Mercurial > hg > orthanc
annotate OrthancFramework/Sources/DicomParsing/ParsedDicomFile.h @ 5649:4a2bfda999c6
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| author | Alain Mazy <am@orthanc.team> |
|---|---|
| date | Mon, 03 Jun 2024 14:30:30 +0200 |
| parents | f7adfb22e20e |
| children |
| rev | line source |
|---|---|
| 790 | 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) 2024-2024 Orthanc Team SRL, Belgium |
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7 * Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
| 790 | 8 * |
| 9 * This program is free software: you can redistribute it and/or | |
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10 * modify it under the terms of the GNU Lesser General Public License |
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11 * as published by the Free Software Foundation, either version 3 of |
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12 * the License, or (at your option) any later version. |
| 790 | 13 * |
| 14 * This program is distributed in the hope that it will be useful, but | |
| 15 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 16 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
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17 * Lesser General Public License for more details. |
| 790 | 18 * |
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19 * You should have received a copy of the GNU Lesser General Public |
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20 * License along with this program. If not, see |
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21 * <http://www.gnu.org/licenses/>. |
| 790 | 22 **/ |
| 23 | |
| 24 | |
| 25 #pragma once | |
| 26 | |
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27 #include "../OrthancFramework.h" |
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28 |
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29 #if !defined(ORTHANC_ENABLE_JPEG) |
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30 # error Macro ORTHANC_ENABLE_JPEG must be defined to use this file |
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31 #endif |
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32 |
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33 #if !defined(ORTHANC_ENABLE_PNG) |
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34 # error Macro ORTHANC_ENABLE_PNG must be defined to use this file |
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35 #endif |
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36 |
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37 #if !defined(ORTHANC_ENABLE_CIVETWEB) |
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38 # error Macro ORTHANC_ENABLE_CIVETWEB must be defined to use this file |
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39 #endif |
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40 |
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41 #if !defined(ORTHANC_ENABLE_MONGOOSE) |
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42 # error Macro ORTHANC_ENABLE_MONGOOSE must be defined to use this file |
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43 #endif |
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44 |
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45 #if !defined(ORTHANC_SANDBOXED) |
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46 # error The macro ORTHANC_SANDBOXED must be defined |
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47 #endif |
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48 |
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49 #if !defined(ORTHANC_ENABLE_DCMTK) |
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50 # error The macro ORTHANC_ENABLE_DCMTK must be defined |
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51 #endif |
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52 |
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53 #if ORTHANC_ENABLE_DCMTK != 1 |
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54 # error The macro ORTHANC_ENABLE_DCMTK must be set to 1 to use this file |
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55 #endif |
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56 |
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57 #include "ITagVisitor.h" |
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58 #include "../DicomFormat/DicomInstanceHasher.h" |
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59 #include "../DicomFormat/DicomPath.h" |
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60 #include "../Images/ImageAccessor.h" |
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61 #include "../IDynamicObject.h" |
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62 #include "../Toolbox.h" |
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63 |
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64 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
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65 # include "../RestApi/RestApiOutput.h" |
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66 #endif |
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67 |
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68 #include <boost/shared_ptr.hpp> |
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69 |
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70 |
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71 class DcmDataset; |
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72 class DcmFileFormat; |
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73 |
| 790 | 74 namespace Orthanc |
| 75 { | |
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76 class ORTHANC_PUBLIC ParsedDicomFile : public IDynamicObject |
| 790 | 77 { |
| 78 private: | |
| 794 | 79 struct PImpl; |
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80 boost::shared_ptr<PImpl> pimpl_; |
| 790 | 81 |
| 4200 | 82 ParsedDicomFile(const ParsedDicomFile& other, |
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83 bool keepSopInstanceUid); |
| 790 | 84 |
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85 void CreateFromDicomMap(const DicomMap& source, |
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86 Encoding defaultEncoding, |
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87 bool permissive, |
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88 const std::string& defaultPrivateCreator, |
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89 const std::map<uint16_t, std::string>& privateCreators); |
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90 |
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91 void RemovePrivateTagsInternal(const std::set<DicomTag>* toKeep); |
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92 |
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93 void UpdateStorageUid(const DicomTag& tag, |
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94 const std::string& value, |
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95 bool decodeDataUriScheme); |
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96 |
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97 void InvalidateCache(); |
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98 |
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99 bool EmbedContentInternal(const std::string& dataUriScheme); |
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100 |
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101 void EncapsulateDocument(MimeType mime, |
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102 const std::string& document); |
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103 |
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104 // For internal use only, in order to provide const-correctness on |
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105 // the top of DCMTK API |
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106 DcmFileFormat& GetDcmtkObjectConst() const; |
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107 |
| 4200 | 108 explicit ParsedDicomFile(DcmFileFormat* dicom); // This takes ownership (no clone) |
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109 |
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110 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1 |
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111 // Alias for binary compatibility with Orthanc Framework 1.7.2 => don't use it anymore |
