Mercurial > hg > orthanc
annotate OrthancFramework/Sources/DicomParsing/ParsedDicomFile.h @ 5038:f8bea9c1c0fc
reduce dependencies to DCMTK (e.g. for plugins)
| author | Alain Mazy <am@osimis.io> |
|---|---|
| date | Fri, 24 Jun 2022 16:44:38 +0200 |
| parents | dfbe764995cf |
| children | 0ea402b4d901 |
| 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) 2017-2022 Osimis S.A., Belgium |
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6 * Copyright (C) 2021-2022 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 // For internal use only, in order to provide const-correctness on |
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101 // the top of DCMTK API |
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102 DcmFileFormat& GetDcmtkObjectConst() const; |
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103 |
| 4200 | 104 explicit ParsedDicomFile(DcmFileFormat* dicom); // This takes ownership (no clone) |
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105 |
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106 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1 |
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107 // Alias for binary compatibility with Orthanc Framework 1.7.2 => don't use it anymore |
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108 void DatasetToJson(Json::Value& target, |
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109 DicomToJsonFormat format, |
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110 DicomToJsonFlags flags, |
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111 unsigned int maxStringLength); |
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112 DcmFileFormat& GetDcmtkObject() const; |
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113 void Apply(ITagVisitor& visitor); |
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114 ParsedDicomFile* Clone(bool keepSopInstanceUid); |
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115 bool LookupTransferSyntax(std::string& result); |
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116 bool LookupTransferSyntax(std::string& result) const; |
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117 bool GetTagValue(std::string& value, |
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118 const DicomTag& tag); |
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119 #endif |
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120 |
| 790 | 121 public: |
| 4199 | 122 explicit ParsedDicomFile(bool createIdentifiers); // Create a minimal DICOM instance |
| 790 | 123 |
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124 ParsedDicomFile(const DicomMap& map, |
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125 Encoding defaultEncoding, |
| 4199 | 126 bool permissive); |
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127 |
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128 ParsedDicomFile(const DicomMap& map, |
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129 Encoding defaultEncoding, |
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130 bool permissive, |
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131 const std::string& defaultPrivateCreator, |
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132 const std::map<uint16_t, std::string>& privateCreators); |
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133 |
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134 ParsedDicomFile(const void* content, |
| 791 | 135 size_t size); |
| 790 | 136 |
| 4199 | 137 explicit ParsedDicomFile(const std::string& content); |
| 790 | 138 |
| 4199 | 139 explicit ParsedDicomFile(DcmDataset& dicom); // This clones the DCMTK object |
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140 |
| 4199 | 141 explicit ParsedDicomFile(DcmFileFormat& dicom); // This clones the DCMTK object |
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142 |
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143 static ParsedDicomFile* AcquireDcmtkObject(DcmFileFormat* dicom); |
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144 |
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145 DcmFileFormat& GetDcmtkObject(); |
| 790 | 146 |
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147 // The "ParsedDicomFile" object cannot be used after calling this method |
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148 DcmFileFormat* ReleaseDcmtkObject(); |
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149 |
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150 ParsedDicomFile* Clone(bool keepSopInstanceUid) const; |
| 790 | 151 |
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152 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
| 790 | 153 void SendPathValue(RestApiOutput& output, |
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154 const UriComponents& uri) const; |
| 790 | 155 |
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156 void Answer(RestApiOutput& output) const; |
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157 #endif |
| 790 | 158 |
| 159 void Remove(const DicomTag& tag); | |
| 160 | |
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161 // Replace the DICOM tag as a NULL/empty value (e.g. for anonymization) |
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162 void Clear(const DicomTag& tag, |
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163 bool onlyIfExists); |
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164 |
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165 void Replace(const DicomTag& tag, |
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166 const std::string& utf8Value, |
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167 bool decodeDataUriScheme, |
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168 DicomReplaceMode mode, |
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169 const std::string& privateCreator /* used only for private tags */); |
| 1695 | 170 |
| 171 void Replace(const DicomTag& tag, | |
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172 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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173 bool decodeDataUriScheme, |
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174 DicomReplaceMode mode, |
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175 const std::string& privateCreator /* used only for private tags */); |
| 790 | 176 |
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177 void Insert(const DicomTag& tag, |
| 1695 | 178 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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179 bool decodeDataUriScheme, |
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180 const std::string& privateCreator /* used only for private tags */); |
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181 |
|
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182 // Cannot be applied to private tags |
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183 void ReplacePlainString(const DicomTag& tag, |
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184 const std::string& utf8Value); |
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185 |
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186 // Cannot be applied to private tags |
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187 void SetIfAbsent(const DicomTag& tag, |
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188 const std::string& utf8Value); |
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189 |
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190 void RemovePrivateTags(); |
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191 |
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192 void RemovePrivateTags(const std::set<DicomTag>& toKeep); |
| 790 | 193 |
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194 // WARNING: This function handles the decoding of strings to UTF8 |
| 790 | 195 bool GetTagValue(std::string& value, |
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196 const DicomTag& tag) const; |
| 790 | 197 |
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198 DicomInstanceHasher GetHasher() const; |
| 790 | 199 |
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200 // The "Save" methods are not tagged as "const", as the internal |
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201 // representation might be changed after serialization |
| 790 | 202 void SaveToMemoryBuffer(std::string& buffer); |
| 203 | |
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204 #if ORTHANC_SANDBOXED == 0 |
| 790 | 205 void SaveToFile(const std::string& path); |
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206 #endif |
