Mercurial > hg > orthanc

annotate OrthancServer/OrthancRestApi/OrthancRestAnonymizeModify.cpp @ 788:7ebe4bf87196

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refactoring
author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 05 May 2014 18:39:36 +0200
parents ac18946afa74
children 381f90e2b69d
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2014 Medical Physics Department, CHU of Liege,
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4 * Belgium
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5 *
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6 * This program is free software: you can redistribute it and/or
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7 * modify it under the terms of the GNU General Public License as
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8 * published by the Free Software Foundation, either version 3 of the
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9 * License, or (at your option) any later version.
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10 *
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11 * In addition, as a special exception, the copyright holders of this
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12 * program give permission to link the code of its release with the
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13 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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14 * that use the same license as the "OpenSSL" library), and distribute
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15 * the linked executables. You must obey the GNU General Public License
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16 * in all respects for all of the code used other than "OpenSSL". If you
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17 * modify file(s) with this exception, you may extend this exception to
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18 * your version of the file(s), but you are not obligated to do so. If
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19 * you do not wish to do so, delete this exception statement from your
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20 * version. If you delete this exception statement from all source files
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21 * in the program, then also delete it here.
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22 *
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23 * This program is distributed in the hope that it will be useful, but
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24 * WITHOUT ANY WARRANTY; without even the implied warranty of
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25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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26 * General Public License for more details.
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27 *
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28 * You should have received a copy of the GNU General Public License
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29 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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30 **/
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31
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32
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33 #include "OrthancRestApi.h"
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34
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35 #include "../DicomModification.h"
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36
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37 #include <glog/logging.h>
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38
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39 namespace Orthanc
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40 {
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41 // Modification of DICOM instances ------------------------------------------
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42
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43 enum TagOperation
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44 {
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45 TagOperation_Keep,
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46 TagOperation_Remove
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47 };
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48
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49 static void ParseListOfTags(DicomModification& target,
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50 const Json::Value& query,
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51 TagOperation operation)
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52 {
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53 if (!query.isArray())
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54 {
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55 throw OrthancException(ErrorCode_BadRequest);
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56 }
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57
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58 for (Json::Value::ArrayIndex i = 0; i < query.size(); i++)
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59 {
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60 std::string name = query[i].asString();
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61
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62 DicomTag tag = FromDcmtkBridge::ParseTag(name);
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63
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64 switch (operation)
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65 {
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66 case TagOperation_Keep:
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67 target.Keep(tag);
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68 VLOG(1) << "Keep: " << name << " " << tag << std::endl;
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69 break;
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70
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71 case TagOperation_Remove:
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72 target.Remove(tag);
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73 VLOG(1) << "Remove: " << name << " " << tag << std::endl;
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74 break;
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75
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76 default:
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77 throw OrthancException(ErrorCode_InternalError);
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78 }
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79 }
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80 }
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81
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82
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83 static void ParseReplacements(DicomModification& target,
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84 const Json::Value& replacements)
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85 {
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86 if (!replacements.isObject())
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87 {
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88 throw OrthancException(ErrorCode_BadRequest);
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89 }
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90
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91 Json::Value::Members members = replacements.getMemberNames();
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92 for (size_t i = 0; i < members.size(); i++)
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93 {
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94 const std::string& name = members[i];
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95 std::string value = replacements[name].asString();
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96
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97 DicomTag tag = FromDcmtkBridge::ParseTag(name);
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98 target.Replace(tag, value);
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99
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100 VLOG(1) << "Replace: " << name << " " << tag << " == " << value << std::endl;
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101 }
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102 }
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103
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104
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105 static std::string GeneratePatientName(ServerContext& context)
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106 {
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107 uint64_t seq = context.GetIndex().IncrementGlobalSequence(GlobalProperty_AnonymizationSequence);
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108 return "Anonymized" + boost::lexical_cast<std::string>(seq);
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109 }
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110
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111
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112 static bool ParseModifyRequest(DicomModification& target,
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113 const RestApi::PostCall& call)
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114 {
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115 // curl http://localhost:8042/series/95a6e2bf-9296e2cc-bf614e2f-22b391ee-16e010e0/modify -X POST -d '{"Replace":{"InstitutionName":"My own clinic"}}'
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116
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117 Json::Value request;
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118 if (call.ParseJsonRequest(request) && request.isObject())
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119 {
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120 if (request.isMember("RemovePrivateTags"))
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121 {
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122 target.SetRemovePrivateTags(true);
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123 }
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124
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125 if (request.isMember("Remove"))
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126 {
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127 ParseListOfTags(target, request["Remove"], TagOperation_Remove);
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128 }
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129
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130 if (request.isMember("Replace"))
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131 {
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132 ParseReplacements(target, request["Replace"]);
