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annotate OrthancFramework/Sources/DicomParsing/DicomModification.h @ 4737:979ae3ea3381

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DANGEROUS commit: Anonymization is now also applied to nested sequences
author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 06 Jul 2021 08:12:26 +0200
parents 45bce660ce3a
children 51ec061516c9
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2021 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU Lesser General Public License
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Lesser General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Lesser General Public
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18 * License along with this program. If not, see
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19 * <http://www.gnu.org/licenses/>.
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20 **/
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21
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22
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23 #pragma once
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24
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25 #include "ParsedDicomFile.h"
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26
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27 #include <list>
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28
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29
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30 namespace Orthanc
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31 {
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32 class ORTHANC_PUBLIC DicomModification : public boost::noncopyable
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33 {
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34 /**
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35 * Process:
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36 * (1) Remove private tags
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37 * (2) Remove tags specified by the user
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38 * (3) Replace tags
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39 **/
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40
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41 public:
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42 class IDicomIdentifierGenerator : public boost::noncopyable
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43 {
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44 public:
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45 virtual ~IDicomIdentifierGenerator()
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46 {
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47 }
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48
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49 virtual bool Apply(std::string& target,
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50 const std::string& sourceIdentifier,
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51 ResourceType level,
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52 const DicomMap& sourceDicom) = 0;
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53 };
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54
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55 private:
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56 class RelationshipsVisitor;
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57
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58 class DicomTagRange
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59 {
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60 private:
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61 uint16_t groupFrom_;
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62 uint16_t groupTo_;
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63 uint16_t elementFrom_;
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64 uint16_t elementTo_;
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65
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66 public:
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67 DicomTagRange(uint16_t groupFrom,
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68 uint16_t groupTo,
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69 uint16_t elementFrom,
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70 uint16_t elementTo);
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71
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72 uint16_t GetGroupFrom() const
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73 {
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74 return groupFrom_;
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75 }
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76
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77 uint16_t GetGroupTo() const
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78 {
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79 return groupTo_;
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80 }
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81
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82 uint16_t GetElementFrom() const
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83 {
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84 return elementFrom_;
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85 }
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86
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87 uint16_t GetElementTo() const
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88 {
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89 return elementTo_;
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90 }
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91
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92 bool Contains(const DicomTag& tag) const;
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93 };
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95 class SequenceReplacement : public boost::noncopyable
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96 {
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97 private:
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98 DicomPath path_;
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99 Json::Value value_;
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100
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101 public:
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102 SequenceReplacement(const DicomPath& path,
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103 const Json::Value& value) :
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104 path_(path),
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105 value_(value)
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106 {
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107 }
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108
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109 const DicomPath& GetPath() const
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110 {
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111 return path_;
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112 }
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114 const Json::Value& GetValue() const
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115 {
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116 return value_;
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117 }
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118 };
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119
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120 typedef std::set<DicomTag> SetOfTags;
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121 typedef std::map<DicomTag, Json::Value*> Replacements;
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122 typedef std::list<DicomTagRange> RemovedRanges;
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123 typedef std::list<DicomPath> ListOfPaths;
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124 typedef std::list<SequenceReplacement*> SequenceReplacements;
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125
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126 typedef std::map< std::pair<ResourceType, std::string>, std::string> UidMap;
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127
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128 SetOfTags removals_;
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129 SetOfTags clearings_;
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130 Replacements replacements_;
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131 bool removePrivateTags_;
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132 ResourceType level_;
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133 UidMap uidMap_;
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134 SetOfTags privateTagsToKeep_;
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135 bool allowManualIdentifiers_;
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136 bool keepStudyInstanceUid_;
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137 bool keepSeriesInstanceUid_;
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138 bool keepSopInstanceUid_;
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139 bool updateReferencedRelationships_;
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140 bool isAnonymization_;
