Mercurial > hg > orthanc
annotate OrthancFramework/Sources/DicomParsing/ParsedDicomFile.h @ 5432:59e3b6f8c5be
migration to UCLouvain servers
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Tue, 21 Nov 2023 18:16:31 +0100 |
| parents | 303e930fff0f |
| children | 48b8dae6dc77 |
| 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) 2021-2023 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
| 790 | 7 * |
| 8 * This program is free software: you can redistribute it and/or | |
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9 * modify it under the terms of the GNU Lesser General Public License |
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10 * as published by the Free Software Foundation, either version 3 of |
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11 * the License, or (at your option) any later version. |
| 790 | 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 | |
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16 * Lesser General Public License for more details. |
| 790 | 17 * |
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18 * You should have received a copy of the GNU Lesser General Public |
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19 * License along with this program. If not, see |
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20 * <http://www.gnu.org/licenses/>. |
| 790 | 21 **/ |
| 22 | |
| 23 | |
| 24 #pragma once | |
| 25 | |
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26 #include "../OrthancFramework.h" |
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27 |
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28 #if !defined(ORTHANC_ENABLE_JPEG) |
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29 # error Macro ORTHANC_ENABLE_JPEG must be defined to use this file |
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30 #endif |
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31 |
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32 #if !defined(ORTHANC_ENABLE_PNG) |
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33 # error Macro ORTHANC_ENABLE_PNG must be defined to use this file |
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34 #endif |
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35 |
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36 #if !defined(ORTHANC_ENABLE_CIVETWEB) |
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37 # error Macro ORTHANC_ENABLE_CIVETWEB must be defined to use this file |
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38 #endif |
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39 |
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40 #if !defined(ORTHANC_ENABLE_MONGOOSE) |
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41 # error Macro ORTHANC_ENABLE_MONGOOSE must be defined to use this file |
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42 #endif |
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43 |
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44 #if !defined(ORTHANC_SANDBOXED) |
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45 # error The macro ORTHANC_SANDBOXED must be defined |
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46 #endif |
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47 |
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48 #if !defined(ORTHANC_ENABLE_DCMTK) |
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49 # error The macro ORTHANC_ENABLE_DCMTK must be defined |
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50 #endif |
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51 |
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52 #if ORTHANC_ENABLE_DCMTK != 1 |
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53 # error The macro ORTHANC_ENABLE_DCMTK must be set to 1 to use this file |
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54 #endif |
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55 |
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56 #include "ITagVisitor.h" |
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57 #include "../DicomFormat/DicomInstanceHasher.h" |
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58 #include "../DicomFormat/DicomPath.h" |
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59 #include "../Images/ImageAccessor.h" |
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60 #include "../IDynamicObject.h" |
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61 #include "../Toolbox.h" |
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62 |
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63 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
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64 # include "../RestApi/RestApiOutput.h" |
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65 #endif |
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66 |
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67 #include <boost/shared_ptr.hpp> |
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68 |
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69 |
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70 class DcmDataset; |
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71 class DcmFileFormat; |
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72 |
| 790 | 73 namespace Orthanc |
| 74 { | |
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75 class ORTHANC_PUBLIC ParsedDicomFile : public IDynamicObject |
| 790 | 76 { |
| 77 private: | |
| 794 | 78 struct PImpl; |
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79 boost::shared_ptr<PImpl> pimpl_; |
| 790 | 80 |
| 4200 | 81 ParsedDicomFile(const ParsedDicomFile& other, |
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82 bool keepSopInstanceUid); |
| 790 | 83 |
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84 void CreateFromDicomMap(const DicomMap& source, |
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85 Encoding defaultEncoding, |
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86 bool permissive, |
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87 const std::string& defaultPrivateCreator, |
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88 const std::map<uint16_t, std::string>& privateCreators); |
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89 |
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90 void RemovePrivateTagsInternal(const std::set<DicomTag>* toKeep); |
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91 |
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92 void UpdateStorageUid(const DicomTag& tag, |
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93 const std::string& value, |
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94 bool decodeDataUriScheme); |
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95 |
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96 void InvalidateCache(); |
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97 |
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98 bool EmbedContentInternal(const std::string& dataUriScheme); |
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99 |
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100 void EncapsulateDocument(MimeType mime, |
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101 const std::string& document); |
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102 |
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103 // For internal use only, in order to provide const-correctness on |
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104 // the top of DCMTK API |
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105 DcmFileFormat& GetDcmtkObjectConst() const; |
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106 |
| 4200 | 107 explicit ParsedDicomFile(DcmFileFormat* dicom); // This takes ownership (no clone) |
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108 |
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109 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1 |
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110 // Alias for binary compatibility with Orthanc Framework 1.7.2 => don't use it anymore |
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111 void DatasetToJson(Json::Value& target, |
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112 DicomToJsonFormat format, |
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113 DicomToJsonFlags flags, |