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133 }
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134
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135 return true;
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136 }
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137 else
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138 {
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139 return false;
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140 }
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141 }
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142
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143
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144 static bool ParseAnonymizationRequest(DicomModification& target,
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145 RestApi::PostCall& call)
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146 {
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147 // curl http://localhost:8042/instances/6e67da51-d119d6ae-c5667437-87b9a8a5-0f07c49f/anonymize -X POST -d '{"Replace":{"PatientName":"hello","0010-0020":"world"},"Keep":["StudyDescription", "SeriesDescription"],"KeepPrivateTags": null,"Remove":["Modality"]}' > Anonymized.dcm
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148
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149 target.SetupAnonymization();
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150 std::string patientName = target.GetReplacement(DICOM_TAG_PATIENT_NAME);
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151
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152 Json::Value request;
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153 if (call.ParseJsonRequest(request) && request.isObject())
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154 {
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155 if (request.isMember("KeepPrivateTags"))
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156 {
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157 target.SetRemovePrivateTags(false);
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158 }
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159
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160 if (request.isMember("Remove"))
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161 {
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162 ParseListOfTags(target, request["Remove"], TagOperation_Remove);
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163 }
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164
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165 if (request.isMember("Replace"))
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166 {
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167 ParseReplacements(target, request["Replace"]);
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168 }
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169
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170 if (request.isMember("Keep"))
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171 {
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172 ParseListOfTags(target, request["Keep"], TagOperation_Keep);
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173 }
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174
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175 if (target.GetReplacement(DICOM_TAG_PATIENT_NAME) == patientName)
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176 {
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177 // Overwrite the random Patient's Name by one that is more
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178 // user-friendly (provided none was specified by the user)
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179 target.Replace(DICOM_TAG_PATIENT_NAME, GeneratePatientName(OrthancRestApi::GetContext(call)));
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180 }
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181
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182 return true;
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183 }
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184 else
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185 {
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186 return false;
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187 }
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188 }
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189
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190
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191 static void AnonymizeOrModifyInstance(DicomModification& modification,
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192 RestApi::PostCall& call)
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193 {
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194 std::string id = call.GetUriComponent("id", "");
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195
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196 ServerContext::DicomCacheLocker locker(OrthancRestApi::GetContext(call), id);
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197
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198 std::auto_ptr<ParsedDicomFile> modified(locker.GetDicom().Clone());
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199 modification.Apply(*modified);
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200 modified->Answer(call.GetOutput());
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201 }
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202
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203
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204 static void AnonymizeOrModifyResource(DicomModification& modification,
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205 MetadataType metadataType,
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206 ChangeType changeType,
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207 ResourceType resourceType,
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208 RestApi::PostCall& call)
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209 {
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210 bool isFirst = true;
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211 Json::Value result(Json::objectValue);
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212
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213 ServerContext& context = OrthancRestApi::GetContext(call);
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214
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215 typedef std::list<std::string> Instances;
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216 Instances instances;
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217 std::string id = call.GetUriComponent("id", "");
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218 context.GetIndex().GetChildInstances(instances, id);
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219
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diff changeset
220 if (instances.empty())
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221 {
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222 return;
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223 }
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diff changeset
224
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225
751
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226 /**
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227 * Loop over all the instances of the resource.
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228 **/
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diff changeset
229
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230 for (Instances::const_iterator it = instances.begin();
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231 it != instances.end(); ++it)
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diff changeset
232 {
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233 LOG(INFO) << "Modifying instance " << *it;
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234
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235 std::auto_ptr<ServerContext::DicomCacheLocker> locker;
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diff changeset
236
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diff changeset
237 try
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238 {
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diff changeset
239 locker.reset(new ServerContext::DicomCacheLocker(OrthancRestApi::GetContext(call), *it));
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240 }
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diff changeset
241 catch (OrthancException&)
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242 {
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243 // This child instance has been removed in between
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244 continue;
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245 }
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diff changeset
246
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diff changeset
247 ParsedDicomFile& original = locker->GetDicom();
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248 DicomInstanceHasher originalHasher = original.GetHasher();
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249
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diff changeset
250
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251 /**
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252 * Compute the resulting DICOM instance and store it into the Orthanc store.
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253 **/
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diff changeset
254
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255 std::auto_ptr<ParsedDicomFile> modified(original.Clone());
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diff changeset
256 modification.Apply(*modified);
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257
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diff changeset
258 std::string modifiedInstance;
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259 if (context.Store(modifiedInstance, modified->GetDicom()) != StoreStatus_Success)
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diff changeset
260 {
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diff changeset
261 LOG(ERROR) << "Error while storing a modified instance " << *it;
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diff changeset
262 return;
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diff changeset
263 }
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diff changeset
264
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diff changeset
265
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diff changeset
266 /**
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diff changeset
267 * Record metadata information (AnonymizedFrom/ModifiedFrom).
