Mercurial > hg > orthanc

annotate OrthancServer/OrthancRestApi/OrthancRestAnonymizeModify.cpp @ 795:d466b3606aca

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refactoring
author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 06 May 2014 11:01:30 +0200
parents 381f90e2b69d
children e7b1ca0f1e04
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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 #include "../FromDcmtkBridge.h"
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37
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38 #include <glog/logging.h>
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39
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40 namespace Orthanc
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41 {
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42 // Modification of DICOM instances ------------------------------------------
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43
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44 enum TagOperation
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45 {
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46 TagOperation_Keep,
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47 TagOperation_Remove
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48 };
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49
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50 static void ParseListOfTags(DicomModification& target,
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51 const Json::Value& query,
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52 TagOperation operation)
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53 {
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54 if (!query.isArray())
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55 {
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56 throw OrthancException(ErrorCode_BadRequest);
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57 }
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58
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59 for (Json::Value::ArrayIndex i = 0; i < query.size(); i++)
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60 {
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61 std::string name = query[i].asString();
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62
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63 DicomTag tag = FromDcmtkBridge::ParseTag(name);
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64
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65 switch (operation)
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66 {
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67 case TagOperation_Keep:
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68 target.Keep(tag);
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69 VLOG(1) << "Keep: " << name << " " << tag << std::endl;
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70 break;
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71
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72 case TagOperation_Remove:
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73 target.Remove(tag);
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74 VLOG(1) << "Remove: " << name << " " << tag << std::endl;
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75 break;
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76
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77 default:
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78 throw OrthancException(ErrorCode_InternalError);
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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
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84 static void ParseReplacements(DicomModification& target,
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85 const Json::Value& replacements)
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86 {
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87 if (!replacements.isObject())
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88 {
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89 throw OrthancException(ErrorCode_BadRequest);
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90 }
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91
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92 Json::Value::Members members = replacements.getMemberNames();
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93 for (size_t i = 0; i < members.size(); i++)
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94 {
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95 const std::string& name = members[i];
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96 std::string value = replacements[name].asString();
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97
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98 DicomTag tag = FromDcmtkBridge::ParseTag(name);
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99 target.Replace(tag, value);
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100
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101 VLOG(1) << "Replace: " << name << " " << tag << " == " << value << std::endl;
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102 }
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103 }
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104
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105
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106 static std::string GeneratePatientName(ServerContext& context)
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107 {
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108 uint64_t seq = context.GetIndex().IncrementGlobalSequence(GlobalProperty_AnonymizationSequence);
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109 return "Anonymized" + boost::lexical_cast<std::string>(seq);
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110 }
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111
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112
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113 static bool ParseModifyRequest(DicomModification& target,
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114 const RestApi::PostCall& call)
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115 {
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116 // curl http://localhost:8042/series/95a6e2bf-9296e2cc-bf614e2f-22b391ee-16e010e0/modify -X POST -d '{"Replace":{"InstitutionName":"My own clinic"}}'
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117
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118 Json::Value request;
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119 if (call.ParseJsonRequest(request) && request.isObject())
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120 {
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121 if (request.isMember("RemovePrivateTags"))
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122 {
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123 target.SetRemovePrivateTags(true);
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124 }
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125
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126 if (request.isMember("Remove"))
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127 {
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128 ParseListOfTags(target, request["Remove"], TagOperation_Remove);
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129 }
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130
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131 if (request.isMember("Replace"))
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132 {
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133 ParseReplacements(target, request["Replace"]);
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134 }
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135
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136 return true;
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137 }
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138 else
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139 {
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140 return false;
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141 }
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142 }
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143
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144
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145 static bool ParseAnonymizationRequest(DicomModification& target,
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146 RestApi::PostCall& call)
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147 {
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148 // 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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149
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150 target.SetupAnonymization();
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151 std::string patientName = target.GetReplacement(DICOM_TAG_PATIENT_NAME);
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152
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153 Json::Value request;
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154 if (call.ParseJsonRequest(request) && request.isObject())
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155 {
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156 if (request.isMember("KeepPrivateTags"))
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157 {
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158 target.SetRemovePrivateTags(false);
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159 }
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160
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161 if (request.isMember("Remove"))
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162 {
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163 ParseListOfTags(target, request["Remove"], TagOperation_Remove);
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164 }
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165
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166 if (request.isMember("Replace"))
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167 {
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168 ParseReplacements(target, request["Replace"]);
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169 }
