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annotate OrthancServer/Sources/DicomInstanceToStore.cpp @ 4519:a3c6678aa7b1

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author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 22 Feb 2021 16:51:23 +0100
parents 8f9090b137f1
children f0038043fb97 7053502fbf97
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2021 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU General Public License as
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9 * published by the Free Software Foundation, either version 3 of the
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10 * License, or (at your option) any later version.
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11 *
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12 * In addition, as a special exception, the copyright holders of this
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13 * program give permission to link the code of its release with the
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14 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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15 * that use the same license as the "OpenSSL" library), and distribute
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16 * the linked executables. You must obey the GNU General Public License
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17 * in all respects for all of the code used other than "OpenSSL". If you
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18 * modify file(s) with this exception, you may extend this exception to
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19 * your version of the file(s), but you are not obligated to do so. If
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20 * you do not wish to do so, delete this exception statement from your
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21 * version. If you delete this exception statement from all source files
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22 * in the program, then also delete it here.
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23 *
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24 * This program is distributed in the hope that it will be useful, but
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25 * WITHOUT ANY WARRANTY; without even the implied warranty of
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26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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27 * General Public License for more details.
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28 *
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29 * You should have received a copy of the GNU General Public License
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30 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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31 **/
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32
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33
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34 #include "PrecompiledHeadersServer.h"
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35 #include "DicomInstanceToStore.h"
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36
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37 #include "OrthancConfiguration.h"
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38
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39 #include "../../OrthancFramework/Sources/DicomParsing/FromDcmtkBridge.h"
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40 #include "../../OrthancFramework/Sources/DicomParsing/Internals/DicomFrameIndex.h"
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41 #include "../../OrthancFramework/Sources/DicomParsing/Internals/DicomImageDecoder.h"
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42 #include "../../OrthancFramework/Sources/DicomParsing/ParsedDicomFile.h"
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43 #include "../../OrthancFramework/Sources/Logging.h"
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44 #include "../../OrthancFramework/Sources/OrthancException.h"
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45
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46 #include <dcmtk/dcmdata/dcfilefo.h>
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47 #include <dcmtk/dcmdata/dcdeftag.h>
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49
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50 namespace Orthanc
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51 {
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52 class DicomInstanceToStore::FromBuffer : public DicomInstanceToStore
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53 {
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54 private:
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55 const void* buffer_;
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56 size_t size_;
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57 std::unique_ptr<ParsedDicomFile> parsed_;
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58
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59 public:
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60 FromBuffer(const void* buffer,
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61 size_t size) :
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62 buffer_(buffer),
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63 size_(size)
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64 {
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65 }
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66
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67 virtual ParsedDicomFile& GetParsedDicomFile() const ORTHANC_OVERRIDE
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68 {
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69 if (parsed_.get() == NULL)
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70 {
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71 const_cast<FromBuffer&>(*this).parsed_.reset(new ParsedDicomFile(buffer_, size_));
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72 }
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73
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74 return *parsed_;
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75 }
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76
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77 virtual const void* GetBufferData() const ORTHANC_OVERRIDE
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78 {
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79 return buffer_;
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80 }
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81
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82 virtual size_t GetBufferSize() const ORTHANC_OVERRIDE
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83 {
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84 return size_;
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85 }
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86 };
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89 class DicomInstanceToStore::FromParsedDicomFile : public DicomInstanceToStore
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90 {
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91 private:
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92 ParsedDicomFile& parsed_;
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93 std::unique_ptr<std::string> buffer_;
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94
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95 void SerializeToBuffer()
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96 {
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97 if (buffer_.get() == NULL)
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98 {
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99 buffer_.reset(new std::string);
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100 parsed_.SaveToMemoryBuffer(*buffer_);
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101 }
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102 }
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103