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207 |
| 1562 | 208 void EmbedContent(const std::string& dataUriScheme); |
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209 |
| 1562 | 210 void EmbedImage(const ImageAccessor& accessor); |
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211 |
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212 void EmbedImage(MimeType mime, |
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213 const std::string& content); |
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214 |
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215 void EmbedRawPixelData(const std::string& content); |
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216 |
|
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217 Encoding DetectEncoding(bool& hasCodeExtensions) const; |
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218 |
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219 // WARNING: This function only sets the encoding, it will not |
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220 // convert the encoding of the tags. Use "ChangeEncoding()" if need be. |
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221 void SetEncoding(Encoding encoding); |
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222 |
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223 void DatasetToJson(Json::Value& target, |
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224 DicomToJsonFormat format, |
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225 DicomToJsonFlags flags, |
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226 unsigned int maxStringLength) const; |
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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, |
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232 const std::set<DicomTag>& ignoreTagLength) const; |
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233 |
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234 void HeaderToJson(Json::Value& target, |
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235 DicomToJsonFormat format) const; |
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236 |
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237 bool HasTag(const DicomTag& tag) const; |
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238 |
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239 void EmbedPdf(const std::string& pdf); |
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240 |
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241 bool ExtractPdf(std::string& pdf) const; |
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242 |
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243 void GetRawFrame(std::string& target, // OUT |
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244 MimeType& mime, // OUT |
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245 unsigned int frameId) const; // IN |
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246 |
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247 unsigned int GetFramesCount() const; |
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248 |
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249 static ParsedDicomFile* CreateFromJson(const Json::Value& value, |
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250 DicomFromJsonFlags flags, |
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251 const std::string& privateCreator); |
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252 |
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253 void ChangeEncoding(Encoding target); |
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254 |
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255 /** |
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256 * The DICOM tags with a string whose size is greater than |
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257 * "maxTagLength", are replaced by a DicomValue whose type is |
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258 * "DicomValue_Null". If "maxTagLength" is zero, all the leaf tags |
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259 * are included, independently of their length. |
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260 **/ |
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261 void ExtractDicomSummary(DicomMap& target, |
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262 unsigned int maxTagLength) const; |
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263 |
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264 /** |
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265 * This flavor can be used to bypass the "maxTagLength" limitation |
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266 * on a selected set of DICOM tags. |
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267 **/ |
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268 void ExtractDicomSummary(DicomMap& target, |
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269 unsigned int maxTagLength, |
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270 const std::set<DicomTag>& ignoreTagLength) const; |
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271 |
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272 bool LookupTransferSyntax(DicomTransferSyntax& result) const; |
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273 |
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274 bool LookupPhotometricInterpretation(PhotometricInterpretation& result) const; |
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275 |
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276 void Apply(ITagVisitor& visitor) const; |
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277 |
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278 // Decode the given frame, using the built-in DICOM decoder of Orthanc |
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279 ImageAccessor* DecodeFrame(unsigned int frame) const; |
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280 |
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281 void ReplacePath(const DicomPath& path, |
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282 const Json::Value& value, // Assumed to be encoded with UTF-8 |
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283 bool decodeDataUriScheme, |
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284 DicomReplaceMode mode, |
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285 const std::string& privateCreator /* used only for private tags */); |
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286 |
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287 void RemovePath(const DicomPath& path); |
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288 |
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289 void ClearPath(const DicomPath& path, |
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290 bool onlyIfExists); |
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291 |
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292 bool LookupSequenceItem(DicomMap& target, |
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293 const DicomPath& path, |
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294 size_t sequenceIndex) const; |
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295 |
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296 void GetDefaultWindowing(double& windowCenter, |
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297 double& windowWidth, |
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298 unsigned int frame) const; |
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299 |
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300 void GetRescale(double& rescaleIntercept, |
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301 double& rescaleSlope, |
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302 unsigned int frame) const; |
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303 |
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304 void ListOverlays(std::set<uint16_t>& groups) const; |
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305 |
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306 ImageAccessor* DecodeOverlay(int& originX, |
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307 int& originY, |
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308 uint16_t group) const; |
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309 |
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310 ImageAccessor* DecodeAllOverlays(int& originX, |
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311 int& originY) const; |
| 790 | 312 }; |
| 313 } |