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170
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171 if (request.isMember("Keep"))
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172 {
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173 ParseListOfTags(target, request["Keep"], TagOperation_Keep);
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174 }
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175
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176 if (target.GetReplacement(DICOM_TAG_PATIENT_NAME) == patientName)
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177 {
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178 // Overwrite the random Patient's Name by one that is more
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179 // user-friendly (provided none was specified by the user)
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180 target.Replace(DICOM_TAG_PATIENT_NAME, GeneratePatientName(OrthancRestApi::GetContext(call)));
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181 }
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182
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183 return true;
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184 }
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185 else
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186 {
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187 return false;
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188 }
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189 }
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190
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191
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192 static void AnonymizeOrModifyInstance(DicomModification& modification,
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193 RestApi::PostCall& call)
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194 {
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195 std::string id = call.GetUriComponent("id", "");
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196
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197 ServerContext::DicomCacheLocker locker(OrthancRestApi::GetContext(call), id);
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198
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199 std::auto_ptr<ParsedDicomFile> modified(locker.GetDicom().Clone());
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200 modification.Apply(*modified);
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201 modified->Answer(call.GetOutput());
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202 }
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203
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204
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205 static void AnonymizeOrModifyResource(DicomModification& modification,
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206 MetadataType metadataType,
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207 ChangeType changeType,
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208 ResourceType resourceType,
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209 RestApi::PostCall& call)
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210 {
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211 bool isFirst = true;
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212 Json::Value result(Json::objectValue);
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213
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214 ServerContext& context = OrthancRestApi::GetContext(call);
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215
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diff changeset
216 typedef std::list<std::string> Instances;
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217 Instances instances;
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218 std::string id = call.GetUriComponent("id", "");
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diff changeset
219 context.GetIndex().GetChildInstances(instances, id);
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220
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diff changeset
221 if (instances.empty())
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222 {
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223 return;
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224 }
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225
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226
751
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227 /**
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228 * Loop over all the instances of the resource.
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229 **/
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diff changeset
230
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231 for (Instances::const_iterator it = instances.begin();
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232 it != instances.end(); ++it)
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diff changeset
233 {
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234 LOG(INFO) << "Modifying instance " << *it;
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235
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diff changeset
236 std::auto_ptr<ServerContext::DicomCacheLocker> locker;
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diff changeset
237
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diff changeset
238 try
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diff changeset
239 {
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diff changeset
240 locker.reset(new ServerContext::DicomCacheLocker(OrthancRestApi::GetContext(call), *it));
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241 }
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diff changeset
242 catch (OrthancException&)
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243 {
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244 // This child instance has been removed in between
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245 continue;
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246 }
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diff changeset
247
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diff changeset
248 ParsedDicomFile& original = locker->GetDicom();
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249 DicomInstanceHasher originalHasher = original.GetHasher();
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250
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251
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252 /**
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253 * Compute the resulting DICOM instance and store it into the Orthanc store.
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254 **/
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255
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256 std::auto_ptr<ParsedDicomFile> modified(original.Clone());
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diff changeset
257 modification.Apply(*modified);
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258
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diff changeset
259 std::string modifiedInstance;
791
381f90e2b69d refactoring
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diff changeset
260 if (context.Store(modifiedInstance, *modified) != StoreStatus_Success)
751
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261 {
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diff changeset
262 LOG(ERROR) << "Error while storing a modified instance " << *it;
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diff changeset
263 return;
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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 /**
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268 * Record metadata information (AnonymizedFrom/ModifiedFrom).
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diff changeset
269 **/
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diff changeset
270
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diff changeset
271 DicomInstanceHasher modifiedHasher = modified->GetHasher();
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diff changeset
272
787
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273 if (originalHasher.HashSeries() != modifiedHasher.HashSeries())
751
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274 {
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275 context.GetIndex().SetMetadata(modifiedHasher.HashSeries(),
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276 metadataType, originalHasher.HashSeries());
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277 }
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278
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279 if (originalHasher.HashStudy() != modifiedHasher.HashStudy())
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280 {
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281 context.GetIndex().SetMetadata(modifiedHasher.HashStudy(),
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282 metadataType, originalHasher.HashStudy());
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283 }
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284
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285 if (originalHasher.HashPatient() != modifiedHasher.HashPatient())
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286 {
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287 context.GetIndex().SetMetadata(modifiedHasher.HashPatient(),
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288 metadataType, originalHasher.HashPatient());
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289 }
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290
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291 assert(*it == originalHasher.HashInstance());
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292 assert(modifiedInstance == modifiedHasher.HashInstance());
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293 context.GetIndex().SetMetadata(modifiedInstance, metadataType, *it);
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294
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295
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296 /**
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297 * Compute the JSON object that is returned by the REST call.