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114 unsigned int maxStringLength); |
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115 DcmFileFormat& GetDcmtkObject() const; |
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116 void Apply(ITagVisitor& visitor); |
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117 ParsedDicomFile* Clone(bool keepSopInstanceUid); |
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118 bool LookupTransferSyntax(std::string& result); |
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119 bool LookupTransferSyntax(std::string& result) const; |
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120 bool GetTagValue(std::string& value, |
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121 const DicomTag& tag); |
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122 #endif |
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123 |
| 790 | 124 public: |
| 4199 | 125 explicit ParsedDicomFile(bool createIdentifiers); // Create a minimal DICOM instance |
| 790 | 126 |
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127 ParsedDicomFile(const DicomMap& map, |
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128 Encoding defaultEncoding, |
| 4199 | 129 bool permissive); |
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130 |
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131 ParsedDicomFile(const DicomMap& map, |
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132 Encoding defaultEncoding, |
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133 bool permissive, |
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134 const std::string& defaultPrivateCreator, |
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135 const std::map<uint16_t, std::string>& privateCreators); |
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136 |
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137 ParsedDicomFile(const void* content, |
| 791 | 138 size_t size); |
| 790 | 139 |
| 4199 | 140 explicit ParsedDicomFile(const std::string& content); |
| 790 | 141 |
| 4199 | 142 explicit ParsedDicomFile(DcmDataset& dicom); // This clones the DCMTK object |
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143 |
| 4199 | 144 explicit ParsedDicomFile(DcmFileFormat& dicom); // This clones the DCMTK object |
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145 |
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146 static ParsedDicomFile* AcquireDcmtkObject(DcmFileFormat* dicom); |
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147 |
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148 DcmFileFormat& GetDcmtkObject(); |
| 790 | 149 |
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150 // The "ParsedDicomFile" object cannot be used after calling this method |
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151 DcmFileFormat* ReleaseDcmtkObject(); |
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152 |
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153 ParsedDicomFile* Clone(bool keepSopInstanceUid) const; |
| 790 | 154 |
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155 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
| 790 | 156 void SendPathValue(RestApiOutput& output, |
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157 const UriComponents& uri) const; |
| 790 | 158 |
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159 void Answer(RestApiOutput& output) const; |
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160 #endif |
| 790 | 161 |
| 162 void Remove(const DicomTag& tag); | |
| 163 | |
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164 // Replace the DICOM tag as a NULL/empty value (e.g. for anonymization) |
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165 void Clear(const DicomTag& tag, |
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166 bool onlyIfExists); |
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167 |
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168 void Replace(const DicomTag& tag, |
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169 const std::string& utf8Value, |
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170 bool decodeDataUriScheme, |
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171 DicomReplaceMode mode, |
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172 const std::string& privateCreator /* used only for private tags */); |
| 1695 | 173 |
| 174 void Replace(const DicomTag& tag, | |
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175 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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176 bool decodeDataUriScheme, |
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177 DicomReplaceMode mode, |
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178 const std::string& privateCreator /* used only for private tags */); |
| 790 | 179 |
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180 void Insert(const DicomTag& tag, |
| 1695 | 181 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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182 bool decodeDataUriScheme, |
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183 const std::string& privateCreator /* used only for private tags */); |
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184 |
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185 // Cannot be applied to private tags |
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186 void ReplacePlainString(const DicomTag& tag, |
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187 const std::string& utf8Value); |
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188 |
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189 // Cannot be applied to private tags |
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190 void SetIfAbsent(const DicomTag& tag, |
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191 const std::string& utf8Value); |
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192 |
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193 void RemovePrivateTags(); |
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194 |
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195 void RemovePrivateTags(const std::set<DicomTag>& toKeep); |
| 790 | 196 |
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197 // WARNING: This function handles the decoding of strings to UTF8 |
| 790 | 198 bool GetTagValue(std::string& value, |
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199 const DicomTag& tag) const; |
| 790 | 200 |
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201 DicomInstanceHasher GetHasher() const; |
| 790 | 202 |
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203 // The "Save" methods are not tagged as "const", as the internal |
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204 // representation might be changed after serialization |
| 790 | 205 void SaveToMemoryBuffer(std::string& buffer); |
| 206 | |
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207 #if ORTHANC_SANDBOXED == 0 |
| 790 | 208 void SaveToFile(const std::string& path); |
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209 #endif |
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210 |
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211 // This method must only be used on the PixelData and EncapsulatedDocument tags |
| 1562 | 212 void EmbedContent(const std::string& dataUriScheme); |
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213 |
| 1562 | 214 void EmbedImage(const ImageAccessor& accessor); |
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215 |
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216 void EmbedImage(MimeType mime, |
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217 const std::string& content); |
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218 |
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219 void EmbedRawPixelData(const std::string& content); |
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220 |
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221 Encoding DetectEncoding(bool& hasCodeExtensions) const; |
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222 |
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223 // WARNING: This function only sets the encoding, it will not |
