Mercurial > hg > orthanc
annotate OrthancServer/Sources/DicomInstanceToStore.cpp @ 5249:f22c8fac764b db-protobuf
added "/tools/labels" to list all the labels that are associated with any resource
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Fri, 07 Apr 2023 22:54:57 +0200 |
parents | 0ea402b4d901 |
children | 48b8dae6dc77 |
rev | line source |
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1003 | 1 /** |
2 * Orthanc - A Lightweight, RESTful DICOM Store | |
1900 | 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) 2017-2023 Osimis S.A., Belgium |
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6 * Copyright (C) 2021-2023 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
1003 | 7 * |
8 * This program is free software: you can redistribute it and/or | |
9 * modify it under the terms of the GNU General Public License as | |
10 * published by the Free Software Foundation, either version 3 of the | |
11 * License, or (at your option) any later version. | |
12 * | |
13 * This program is distributed in the hope that it will be useful, but | |
14 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
16 * General Public License for more details. | |
17 * | |
18 * You should have received a copy of the GNU General Public License | |
19 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
20 **/ | |
21 | |
22 | |
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23 #include "PrecompiledHeadersServer.h" |
1003 | 24 #include "DicomInstanceToStore.h" |
25 | |
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26 #include "OrthancConfiguration.h" |
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27 |
4045 | 28 #include "../../OrthancFramework/Sources/DicomParsing/FromDcmtkBridge.h" |
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29 #include "../../OrthancFramework/Sources/DicomParsing/Internals/DicomFrameIndex.h" |
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30 #include "../../OrthancFramework/Sources/DicomParsing/Internals/DicomImageDecoder.h" |
4045 | 31 #include "../../OrthancFramework/Sources/DicomParsing/ParsedDicomFile.h" |
32 #include "../../OrthancFramework/Sources/Logging.h" | |
33 #include "../../OrthancFramework/Sources/OrthancException.h" | |
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34 |
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35 #include <dcmtk/dcmdata/dcfilefo.h> |
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36 #include <dcmtk/dcmdata/dcdeftag.h> |
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37 |
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38 |
1003 | 39 namespace Orthanc |
40 { | |
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41 class DicomInstanceToStore::FromBuffer : public DicomInstanceToStore |
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42 { |
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43 private: |
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44 const void* buffer_; |
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45 size_t size_; |
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46 std::unique_ptr<ParsedDicomFile> parsed_; |
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47 |
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48 public: |
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49 FromBuffer(const void* buffer, |
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50 size_t size) : |
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51 buffer_(buffer), |
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52 size_(size) |
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53 { |
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54 } |
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55 |
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56 virtual ParsedDicomFile& GetParsedDicomFile() const ORTHANC_OVERRIDE |
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57 { |
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58 if (parsed_.get() == NULL) |
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59 { |
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60 const_cast<FromBuffer&>(*this).parsed_.reset(new ParsedDicomFile(buffer_, size_)); |
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61 } |
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62 |
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63 return *parsed_; |
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64 } |
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65 |
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66 virtual const void* GetBufferData() const ORTHANC_OVERRIDE |
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67 { |
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68 return buffer_; |
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69 } |
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71 virtual size_t GetBufferSize() const ORTHANC_OVERRIDE |
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72 { |
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73 return size_; |
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74 } |
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75 }; |
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78 class DicomInstanceToStore::FromParsedDicomFile : public DicomInstanceToStore |
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79 { |
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80 private: |
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81 ParsedDicomFile& parsed_; |
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82 std::unique_ptr<std::string> buffer_; |
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83 |
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84 void SerializeToBuffer() |
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85 { |
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86 if (buffer_.get() == NULL) |
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87 { |
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88 buffer_.reset(new std::string); |
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89 parsed_.SaveToMemoryBuffer(*buffer_); |
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90 } |
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93 public: |
4519 | 94 explicit FromParsedDicomFile(ParsedDicomFile& parsed) : |
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95 parsed_(parsed) |
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97 } |
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99 virtual ParsedDicomFile& GetParsedDicomFile() const ORTHANC_OVERRIDE |
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100 { |
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101 return parsed_; |
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102 } |
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104 virtual const void* GetBufferData() const ORTHANC_OVERRIDE |
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106 const_cast<FromParsedDicomFile&>(*this).SerializeToBuffer(); |
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108 assert(buffer_.get() != NULL); |
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109 return (buffer_->empty() ? NULL : buffer_->c_str()); |
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110 } |
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112 virtual size_t GetBufferSize() const ORTHANC_OVERRIDE |
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113 { |
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114 const_cast<FromParsedDicomFile&>(*this).SerializeToBuffer(); |
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116 assert(buffer_.get() != NULL); |
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117 return buffer_->size(); |
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118 } |
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119 }; |