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diff changeset
268 **/
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diff changeset
269
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diff changeset
270 DicomInstanceHasher modifiedHasher = modified->GetHasher();
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271
787
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diff changeset
272 if (originalHasher.HashSeries() != modifiedHasher.HashSeries())
751
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273 {
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diff changeset
274 context.GetIndex().SetMetadata(modifiedHasher.HashSeries(),
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diff changeset
275 metadataType, originalHasher.HashSeries());
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276 }
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277
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278 if (originalHasher.HashStudy() != modifiedHasher.HashStudy())
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279 {
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280 context.GetIndex().SetMetadata(modifiedHasher.HashStudy(),
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281 metadataType, originalHasher.HashStudy());
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282 }
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283
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284 if (originalHasher.HashPatient() != modifiedHasher.HashPatient())
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285 {
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286 context.GetIndex().SetMetadata(modifiedHasher.HashPatient(),
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287 metadataType, originalHasher.HashPatient());
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288 }
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289
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290 assert(*it == originalHasher.HashInstance());
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291 assert(modifiedInstance == modifiedHasher.HashInstance());
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292 context.GetIndex().SetMetadata(modifiedInstance, metadataType, *it);
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293
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294
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295 /**
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296 * Compute the JSON object that is returned by the REST call.
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297 **/
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298
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299 if (isFirst)
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300 {
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301 std::string newId;
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302
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303 switch (resourceType)
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304 {
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305 case ResourceType_Series:
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306 newId = modifiedHasher.HashSeries();
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307 break;
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308
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309 case ResourceType_Study:
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310 newId = modifiedHasher.HashStudy();
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311 break;
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312
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313 case ResourceType_Patient:
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314 newId = modifiedHasher.HashPatient();
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315 break;
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316
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317 default:
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318 throw OrthancException(ErrorCode_InternalError);
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319 }
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320
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321 result["Type"] = EnumerationToString(resourceType);
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322 result["ID"] = newId;
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323 result["Path"] = GetBasePath(resourceType, newId);
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324 result["PatientID"] = modifiedHasher.HashPatient();
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325 isFirst = false;
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326 }
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327 }
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328
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329 call.GetOutput().AnswerJson(result);
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330 }
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331
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332
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333
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334 static void ModifyInstance(RestApi::PostCall& call)
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335 {
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336 DicomModification modification;
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337
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338 // TODO : modification.SetLevel(ResourceType_Series); ?????
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339
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340 if (ParseModifyRequest(modification, call))
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341 {
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342 AnonymizeOrModifyInstance(modification, call);
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343 }
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344 }
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345
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346
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347 static void AnonymizeInstance(RestApi::PostCall& call)
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348 {
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349 DicomModification modification;
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350
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351 if (ParseAnonymizationRequest(modification, call))
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352 {
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353 AnonymizeOrModifyInstance(modification, call);
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354 }
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355 }
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356
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357
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358 template <enum ChangeType changeType,
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359 enum ResourceType resourceType>
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360 static void ModifyResource(RestApi::PostCall& call)
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361 {
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362 DicomModification modification;
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363
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364 switch (resourceType)
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365 {
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366 case ResourceType_Series:
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367 modification.SetLevel(ResourceType_Series);
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368 break;
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369
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370 case ResourceType_Study:
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371 modification.SetLevel(ResourceType_Study);
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372 break;
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373
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374 case ResourceType_Patient:
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375 modification.SetLevel(ResourceType_Patient);
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376 break;
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377
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378 default:
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379 throw OrthancException(ErrorCode_InternalError);
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380 }
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381
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382 if (ParseModifyRequest(modification, call))
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383 {
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384 AnonymizeOrModifyResource(modification, MetadataType_ModifiedFrom,
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385 changeType, resourceType, call);
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386 }
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387 }
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388
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389
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390 template <enum ChangeType changeType,
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391 enum ResourceType resourceType>
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392 static void AnonymizeResource(RestApi::PostCall& call)
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393 {
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394 DicomModification modification;
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395
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396 if (ParseAnonymizationRequest(modification, call))
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397 {
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398 AnonymizeOrModifyResource(modification, MetadataType_AnonymizedFrom,
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399 changeType, resourceType, call);
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400 }
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diff changeset
401 }
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diff changeset
402
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diff changeset
403
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diff changeset
404 void OrthancRestApi::RegisterAnonymizeModify()
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diff changeset
405 {
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406 Register("/instances/{id}/modify", ModifyInstance);
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407 Register("/series/{id}/modify", ModifyResource<ChangeType_ModifiedSeries, ResourceType_Series>);
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408 Register("/studies/{id}/modify", ModifyResource<ChangeType_ModifiedStudy, ResourceType_Study>);
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409 //Register("/patients/{id}/modify", ModifyResource<ChangeType_ModifiedPatient, ResourceType_Patient>);
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410
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diff changeset
411 Register("/instances/{id}/anonymize", AnonymizeInstance);
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412 Register("/series/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedSeries, ResourceType_Series>);
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413 Register("/studies/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedStudy, ResourceType_Study>);
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diff changeset
414 Register("/patients/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedPatient, ResourceType_Patient>);
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diff changeset
415 }
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diff changeset
416 }