Mercurial > hg > orthanc
annotate OrthancServer/Sources/OrthancFindRequestHandler.cpp @ 4988:8fba26292a9f
Housekeeper plugin: finalizing + integration tests ok
author | Alain Mazy <am@osimis.io> |
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date | Sat, 30 Apr 2022 19:39:40 +0200 |
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children | d4e5ca0c9307 |
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1 /** |
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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 |
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7 * |
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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 General Public License as |
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10 * published by the Free Software Foundation, either version 3 of the |
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11 * License, or (at your option) any later version. |
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12 * |
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13 * This program is distributed in the hope that it will be useful, but |
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14 * WITHOUT ANY WARRANTY; without even the implied warranty of |
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15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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16 * General Public License for more details. |
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17 * |
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18 * You should have received a copy of the GNU General Public License |
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19 * along with this program. If not, see <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 #include "PrecompiledHeadersServer.h" |
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24 #include "OrthancFindRequestHandler.h" |
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25 |
4045 | 26 #include "../../OrthancFramework/Sources/DicomFormat/DicomArray.h" |
27 #include "../../OrthancFramework/Sources/DicomParsing/FromDcmtkBridge.h" | |
28 #include "../../OrthancFramework/Sources/Logging.h" | |
29 #include "../../OrthancFramework/Sources/Lua/LuaFunctionCall.h" | |
30 #include "../../OrthancFramework/Sources/MetricsRegistry.h" | |
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31 #include "OrthancConfiguration.h" |
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32 #include "Search/DatabaseLookup.h" |
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33 #include "ServerContext.h" |
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34 #include "ServerToolbox.h" |
608 | 35 |
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36 #include <boost/regex.hpp> |
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37 |
608 | 38 |
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39 namespace Orthanc |
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40 { |
608 | 41 static void AddAnswer(DicomFindAnswers& answers, |
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42 ServerContext& context, |
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43 const std::string& publicId, |
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44 const std::string& instanceId, |
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45 const DicomMap& mainDicomTags, |
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46 const Json::Value* dicomAsJson, |
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47 ResourceType level, |
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48 const DicomArray& query, |
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49 const std::list<DicomTag>& sequencesToReturn, |
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50 const std::string& defaultPrivateCreator, |
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51 const std::map<uint16_t, std::string>& privateCreators, |
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52 const std::string& retrieveAet) |
608 | 53 { |
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54 ExpandedResource resource; |
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55 std::set<DicomTag> requestedTags; |
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56 |
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57 query.GetTags(requestedTags); |
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58 requestedTags.erase(DICOM_TAG_QUERY_RETRIEVE_LEVEL); // this is not part of the answer |
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59 |
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60 // reuse ExpandResource to get missing tags and computed tags (ModalitiesInStudy ...). This code is therefore shared between C-Find, tools/find, list-resources and QIDO-RS |
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61 context.ExpandResource(resource, publicId, mainDicomTags, instanceId, dicomAsJson, level, requestedTags, ExpandResourceDbFlags_IncludeMainDicomTags); |
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62 |
608 | 63 DicomMap result; |
64 | |
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65 /** |
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66 * Add the mandatory "Retrieve AE Title (0008,0054)" tag, which was missing in Orthanc <= 1.7.2. |
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67 * http://dicom.nema.org/medical/dicom/current/output/html/part04.html#sect_C.4.1.1.3.2 |
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68 * https://groups.google.com/g/orthanc-users/c/-7zNTKR_PMU/m/kfjwzEVNAgAJ |
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69 **/ |
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70 result.SetValue(DICOM_TAG_RETRIEVE_AE_TITLE, retrieveAet, false /* not binary */); |
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71 |
608 | 72 for (size_t i = 0; i < query.GetSize(); i++) |
73 { | |
1346 | 74 if (query.GetElement(i).GetTag() == DICOM_TAG_QUERY_RETRIEVE_LEVEL) |
75 { | |
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76 // Fix issue 30 on Google Code (QR response missing "Query/Retrieve Level" (008,0052)) |
1346 | 77 result.SetValue(query.GetElement(i).GetTag(), query.GetElement(i).GetValue()); |
78 } | |
79 else if (query.GetElement(i).GetTag() == DICOM_TAG_SPECIFIC_CHARACTER_SET) | |
80 { | |
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81 // Do not include the encoding, this is handled by class ParsedDicomFile |
1346 | 82 } |
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83 else |
608 | 84 { |
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85 const DicomTag& tag = query.GetElement(i).GetTag(); |
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86 const DicomValue* value = resource.tags_.TestAndGetValue(tag); |
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87 |
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88 if (value != NULL && |
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89 !value->IsNull() && |
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90 !value->IsBinary()) |
608 | 91 { |
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92 result.SetValue(tag, value->GetContent(), false); |
608 | 93 } |
722 | 94 else |
95 { | |
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96 result.SetValue(tag, "", false); |
722 | 97 } |
608 | 98 } |
99 } | |
100 | |
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101 if (result.GetSize() == 0 && |
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102 sequencesToReturn.empty()) |
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103 { |
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104 CLOG(WARNING, DICOM) << "The C-FIND request does not return any DICOM tag"; |
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105 } |
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106 else if (sequencesToReturn.empty()) |
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107 { |
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108 answers.Add(result); |