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141 DicomMap currentSource_;
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142 std::string privateCreator_;
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143
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144 IDicomIdentifierGenerator* identifierGenerator_;
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145
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146 // New in Orthanc 1.9.4
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147 SetOfTags uids_;
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148 RemovedRanges removedRanges_;
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149 ListOfPaths keepSequences_; // Can *possibly* be a path whose prefix is empty
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150 ListOfPaths removeSequences_; // Must *never* be a path whose prefix is empty
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151 SequenceReplacements sequenceReplacements_; // Must *never* be a path whose prefix is empty
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152
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153 std::string MapDicomIdentifier(const std::string& original,
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154 ResourceType level);
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155
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156 void RegisterMappedDicomIdentifier(const std::string& original,
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157 const std::string& mapped,
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158 ResourceType level);
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159
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160 void MapDicomTags(ParsedDicomFile& dicom,
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161 ResourceType level);
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162
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163 void MarkNotOrthancAnonymization();
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164
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165 void ClearReplacements();
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166
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167 void CancelReplacement(const DicomTag& tag);
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168
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169 void ReplaceInternal(const DicomTag& tag,
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170 const Json::Value& value);
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171
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172 void SetupUidsFromOrthanc_1_9_3();
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173
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174 void SetupAnonymization2008();
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175
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176 void SetupAnonymization2017c();
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177
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178 void SetupAnonymization2021b();
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179
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180 void UnserializeUidMap(ResourceType level,
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181 const Json::Value& serialized,
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182 const char* field);
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183
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184 public:
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185 DicomModification();
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186
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187 explicit DicomModification(const Json::Value& serialized);
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188
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189 ~DicomModification();
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190
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191 void Keep(const DicomTag& tag);
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192
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193 void Remove(const DicomTag& tag);
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194
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195 // Replace the DICOM tag as a NULL/empty value (e.g. for anonymization)
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196 void Clear(const DicomTag& tag);
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197
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198 bool IsRemoved(const DicomTag& tag) const;
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199
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200 bool IsCleared(const DicomTag& tag) const;
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201
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202 // "safeForAnonymization" tells Orthanc that this replacement does
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203 // not break the anonymization process it implements (for internal use only)
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204 void Replace(const DicomTag& tag,
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205 const Json::Value& value, // Encoded using UTF-8
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206 bool safeForAnonymization);
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207
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208 bool IsReplaced(const DicomTag& tag) const;
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209
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210 const Json::Value& GetReplacement(const DicomTag& tag) const;
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211
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212 std::string GetReplacementAsString(const DicomTag& tag) const;
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213
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214 void SetRemovePrivateTags(bool removed);
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215
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216 bool ArePrivateTagsRemoved() const;
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217
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218 void SetLevel(ResourceType level);
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219
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220 ResourceType GetLevel() const;
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221
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222 void SetupAnonymization(DicomVersion version);
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223
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224 void Apply(ParsedDicomFile& toModify);
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225
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226 void SetAllowManualIdentifiers(bool check);
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227
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228 bool AreAllowManualIdentifiers() const;
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229
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230 void ParseModifyRequest(const Json::Value& request);
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231
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232 // "patientNameOverridden" is set to "true" iff. the PatientName
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233 // (0010,0010) tag is manually replaced, removed, cleared or kept
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234 void ParseAnonymizationRequest(bool& patientNameOverridden /* out */,
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235 const Json::Value& request);
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236
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237 void SetDicomIdentifierGenerator(IDicomIdentifierGenerator& generator);
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238
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239 void Serialize(Json::Value& value) const;
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240
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241 void SetPrivateCreator(const std::string& privateCreator);
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242
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243 const std::string& GetPrivateCreator() const;
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244
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245 // New in Orthanc 1.9.4
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246 void Keep(const DicomPath& path);
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248 // New in Orthanc 1.9.4
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249 void Remove(const DicomPath& path);
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250
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251 // New in Orthanc 1.9.4
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parents: 4684
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252 void Replace(const DicomPath& path,
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253 const Json::Value& value, // Encoded using UTF-8
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parents: 4684
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254 bool safeForAnonymization);
786
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255 };
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256 }