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122 class DicomInstanceToStore::FromDcmDataset : public DicomInstanceToStore |
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123 { |
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124 private: |
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125 DcmDataset& dataset_; |
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126 std::unique_ptr<std::string> buffer_; |
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127 std::unique_ptr<ParsedDicomFile> parsed_; |
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128 |
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129 void SerializeToBuffer() |
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130 { |
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131 if (buffer_.get() == NULL) |
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132 { |
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133 buffer_.reset(new std::string); |
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134 |
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135 if (!FromDcmtkBridge::SaveToMemoryBuffer(*buffer_, dataset_)) |
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136 { |
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137 throw OrthancException(ErrorCode_InternalError, "Cannot write DICOM file to memory"); |
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138 } |
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139 } |
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140 } |
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141 |
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142 public: |
4519 | 143 explicit FromDcmDataset(DcmDataset& dataset) : |
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144 dataset_(dataset) |
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145 { |
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146 } |
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147 |
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148 virtual ParsedDicomFile& GetParsedDicomFile() const ORTHANC_OVERRIDE |
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149 { |
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150 if (parsed_.get() == NULL) |
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151 { |
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152 // This operation is costly, as it creates a clone of the |
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153 // dataset. This explains why the default implementations |
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154 // are overridden below to use "dataset_" as much as possible |
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155 const_cast<FromDcmDataset&>(*this).parsed_.reset(new ParsedDicomFile(dataset_)); |
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156 } |
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157 |
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158 return *parsed_; |
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159 } |
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160 |
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161 virtual const void* GetBufferData() const ORTHANC_OVERRIDE |
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162 { |
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163 const_cast<FromDcmDataset&>(*this).SerializeToBuffer(); |
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164 |
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165 assert(buffer_.get() != NULL); |
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166 return (buffer_->empty() ? NULL : buffer_->c_str()); |
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167 } |
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168 |
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169 virtual size_t GetBufferSize() const ORTHANC_OVERRIDE |
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170 { |
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171 const_cast<FromDcmDataset&>(*this).SerializeToBuffer(); |
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172 |
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173 assert(buffer_.get() != NULL); |
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174 return buffer_->size(); |
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175 } |
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176 |
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177 virtual bool HasPixelData() const ORTHANC_OVERRIDE |
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178 { |
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179 DcmTag key(DICOM_TAG_PIXEL_DATA.GetGroup(), |
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180 DICOM_TAG_PIXEL_DATA.GetElement()); |
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181 return dataset_.tagExists(key); |
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182 } |
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183 |
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184 virtual void GetSummary(DicomMap& summary) const ORTHANC_OVERRIDE |
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185 { |
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186 OrthancConfiguration::DefaultExtractDicomSummary(summary, dataset_); |
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187 } |
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188 |
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189 virtual void GetDicomAsJson(Json::Value& dicomAsJson, const std::set<DicomTag>& ignoreTagLength) const ORTHANC_OVERRIDE |
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190 { |
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191 OrthancConfiguration::DefaultDicomDatasetToJson(dicomAsJson, dataset_, ignoreTagLength); |
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192 } |
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193 |
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194 virtual void DatasetToJson(Json::Value& target, |
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195 DicomToJsonFormat format, |
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196 DicomToJsonFlags flags, |
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197 unsigned int maxStringLength) const ORTHANC_OVERRIDE |
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198 { |
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199 std::set<DicomTag> ignoreTagLength; |
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200 FromDcmtkBridge::ExtractDicomAsJson( |
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201 target, dataset_, format, flags, maxStringLength, ignoreTagLength); |
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202 } |
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203 |
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204 virtual unsigned int GetFramesCount() const ORTHANC_OVERRIDE |
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205 { |
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206 return DicomFrameIndex::GetFramesCount(dataset_); |
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207 } |
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208 |
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209 virtual ImageAccessor* DecodeFrame(unsigned int frame) const ORTHANC_OVERRIDE |
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210 { |
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211 return DicomImageDecoder::Decode(dataset_, frame); |
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212 } |
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213 }; |
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214 |
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215 |
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216 DicomInstanceToStore* DicomInstanceToStore::CreateFromBuffer(const void* buffer, |
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217 size_t size) |