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109 } |
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110 else if (dicomAsJson == NULL) |
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111 { |
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112 CLOG(WARNING, DICOM) << "C-FIND query requesting a sequence, but reading JSON from disk is disabled"; |
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113 answers.Add(result); |
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114 } |
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115 else |
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116 { |
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117 ParsedDicomFile dicom(result, GetDefaultDicomEncoding(), |
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118 true /* be permissive, cf. issue #136 */, defaultPrivateCreator, privateCreators); |
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119 |
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120 for (std::list<DicomTag>::const_iterator tag = sequencesToReturn.begin(); |
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121 tag != sequencesToReturn.end(); ++tag) |
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122 { |
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123 assert(dicomAsJson != NULL); |
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124 const Json::Value& source = (*dicomAsJson) [tag->Format()]; |
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125 |
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126 if (source.type() == Json::objectValue && |
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127 source.isMember("Type") && |
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128 source.isMember("Value") && |
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129 source["Type"].asString() == "Sequence" && |
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130 source["Value"].type() == Json::arrayValue) |
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131 { |
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132 Json::Value content = Json::arrayValue; |
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133 |
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134 for (Json::Value::ArrayIndex i = 0; i < source["Value"].size(); i++) |
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135 { |
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136 Json::Value item; |
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137 Toolbox::SimplifyDicomAsJson(item, source["Value"][i], DicomToJsonFormat_Short); |
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138 content.append(item); |
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139 } |
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140 |
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141 if (tag->IsPrivate()) |
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142 { |
4028 | 143 std::map<uint16_t, std::string>::const_iterator found = privateCreators.find(tag->GetGroup()); |
144 | |
145 if (found != privateCreators.end()) | |
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146 { |
4028 | 147 dicom.Replace(*tag, content, false, DicomReplaceMode_InsertIfAbsent, found->second.c_str()); |
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148 } |
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149 else |
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150 { |
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151 dicom.Replace(*tag, content, false, DicomReplaceMode_InsertIfAbsent, defaultPrivateCreator); |
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152 } |
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153 } |
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154 else |
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155 { |
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156 dicom.Replace(*tag, content, false, DicomReplaceMode_InsertIfAbsent, "" /* no private creator */); |
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157 } |
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158 } |
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159 } |
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160 |
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161 answers.Add(dicom); |
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162 } |
608 | 163 } |
164 | |
165 | |
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166 |
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167 bool OrthancFindRequestHandler::FilterQueryTag(std::string& value /* can be modified */, |
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168 ResourceType level, |
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169 const DicomTag& tag, |
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170 ModalityManufacturer manufacturer) |
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171 { |
2335 | 172 // Whatever the manufacturer, remove the GenericGroupLength tags |
173 // http://dicom.nema.org/medical/dicom/current/output/chtml/part05/sect_7.2.html | |
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174 // https://bugs.orthanc-server.com/show_bug.cgi?id=31 |
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175 if (tag.GetElement() == 0x0000) |
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176 { |
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177 return false; |
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178 } |
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179 |
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180 switch (manufacturer) |
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181 { |
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182 case ModalityManufacturer_Vitrea: |
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183 // Following Denis Nesterov's mail on 2015-11-30 |
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184 if (tag == DicomTag(0x5653, 0x0010)) // "PrivateCreator = Vital Images SW 3.4" |
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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 break; |
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190 |
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191 default: |
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192 break; |
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193 } |
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194 |
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195 return true; |
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196 } |
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197 |
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198 |
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199 bool OrthancFindRequestHandler::ApplyLuaFilter(DicomMap& target, |
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200 const DicomMap& source, |
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201 const std::string& remoteIp, |
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202 const std::string& remoteAet, |
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203 const std::string& calledAet, |
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204 ModalityManufacturer manufacturer) |
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205 { |
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206 static const char* LUA_CALLBACK = "IncomingFindRequestFilter"; |
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207 |
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208 LuaScripting::Lock lock(context_.GetLuaScripting()); |
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209 |
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210 if (!lock.GetLua().IsExistingFunction(LUA_CALLBACK)) |
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211 { |
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212 return false; |
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213 } |
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214 else |
