Mercurial > hg > orthanc

annotate Plugins/Samples/GdcmDecoding/Plugin.cpp @ 1590:ba0226474e22

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New configuration option: "HttpTimeout" to set the default timeout for HTTP requests
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 26 Aug 2015 17:51:03 +0200
parents 3d76e26b3865
children da7854deb662
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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 General Public License as
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8 * published by the Free Software Foundation, either version 3 of the
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9 * 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 * 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 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 <map>
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22 #include <string>
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23 #include <stdexcept>
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24 #include <sstream>
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25 #include <boost/lexical_cast.hpp>
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26
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27 #include "OrthancContext.h"
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28 #include "../../../Core/ImageFormats/ImageProcessing.h"
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29
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30 #include <gdcmReader.h>
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31 #include <gdcmImageReader.h>
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32 #include <gdcmImageChangePlanarConfiguration.h>
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33
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34
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35 static void AnswerUnsupportedImage(OrthancPluginRestOutput* output)
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36 {
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37 OrthancContext::GetInstance().Redirect(output, "/app/images/unsupported.png");
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38 }
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40
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41 static bool GetOrthancPixelFormat(Orthanc::PixelFormat& format,
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42 const gdcm::Image& image)
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43 {
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44 if (image.GetPlanarConfiguration() != 0 &&
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45 image.GetPixelFormat().GetSamplesPerPixel() != 1)
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46 {
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47 OrthancContext::GetInstance().LogError("Planar configurations are not supported");
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48 return false;
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49 }
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50
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51 if (image.GetPixelFormat().GetSamplesPerPixel() == 1)
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52 {
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53 switch (image.GetPixelFormat().GetScalarType())
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54 {
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55 case gdcm::PixelFormat::UINT8:
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56 format = Orthanc::PixelFormat_Grayscale8;
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57 return true;
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58
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59 case gdcm::PixelFormat::UINT16:
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60 format = Orthanc::PixelFormat_Grayscale16;
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61 return true;
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62
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63 case gdcm::PixelFormat::INT16:
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64 format = Orthanc::PixelFormat_SignedGrayscale16;
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65 return true;
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66
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67 default:
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68 return false;
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69 }
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70 }
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71 else if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
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72 image.GetPixelFormat().GetScalarType() == gdcm::PixelFormat::UINT8)
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73 {
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74 format = Orthanc::PixelFormat_RGB24;
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75 return true;
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76 }
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77 else if (image.GetPixelFormat().GetSamplesPerPixel() == 4 &&
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78 image.GetPixelFormat().GetScalarType() == gdcm::PixelFormat::UINT8)
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79 {
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80 format = Orthanc::PixelFormat_RGBA32;
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81 return true;
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82 }
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83
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84 return false;
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85 }
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87
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88 ORTHANC_PLUGINS_API int32_t DecodeImage(OrthancPluginRestOutput* output,
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89 const char* url,
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90 const OrthancPluginHttpRequest* request)
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91 {
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92 std::string instance(request->groups[0]);
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93 std::string outputFormat(request->groups[1]);
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94 OrthancContext::GetInstance().LogWarning("Using GDCM to decode instance " + instance);
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95
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96 // Download the request DICOM instance from Orthanc into a memory buffer
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97 std::string dicom;
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98 OrthancContext::GetInstance().GetDicomForInstance(dicom, instance);
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99
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100 // Prepare a memory stream over the DICOM instance
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101 std::stringstream stream(dicom);
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102
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103 // Parse the DICOM instance using GDCM
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104 gdcm::ImageReader imageReader;
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105 imageReader.SetStream(stream);
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106 if (!imageReader.Read())
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107 {
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108 OrthancContext::GetInstance().LogError("GDCM cannot extract an image from this DICOM instance");
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109 AnswerUnsupportedImage(output);
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110 return 0;
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111 }
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112
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113 gdcm::Image& image = imageReader.GetImage();
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114
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115
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116 // Log information about the decoded image
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117 char tmp[1024];
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118 sprintf(tmp, "Image format: %dx%d %s with %d color channel(s)", image.GetRows(), image.GetColumns(),
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119 image.GetPixelFormat().GetScalarTypeAsString(), image.GetPixelFormat().GetSamplesPerPixel());
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120 OrthancContext::GetInstance().LogWarning(tmp);
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121
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122
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123 // Convert planar configuration
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124 gdcm::ImageChangePlanarConfiguration planar;
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125 if (image.GetPlanarConfiguration() != 0 &&
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126 image.GetPixelFormat().GetSamplesPerPixel() != 1)
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127 {
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128 OrthancContext::GetInstance().LogWarning("Converting planar configuration to interleaved");
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129 planar.SetInput(imageReader.GetImage());
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130 planar.Change();
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131 image = planar.GetOutput();
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132 }
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133
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134
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135 // Create a read-only accessor to the bitmap decoded by GDCM
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136 Orthanc::PixelFormat format;
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137 if (!GetOrthancPixelFormat(format, image))
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138 {
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139 OrthancContext::GetInstance().LogError("This sample plugin does not support this image format");
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140 AnswerUnsupportedImage(output);
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141 return 0;