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112 void DatasetToJson(Json::Value& target, |
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113 DicomToJsonFormat format, |
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114 DicomToJsonFlags flags, |
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115 unsigned int maxStringLength); |
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116 DcmFileFormat& GetDcmtkObject() const; |
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117 void Apply(ITagVisitor& visitor); |
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118 ParsedDicomFile* Clone(bool keepSopInstanceUid); |
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119 bool LookupTransferSyntax(std::string& result); |
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120 bool LookupTransferSyntax(std::string& result) const; |
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121 bool GetTagValue(std::string& value, |
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122 const DicomTag& tag); |
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123 #endif |
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124 |
| 790 | 125 public: |
| 4199 | 126 explicit ParsedDicomFile(bool createIdentifiers); // Create a minimal DICOM instance |
| 790 | 127 |
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128 ParsedDicomFile(const DicomMap& map, |
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129 Encoding defaultEncoding, |
| 4199 | 130 bool permissive); |
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131 |
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132 ParsedDicomFile(const DicomMap& map, |
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133 Encoding defaultEncoding, |
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134 bool permissive, |
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135 const std::string& defaultPrivateCreator, |
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136 const std::map<uint16_t, std::string>& privateCreators); |
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137 |
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138 ParsedDicomFile(const void* content, |
| 791 | 139 size_t size); |
| 790 | 140 |
| 4199 | 141 explicit ParsedDicomFile(const std::string& content); |
| 790 | 142 |
| 4199 | 143 explicit ParsedDicomFile(DcmDataset& dicom); // This clones the DCMTK object |
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144 |
| 4199 | 145 explicit ParsedDicomFile(DcmFileFormat& dicom); // This clones the DCMTK object |
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146 |
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147 static ParsedDicomFile* AcquireDcmtkObject(DcmFileFormat* dicom); |
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148 |
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149 DcmFileFormat& GetDcmtkObject(); |
| 790 | 150 |
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151 // The "ParsedDicomFile" object cannot be used after calling this method |
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152 DcmFileFormat* ReleaseDcmtkObject(); |
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153 |
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154 ParsedDicomFile* Clone(bool keepSopInstanceUid) const; |
| 790 | 155 |
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156 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
| 790 | 157 void SendPathValue(RestApiOutput& output, |
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158 const UriComponents& uri) const; |
| 790 | 159 |
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160 void Answer(RestApiOutput& output) const; |
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161 #endif |
| 790 | 162 |
| 163 void Remove(const DicomTag& tag); | |
| 164 | |
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165 // Replace the DICOM tag as a NULL/empty value (e.g. for anonymization) |
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166 void Clear(const DicomTag& tag, |
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167 bool onlyIfExists); |
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168 |
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169 void Replace(const DicomTag& tag, |
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170 const std::string& utf8Value, |
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171 bool decodeDataUriScheme, |
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172 DicomReplaceMode mode, |
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173 const std::string& privateCreator /* used only for private tags */); |
| 1695 | 174 |
| 175 void Replace(const DicomTag& tag, | |
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176 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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177 bool decodeDataUriScheme, |
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178 DicomReplaceMode mode, |
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179 const std::string& privateCreator /* used only for private tags */); |
| 790 | 180 |
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181 void Insert(const DicomTag& tag, |
| 1695 | 182 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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183 bool decodeDataUriScheme, |
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184 const std::string& privateCreator /* used only for private tags */); |
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185 |
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186 // Cannot be applied to private tags |
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187 void ReplacePlainString(const DicomTag& tag, |
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188 const std::string& utf8Value); |
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189 |
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190 // Cannot be applied to private tags |
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191 void SetIfAbsent(const DicomTag& tag, |
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192 const std::string& utf8Value); |
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193 |
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194 void RemovePrivateTags(); |
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195 |
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196 void RemovePrivateTags(const std::set<DicomTag>& toKeep); |
| 790 | 197 |
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198 // WARNING: This function handles the decoding of strings to UTF8 |
| 790 | 199 bool GetTagValue(std::string& value, |
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200 const DicomTag& tag) const; |
| 790 | 201 |
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202 DicomInstanceHasher GetHasher() const; |
| 790 | 203 |
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204 // The "Save" methods are not tagged as "const", as the internal |
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205 // representation might be changed after serialization |
| 790 | 206 void SaveToMemoryBuffer(std::string& buffer); |
| 207 | |
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208 #if ORTHANC_SANDBOXED == 0 |
| 790 | 209 void SaveToFile(const std::string& path); |
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210 #endif |
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211 |
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212 // This method must only be used on the PixelData and EncapsulatedDocument tags |
| 1562 | 213 void EmbedContent(const std::string& dataUriScheme); |
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214 |
| 1562 | 215 void EmbedImage(const ImageAccessor& accessor); |
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216 |
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217 void EmbedImage(MimeType mime, |
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218 const std::string& content); |
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219 |
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220 void EmbedRawPixelData(const std::string& content); |
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221 |
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222 Encoding DetectEncoding(bool& hasCodeExtensions) const; |
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223 |