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104 public:
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105 explicit FromParsedDicomFile(ParsedDicomFile& parsed) :
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106 parsed_(parsed)
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107 {
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108 }
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110 virtual ParsedDicomFile& GetParsedDicomFile() const ORTHANC_OVERRIDE
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111 {
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112 return parsed_;
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113 }
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115 virtual const void* GetBufferData() const ORTHANC_OVERRIDE
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116 {
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117 const_cast<FromParsedDicomFile&>(*this).SerializeToBuffer();
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118
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119 assert(buffer_.get() != NULL);
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120 return (buffer_->empty() ? NULL : buffer_->c_str());
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121 }
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122
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123 virtual size_t GetBufferSize() const ORTHANC_OVERRIDE
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124 {
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125 const_cast<FromParsedDicomFile&>(*this).SerializeToBuffer();
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126
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127 assert(buffer_.get() != NULL);
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128 return buffer_->size();
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129 }
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130 };
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131
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132
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133 class DicomInstanceToStore::FromDcmDataset : public DicomInstanceToStore
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134 {
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135 private:
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136 DcmDataset& dataset_;
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137 std::unique_ptr<std::string> buffer_;
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138 std::unique_ptr<ParsedDicomFile> parsed_;
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139
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140 void SerializeToBuffer()
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141 {
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142 if (buffer_.get() == NULL)
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143 {
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144 buffer_.reset(new std::string);
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145
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146 if (!FromDcmtkBridge::SaveToMemoryBuffer(*buffer_, dataset_))
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147 {
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148 throw OrthancException(ErrorCode_InternalError, "Cannot write DICOM file to memory");
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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 public:
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154 explicit FromDcmDataset(DcmDataset& dataset) :
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155 dataset_(dataset)
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156 {
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157 }
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158
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159 virtual ParsedDicomFile& GetParsedDicomFile() const ORTHANC_OVERRIDE
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160 {
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161 if (parsed_.get() == NULL)
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162 {
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163 // This operation is costly, as it creates a clone of the
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164 // dataset. This explains why the default implementations
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165 // are overridden below to use "dataset_" as much as possible
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166 const_cast<FromDcmDataset&>(*this).parsed_.reset(new ParsedDicomFile(dataset_));
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167 }
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168
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169 return *parsed_;
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170 }
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171
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172 virtual const void* GetBufferData() const ORTHANC_OVERRIDE
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173 {
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174 const_cast<FromDcmDataset&>(*this).SerializeToBuffer();
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175
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176 assert(buffer_.get() != NULL);
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177 return (buffer_->empty() ? NULL : buffer_->c_str());
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178 }
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179
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180 virtual size_t GetBufferSize() const ORTHANC_OVERRIDE
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181 {
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182 const_cast<FromDcmDataset&>(*this).SerializeToBuffer();
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183
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184 assert(buffer_.get() != NULL);
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185 return buffer_->size();
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186 }
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187
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188 virtual bool HasPixelData() const ORTHANC_OVERRIDE
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189 {
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190 DcmTag key(DICOM_TAG_PIXEL_DATA.GetGroup(),
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191 DICOM_TAG_PIXEL_DATA.GetElement());
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192 return dataset_.tagExists(key);
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193 }
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194
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195 virtual void GetSummary(DicomMap& summary) const ORTHANC_OVERRIDE
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196 {
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197 OrthancConfiguration::DefaultExtractDicomSummary(summary, dataset_);
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198 }
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199
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200 virtual void GetDicomAsJson(Json::Value& dicomAsJson) const ORTHANC_OVERRIDE
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201 {
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202 OrthancConfiguration::DefaultDicomDatasetToJson(dicomAsJson, dataset_);
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203 }
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204
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205 virtual void DatasetToJson(Json::Value& target,
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206 DicomToJsonFormat format,
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207 DicomToJsonFlags flags,
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208 unsigned int maxStringLength) const ORTHANC_OVERRIDE
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209 {
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210 std::set<DicomTag> ignoreTagLength;
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211 FromDcmtkBridge::ExtractDicomAsJson(