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218 { |
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219 return new FromBuffer(buffer, size); |
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220 } |
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221 |
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222 |
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223 DicomInstanceToStore* DicomInstanceToStore::CreateFromBuffer(const std::string& buffer) |
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224 { |
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225 return new FromBuffer(buffer.empty() ? NULL : buffer.c_str(), buffer.size()); |
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226 } |
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227 |
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228 |
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229 DicomInstanceToStore* DicomInstanceToStore::CreateFromParsedDicomFile(ParsedDicomFile& dicom) |
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230 { |
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231 return new FromParsedDicomFile(dicom); |
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232 } |
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233 |
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234 |
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235 DicomInstanceToStore* DicomInstanceToStore::CreateFromDcmDataset(DcmDataset& dataset) |
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236 { |
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237 return new FromDcmDataset(dataset); |
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238 } |
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239 |
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240 |
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241 bool DicomInstanceToStore::LookupTransferSyntax(DicomTransferSyntax& result) const |
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242 { |
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243 DicomMap header; |
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244 if (DicomMap::ParseDicomMetaInformation(header, GetBufferData(), GetBufferSize())) |
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245 { |
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246 const DicomValue* value = header.TestAndGetValue(DICOM_TAG_TRANSFER_SYNTAX_UID); |
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247 if (value != NULL && |
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248 !value->IsBinary() && |
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249 !value->IsNull()) |
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250 { |
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251 return ::Orthanc::LookupTransferSyntax(result, Toolbox::StripSpaces(value->GetContent())); |
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252 } |
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253 } |
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254 else |
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255 { |
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256 // This is a DICOM file without a proper meta-header. Fallback |
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257 // to DCMTK, which will fully parse the dataset to retrieve |
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258 // the transfer syntax. Added in Orthanc 1.8.2. |
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259 return GetParsedDicomFile().LookupTransferSyntax(result); |
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260 } |
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261 |
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262 return false; |
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263 } |
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264 |
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265 |
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266 bool DicomInstanceToStore::HasPixelData() const |
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267 { |
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268 return GetParsedDicomFile().HasTag(DICOM_TAG_PIXEL_DATA); |
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269 } |
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270 |
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271 |
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272 void DicomInstanceToStore::GetSummary(DicomMap& summary) const |
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273 { |
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274 OrthancConfiguration::DefaultExtractDicomSummary(summary, GetParsedDicomFile()); |
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275 } |
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276 |
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277 |
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278 void DicomInstanceToStore::GetDicomAsJson(Json::Value& dicomAsJson, const std::set<DicomTag>& ignoreTagLength) const |
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279 { |
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280 OrthancConfiguration::DefaultDicomDatasetToJson(dicomAsJson, GetParsedDicomFile(), ignoreTagLength); |
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281 } |
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282 |
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283 |
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284 void DicomInstanceToStore::DatasetToJson(Json::Value& target, |
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285 DicomToJsonFormat format, |
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286 DicomToJsonFlags flags, |
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287 unsigned int maxStringLength) const |
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288 { |
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289 return GetParsedDicomFile().DatasetToJson(target, format, flags, maxStringLength); |
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290 } |
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291 |
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292 |
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293 unsigned int DicomInstanceToStore::GetFramesCount() const |
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294 { |
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295 return GetParsedDicomFile().GetFramesCount(); |
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296 } |
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297 |
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298 |
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299 ImageAccessor* DicomInstanceToStore::DecodeFrame(unsigned int frame) const |
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300 { |
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301 return GetParsedDicomFile().DecodeFrame(frame); |
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302 } |
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303 |
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304 void DicomInstanceToStore::CopyMetadata(const DicomInstanceToStore::MetadataMap& metadata) |
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305 { |
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306 for (MetadataMap::const_iterator it = metadata.begin(); |
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307 it != metadata.end(); ++it) |
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308 { |
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309 AddMetadata(it->first.first, it->first.second, it->second); |
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310 } |
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311 } |
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312 |
1003 | 313 } |