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142 }
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143
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144 Orthanc::ImageAccessor decodedImage;
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145 std::vector<char> decodedBuffer(image.GetBufferLength());
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146
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147 if (decodedBuffer.size())
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148 {
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149 image.GetBuffer(&decodedBuffer[0]);
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150 unsigned int pitch = image.GetColumns() * ::Orthanc::GetBytesPerPixel(format);
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151 decodedImage.AssignWritable(format, image.GetColumns(), image.GetRows(), pitch, &decodedBuffer[0]);
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152 }
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153 else
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154 {
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155 // Empty image
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156 decodedImage.AssignWritable(format, 0, 0, 0, NULL);
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157 }
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158
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159
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160 // Convert the pixel format from GDCM to the format requested by the REST query
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161 Orthanc::ImageBuffer converted;
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162 converted.SetWidth(decodedImage.GetWidth());
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163 converted.SetHeight(decodedImage.GetHeight());
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164
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165 if (outputFormat == "preview")
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166 {
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167 if (format == Orthanc::PixelFormat_RGB24 ||
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168 format == Orthanc::PixelFormat_RGBA32)
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169 {
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170 // Do not rescale color image
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171 converted.SetFormat(Orthanc::PixelFormat_RGB24);
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172 }
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173 else
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174 {
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175 converted.SetFormat(Orthanc::PixelFormat_Grayscale8);
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176
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177 // Rescale the image to the [0,255] range
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178 int64_t a, b;
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179 Orthanc::ImageProcessing::GetMinMaxValue(a, b, decodedImage);
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180
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181 float offset = -a;
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182 float scaling = 255.0f / static_cast<float>(b - a);
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183 Orthanc::ImageProcessing::ShiftScale(decodedImage, offset, scaling);
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184 }
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185 }
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186 else
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187 {
993
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188 if (format == Orthanc::PixelFormat_RGB24 ||
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189 format == Orthanc::PixelFormat_RGBA32)
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190 {
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191 // Do not convert color images to grayscale values (this is Orthanc convention)
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192 AnswerUnsupportedImage(output);
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193 return 0;
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194 }
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195
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196 if (outputFormat == "image-uint8")
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197 {
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198 converted.SetFormat(Orthanc::PixelFormat_Grayscale8);
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199 }
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200 else if (outputFormat == "image-uint16")
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201 {
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202 converted.SetFormat(Orthanc::PixelFormat_Grayscale16);
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203 }
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204 else if (outputFormat == "image-int16")
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205 {
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206 converted.SetFormat(Orthanc::PixelFormat_SignedGrayscale16);
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207 }
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208 else
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209 {
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210 OrthancContext::GetInstance().LogError("Unknown output format: " + outputFormat);
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211 AnswerUnsupportedImage(output);
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212 return 0;
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213 }
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214 }
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215
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216 Orthanc::ImageAccessor convertedAccessor(converted.GetAccessor());
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217 Orthanc::ImageProcessing::Convert(convertedAccessor, decodedImage);
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218
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219 // Compress the converted image as a PNG file
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220 OrthancContext::GetInstance().CompressAndAnswerPngImage(output, convertedAccessor);
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221
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222 return 0; // Success
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223 }
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224
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225
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226 extern "C"
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227 {
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228 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* context)
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229 {
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230 OrthancContext::GetInstance().Initialize(context);
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231 OrthancContext::GetInstance().LogWarning("Initializing GDCM decoding");
1040
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232
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233 // Check the version of the Orthanc core
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234 if (OrthancPluginCheckVersion(context) == 0)
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235 {
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236 OrthancContext::GetInstance().LogError(
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237 "Your version of Orthanc (" + std::string(context->orthancVersion) +
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238 ") must be above " + boost::lexical_cast<std::string>(ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER) +
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239 "." + boost::lexical_cast<std::string>(ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER) +
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240 "." + boost::lexical_cast<std::string>(ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER) +
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241 " to run this plugin");
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242 return -1;
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243 }
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244
983
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245 OrthancContext::GetInstance().Register("/instances/([^/]+)/(preview|image-uint8|image-uint16|image-int16)", DecodeImage);
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246 return 0;
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247 }
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248
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249 ORTHANC_PLUGINS_API void OrthancPluginFinalize()
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250 {
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251 OrthancContext::GetInstance().LogWarning("Finalizing GDCM decoding");
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252 OrthancContext::GetInstance().Finalize();
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253 }
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254
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255 ORTHANC_PLUGINS_API const char* OrthancPluginGetName()
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256 {
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257 return "gdcm-decoding";
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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258 }
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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259
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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260 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion()
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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261 {
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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262 return "1.0";
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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263 }
80d4f1618b33 Sample plugin to replace DCMTK by GDCM when decoding images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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264 }