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212 target, dataset_, format, flags, maxStringLength, ignoreTagLength);
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213 }
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214
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215 virtual unsigned int GetFramesCount() const ORTHANC_OVERRIDE
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216 {
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217 return DicomFrameIndex::GetFramesCount(dataset_);
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218 }
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219
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220 virtual ImageAccessor* DecodeFrame(unsigned int frame) const ORTHANC_OVERRIDE
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221 {
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222 return DicomImageDecoder::Decode(dataset_, frame);
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223 }
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224 };
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225
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226
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227 DicomInstanceToStore* DicomInstanceToStore::CreateFromBuffer(const void* buffer,
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228 size_t size)
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229 {
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230 return new FromBuffer(buffer, size);
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231 }
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232
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233
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234 DicomInstanceToStore* DicomInstanceToStore::CreateFromBuffer(const std::string& buffer)
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235 {
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236 return new FromBuffer(buffer.empty() ? NULL : buffer.c_str(), buffer.size());
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237 }
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238
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239
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240 DicomInstanceToStore* DicomInstanceToStore::CreateFromParsedDicomFile(ParsedDicomFile& dicom)
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241 {
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242 return new FromParsedDicomFile(dicom);
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243 }
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244
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245
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246 DicomInstanceToStore* DicomInstanceToStore::CreateFromDcmDataset(DcmDataset& dataset)
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247 {
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248 return new FromDcmDataset(dataset);
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249 }
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250
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251
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252 bool DicomInstanceToStore::LookupTransferSyntax(DicomTransferSyntax& result) const
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253 {
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254 DicomMap header;
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255 if (DicomMap::ParseDicomMetaInformation(header, GetBufferData(), GetBufferSize()))
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256 {
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257 const DicomValue* value = header.TestAndGetValue(DICOM_TAG_TRANSFER_SYNTAX_UID);
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258 if (value != NULL &&
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259 !value->IsBinary() &&
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260 !value->IsNull())
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261 {
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262 return ::Orthanc::LookupTransferSyntax(result, Toolbox::StripSpaces(value->GetContent()));
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263 }
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264 }
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265 else
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266 {
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267 // This is a DICOM file without a proper meta-header. Fallback
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268 // to DCMTK, which will fully parse the dataset to retrieve
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269 // the transfer syntax. Added in Orthanc 1.8.2.
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270 return GetParsedDicomFile().LookupTransferSyntax(result);
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271 }
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272
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273 return false;
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274 }
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275
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276
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277 bool DicomInstanceToStore::HasPixelData() const
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278 {
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279 return GetParsedDicomFile().HasTag(DICOM_TAG_PIXEL_DATA);
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280 }
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281
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282
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283 void DicomInstanceToStore::GetSummary(DicomMap& summary) const
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284 {
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285 OrthancConfiguration::DefaultExtractDicomSummary(summary, GetParsedDicomFile());
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286 }
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287
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288
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289 void DicomInstanceToStore::GetDicomAsJson(Json::Value& dicomAsJson) const
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290 {
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291 OrthancConfiguration::DefaultDicomDatasetToJson(dicomAsJson, GetParsedDicomFile());
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292 }
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293
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294
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295 void DicomInstanceToStore::DatasetToJson(Json::Value& target,
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296 DicomToJsonFormat format,
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297 DicomToJsonFlags flags,
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298 unsigned int maxStringLength) const
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299 {
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300 return GetParsedDicomFile().DatasetToJson(target, format, flags, maxStringLength);
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301 }
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302
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303
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304 unsigned int DicomInstanceToStore::GetFramesCount() const
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305 {
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306 return GetParsedDicomFile().GetFramesCount();
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307 }
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308
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309
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310 ImageAccessor* DicomInstanceToStore::DecodeFrame(unsigned int frame) const
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311 {
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312 return GetParsedDicomFile().DecodeFrame(frame);
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313 }
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314 }