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
501 case Orthanc::PixelFormat_RGB24:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
502 converted = accessor;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
503 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
504
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
505 case Orthanc::PixelFormat_Grayscale8:
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
506 case Orthanc::PixelFormat_Grayscale16:
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
507 buffer.SetFormat(Orthanc::PixelFormat_SignedGrayscale16);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
508 buffer.SetWidth(accessor.GetWidth());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
509 buffer.SetHeight(accessor.GetHeight());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
510 converted = buffer.GetAccessor();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
511 ImageProcessing::Convert(converted, accessor);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
512 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
513
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
514 case Orthanc::PixelFormat_SignedGrayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
515 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
516 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
517
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
518 default:
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
519 // Unsupported pixel format
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
520 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
521 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
522
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
523 // Sanity check: The pitch must be minimal
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
524 assert(converted.GetSize() == converted.GetWidth() * converted.GetHeight() *
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
525 GetBytesPerPixel(converted.GetFormat()));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
526 result["Orthanc"]["Compression"] = "Deflate";
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
527 result["sizeInBytes"] = converted.GetSize();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
528
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
529 std::string z;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
530 if (!CompressUsingDeflate(z, converted.GetConstBuffer(), converted.GetSize(), compressionLevel))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
531 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
532 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
533 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
534
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
535 result["Orthanc"]["PixelData"] = base64_encode(z);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
536
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
537 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
538 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
539
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
540
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
541
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
542 bool ParsedDicomImage::EncodeUsingJpeg(Json::Value& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
543 uint8_t quality /* between 0 and 100 */)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
544 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
545 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
546
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
547 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
548 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
549 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
550 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
551 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
552
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
553 result = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
554 result["Orthanc"] = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
555 GetCornerstoneMetadata(result);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
556
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
557 ImageBuffer buffer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
558 buffer.SetMinimalPitchForced(true);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
559
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
560 ImageAccessor converted;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
561
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
562 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale8 ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
563 accessor.GetFormat() == Orthanc::PixelFormat_RGB24)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
564 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
565 result["Orthanc"]["Stretched"] = false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
566 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
567 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
568 else if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16 ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
569 accessor.GetFormat() == Orthanc::PixelFormat_SignedGrayscale16)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
570 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
571 result["Orthanc"]["Stretched"] = true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
572 buffer.SetFormat(Orthanc::PixelFormat_Grayscale8);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
573 buffer.SetWidth(accessor.GetWidth());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
574 buffer.SetHeight(accessor.GetHeight());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
575 converted = buffer.GetAccessor();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
576
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
577 int64_t a, b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
578 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
579 result["Orthanc"]["StretchLow"] = static_cast<int32_t>(a);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
580 result["Orthanc"]["StretchHigh"] = static_cast<int32_t>(b);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
581
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
582 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
583 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
584 ChangeDynamics<uint8_t, uint16_t>(converted, accessor, a, 0, b, 255);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
585 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
586 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
587 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
588 ChangeDynamics<uint8_t, int16_t>(converted, accessor, a, 0, b, 255);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
589 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
590 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
591 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
592 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
593 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
594 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
595
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
596 result["Orthanc"]["Compression"] = "Jpeg";
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
597 result["sizeInBytes"] = converted.GetSize();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
598
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
599 std::string jpeg;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
600 OrthancPlugins::JpegWriter writer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
601 writer.SetQuality(quality);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
602 writer.WriteToMemory(jpeg, converted);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
603 result["Orthanc"]["PixelData"] = base64_encode(jpeg);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
604 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
605 }
26
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
606 }