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224 // convert the encoding of the tags. Use "ChangeEncoding()" if need be. |
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225 void SetEncoding(Encoding encoding); |
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226 |
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227 void DatasetToJson(Json::Value& target, |
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228 DicomToJsonFormat format, |
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229 DicomToJsonFlags flags, |
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230 unsigned int maxStringLength) const; |
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231 |
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232 void DatasetToJson(Json::Value& target, |
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233 DicomToJsonFormat format, |
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234 DicomToJsonFlags flags, |
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235 unsigned int maxStringLength, |
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236 const std::set<DicomTag>& ignoreTagLength) const; |
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237 |
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238 void HeaderToJson(Json::Value& target, |
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239 DicomToJsonFormat format) const; |
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240 |
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241 bool HasTag(const DicomTag& tag) const; |
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242 |
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243 bool ExtractPdf(std::string& pdf) const; |
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244 |
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245 void GetRawFrame(std::string& target, // OUT |
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246 MimeType& mime, // OUT |
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247 unsigned int frameId) const; // IN |
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248 |
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249 unsigned int GetFramesCount() const; |
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250 |
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251 static ParsedDicomFile* CreateFromJson(const Json::Value& value, |
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252 DicomFromJsonFlags flags, |
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253 const std::string& privateCreator); |
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254 |
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255 void ChangeEncoding(Encoding target); |
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256 |
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257 /** |
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258 * The DICOM tags with a string whose size is greater than |
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259 * "maxTagLength", are replaced by a DicomValue whose type is |
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260 * "DicomValue_Null". If "maxTagLength" is zero, all the leaf tags |
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261 * are included, independently of their length. |
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262 **/ |
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263 void ExtractDicomSummary(DicomMap& target, |
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264 unsigned int maxTagLength) const; |
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265 |
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266 /** |
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267 * This flavor can be used to bypass the "maxTagLength" limitation |
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268 * on a selected set of DICOM tags. |
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269 **/ |
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270 void ExtractDicomSummary(DicomMap& target, |
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271 unsigned int maxTagLength, |
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272 const std::set<DicomTag>& ignoreTagLength) const; |
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273 |
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274 bool LookupTransferSyntax(DicomTransferSyntax& result) const; |
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275 |
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276 bool LookupPhotometricInterpretation(PhotometricInterpretation& result) const; |
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277 |
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278 void Apply(ITagVisitor& visitor) const; |
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279 |
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280 // Decode the given frame, using the built-in DICOM decoder of Orthanc |
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281 ImageAccessor* DecodeFrame(unsigned int frame) const; |
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282 |
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283 void ReplacePath(const DicomPath& path, |
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284 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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285 bool decodeDataUriScheme, |
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286 DicomReplaceMode mode, |
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287 const std::string& privateCreator /* used only for private tags */); |
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288 |
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289 void RemovePath(const DicomPath& path); |
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290 |
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291 void ClearPath(const DicomPath& path, |
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292 bool onlyIfExists); |
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293 |
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294 bool LookupSequenceItem(DicomMap& target, |
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295 const DicomPath& path, |
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296 size_t sequenceIndex) const; |
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297 |
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298 void GetDefaultWindowing(double& windowCenter, |
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299 double& windowWidth, |
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300 unsigned int frame) const; |
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301 |
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302 void GetRescale(double& rescaleIntercept, |
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303 double& rescaleSlope, |
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304 unsigned int frame) const; |
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305 |
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306 void ListOverlays(std::set<uint16_t>& groups) const; |
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307 |
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308 ImageAccessor* DecodeOverlay(int& originX, |
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309 int& originY, |
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310 uint16_t group) const; |
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311 |
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312 ImageAccessor* DecodeAllOverlays(int& originX, |
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313 int& originY) const; |
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314 |
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315 void InjectEmptyPixelData(ValueRepresentation vr); |
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316 |
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317 // Remove all the tags after pixel data |
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318 void RemoveFromPixelData(); |
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319 |
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320 ValueRepresentation GuessPixelDataValueRepresentation() const; |
| 790 | 321 }; |
| 322 } |