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224 // WARNING: This function only sets the encoding, it will not |
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225 // convert the encoding of the tags. Use "ChangeEncoding()" if need be. |
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226 void SetEncoding(Encoding encoding); |
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227 |
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228 void DatasetToJson(Json::Value& target, |
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229 DicomToJsonFormat format, |
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230 DicomToJsonFlags flags, |
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231 unsigned int maxStringLength) const; |
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232 |
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233 void DatasetToJson(Json::Value& target, |
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234 DicomToJsonFormat format, |
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235 DicomToJsonFlags flags, |
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236 unsigned int maxStringLength, |
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237 const std::set<DicomTag>& ignoreTagLength) const; |
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238 |
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239 void HeaderToJson(Json::Value& target, |
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240 DicomToJsonFormat format) const; |
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241 |
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242 bool HasTag(const DicomTag& tag) const; |
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243 |
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244 bool ExtractPdf(std::string& pdf) const; |
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245 |
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246 void GetRawFrame(std::string& target, // OUT |
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247 MimeType& mime, // OUT |
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248 unsigned int frameId) const; // IN |
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249 |
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250 unsigned int GetFramesCount() const; |
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251 |
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252 static ParsedDicomFile* CreateFromJson(const Json::Value& value, |
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253 DicomFromJsonFlags flags, |
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254 const std::string& privateCreator); |
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255 |
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256 void ChangeEncoding(Encoding target); |
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257 |
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258 /** |
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259 * The DICOM tags with a string whose size is greater than |
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260 * "maxTagLength", are replaced by a DicomValue whose type is |
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261 * "DicomValue_Null". If "maxTagLength" is zero, all the leaf tags |
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262 * are included, independently of their length. |
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263 **/ |
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264 void ExtractDicomSummary(DicomMap& target, |
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265 unsigned int maxTagLength) const; |
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266 |
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267 /** |
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268 * This flavor can be used to bypass the "maxTagLength" limitation |
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269 * on a selected set of DICOM tags. |
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270 **/ |
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271 void ExtractDicomSummary(DicomMap& target, |
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272 unsigned int maxTagLength, |
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273 const std::set<DicomTag>& ignoreTagLength) const; |
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274 |
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275 bool LookupTransferSyntax(DicomTransferSyntax& result) const; |
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276 |
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277 bool LookupPhotometricInterpretation(PhotometricInterpretation& result) const; |
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278 |
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279 void Apply(ITagVisitor& visitor) const; |
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280 |
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281 // Decode the given frame, using the built-in DICOM decoder of Orthanc |
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282 ImageAccessor* DecodeFrame(unsigned int frame) const; |
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283 |
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284 void ReplacePath(const DicomPath& path, |
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285 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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286 bool decodeDataUriScheme, |
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287 DicomReplaceMode mode, |
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288 const std::string& privateCreator /* used only for private tags */); |
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289 |
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290 void RemovePath(const DicomPath& path); |
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291 |
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292 void ClearPath(const DicomPath& path, |
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293 bool onlyIfExists); |
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294 |
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295 bool LookupSequenceItem(DicomMap& target, |
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296 const DicomPath& path, |
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297 size_t sequenceIndex) const; |
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298 |
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299 void GetDefaultWindowing(double& windowCenter, |
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300 double& windowWidth, |
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301 unsigned int frame) const; |
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302 |
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303 void GetRescale(double& rescaleIntercept, |
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304 double& rescaleSlope, |
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305 unsigned int frame) const; |
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306 |
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307 void ListOverlays(std::set<uint16_t>& groups) const; |
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308 |
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309 ImageAccessor* DecodeOverlay(int& originX, |
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310 int& originY, |
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311 uint16_t group) const; |
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312 |
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313 ImageAccessor* DecodeAllOverlays(int& originX, |
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314 int& originY) const; |
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315 |
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316 void InjectEmptyPixelData(ValueRepresentation vr); |
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317 |
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318 // Remove all the tags after pixel data |
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319 void RemoveFromPixelData(); |
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320 |
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321 ValueRepresentation GuessPixelDataValueRepresentation() const; |
| 790 | 322 }; |
| 323 } |