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298 **/
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299
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300 if (isFirst)
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301 {
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302 std::string newId;
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303
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304 switch (resourceType)
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305 {
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306 case ResourceType_Series:
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307 newId = modifiedHasher.HashSeries();
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308 break;
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309
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310 case ResourceType_Study:
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311 newId = modifiedHasher.HashStudy();
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312 break;
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313
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314 case ResourceType_Patient:
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315 newId = modifiedHasher.HashPatient();
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316 break;
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317
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318 default:
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319 throw OrthancException(ErrorCode_InternalError);
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320 }
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321
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322 result["Type"] = EnumerationToString(resourceType);
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323 result["ID"] = newId;
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324 result["Path"] = GetBasePath(resourceType, newId);
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325 result["PatientID"] = modifiedHasher.HashPatient();
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326 isFirst = false;
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327 }
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328 }
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329
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330 call.GetOutput().AnswerJson(result);
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331 }
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332
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333
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334
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335 static void ModifyInstance(RestApi::PostCall& call)
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336 {
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337 DicomModification modification;
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338
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339 // TODO : modification.SetLevel(ResourceType_Series); ?????
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340
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341 if (ParseModifyRequest(modification, call))
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342 {
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343 AnonymizeOrModifyInstance(modification, call);
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344 }
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345 }
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346
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347
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348 static void AnonymizeInstance(RestApi::PostCall& call)
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349 {
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350 DicomModification modification;
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351
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352 if (ParseAnonymizationRequest(modification, call))
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353 {
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354 AnonymizeOrModifyInstance(modification, call);
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355 }
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356 }
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357
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358
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359 template <enum ChangeType changeType,
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360 enum ResourceType resourceType>
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361 static void ModifyResource(RestApi::PostCall& call)
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362 {
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363 DicomModification modification;
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364
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365 switch (resourceType)
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366 {
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367 case ResourceType_Series:
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368 modification.SetLevel(ResourceType_Series);
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369 break;
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370
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371 case ResourceType_Study:
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372 modification.SetLevel(ResourceType_Study);
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373 break;
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374
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375 case ResourceType_Patient:
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376 modification.SetLevel(ResourceType_Patient);
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377 break;
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378
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379 default:
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380 throw OrthancException(ErrorCode_InternalError);
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381 }
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382
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383 if (ParseModifyRequest(modification, call))
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384 {
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385 AnonymizeOrModifyResource(modification, MetadataType_ModifiedFrom,
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386 changeType, resourceType, call);
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387 }
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388 }
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389
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390
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391 template <enum ChangeType changeType,
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392 enum ResourceType resourceType>
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393 static void AnonymizeResource(RestApi::PostCall& call)
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394 {
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395 DicomModification modification;
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396
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397 if (ParseAnonymizationRequest(modification, call))
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398 {
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399 AnonymizeOrModifyResource(modification, MetadataType_AnonymizedFrom,
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400 changeType, resourceType, call);
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401 }
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diff changeset
402 }
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diff changeset
403
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diff changeset
404
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405 void OrthancRestApi::RegisterAnonymizeModify()
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diff changeset
406 {
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407 Register("/instances/{id}/modify", ModifyInstance);
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408 Register("/series/{id}/modify", ModifyResource<ChangeType_ModifiedSeries, ResourceType_Series>);
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409 Register("/studies/{id}/modify", ModifyResource<ChangeType_ModifiedStudy, ResourceType_Study>);
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410 //Register("/patients/{id}/modify", ModifyResource<ChangeType_ModifiedPatient, ResourceType_Patient>);
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diff changeset
411
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diff changeset
412 Register("/instances/{id}/anonymize", AnonymizeInstance);
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413 Register("/series/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedSeries, ResourceType_Series>);
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414 Register("/studies/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedStudy, ResourceType_Study>);
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415 Register("/patients/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedPatient, ResourceType_Patient>);
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416 }
5197fd35333c refactoring of OrthancRestApi
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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417 }