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215 { |
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216 Json::Value origin; |
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217 FormatOrigin(origin, remoteIp, remoteAet, calledAet, manufacturer); |
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218 |
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219 LuaFunctionCall call(lock.GetLua(), LUA_CALLBACK); |
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220 call.PushDicom(source); |
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221 call.PushJson(origin); |
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222 call.ExecuteToDicom(target); |
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223 |
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224 return true; |
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225 } |
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226 } |
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227 |
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228 |
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229 OrthancFindRequestHandler::OrthancFindRequestHandler(ServerContext& context) : |
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230 context_(context), |
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231 maxResults_(0), |
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232 maxInstances_(0) |
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233 { |
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234 } |
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235 |
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236 |
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237 class OrthancFindRequestHandler::LookupVisitor : public ServerContext::ILookupVisitor |
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238 { |
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239 private: |
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240 DicomFindAnswers& answers_; |
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241 ServerContext& context_; |
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242 ResourceType level_; |
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243 const DicomMap& query_; |
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244 DicomArray queryAsArray_; |
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245 const std::list<DicomTag>& sequencesToReturn_; |
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246 std::string defaultPrivateCreator_; // the private creator to use if the group is not defined in the query itself |
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247 const std::map<uint16_t, std::string>& privateCreators_; // the private creators defined in the query itself |
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248 std::string retrieveAet_; |
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249 |
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250 public: |
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251 LookupVisitor(DicomFindAnswers& answers, |
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252 ServerContext& context, |
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253 ResourceType level, |
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254 const DicomMap& query, |
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255 const std::list<DicomTag>& sequencesToReturn, |
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256 const std::map<uint16_t, std::string>& privateCreators) : |
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257 answers_(answers), |
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258 context_(context), |
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259 level_(level), |
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260 query_(query), |
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261 queryAsArray_(query), |
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262 sequencesToReturn_(sequencesToReturn), |
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263 privateCreators_(privateCreators) |
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264 { |
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265 answers_.SetComplete(false); |
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266 |
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267 { |
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268 OrthancConfiguration::ReaderLock lock; |
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269 defaultPrivateCreator_ = lock.GetConfiguration().GetDefaultPrivateCreator(); |
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270 retrieveAet_ = lock.GetConfiguration().GetOrthancAET(); |
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271 } |
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272 } |
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273 |
4204 | 274 virtual bool IsDicomAsJsonNeeded() const ORTHANC_OVERRIDE |
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275 { |
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276 // Ask the "DICOM-as-JSON" attachment only if sequences are to |
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277 // be returned OR if "query_" contains non-main DICOM tags! |
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278 |
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279 DicomMap withoutSpecialTags; |
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280 withoutSpecialTags.Assign(query_); |
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281 |
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282 // Check out "ComputeCounters()" |
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283 withoutSpecialTags.Remove(DICOM_TAG_MODALITIES_IN_STUDY); |
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284 withoutSpecialTags.Remove(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_INSTANCES); |
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285 withoutSpecialTags.Remove(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_SERIES); |
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286 withoutSpecialTags.Remove(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_STUDIES); |
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287 withoutSpecialTags.Remove(DICOM_TAG_NUMBER_OF_SERIES_RELATED_INSTANCES); |
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288 withoutSpecialTags.Remove(DICOM_TAG_NUMBER_OF_STUDY_RELATED_INSTANCES); |
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289 withoutSpecialTags.Remove(DICOM_TAG_NUMBER_OF_STUDY_RELATED_SERIES); |
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290 withoutSpecialTags.Remove(DICOM_TAG_SOP_CLASSES_IN_STUDY); |
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291 |
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292 // Check out "AddAnswer()" |
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293 withoutSpecialTags.Remove(DICOM_TAG_SPECIFIC_CHARACTER_SET); |
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294 withoutSpecialTags.Remove(DICOM_TAG_QUERY_RETRIEVE_LEVEL); |
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295 |
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296 return (!sequencesToReturn_.empty() || |
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297 !withoutSpecialTags.HasOnlyMainDicomTags()); |
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298 } |
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299 |
4204 | 300 virtual void MarkAsComplete() ORTHANC_OVERRIDE |
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301 { |
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302 answers_.SetComplete(true); |
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303 } |
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304 |
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305 virtual void Visit(const std::string& publicId, |
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306 const std::string& instanceId, |
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307 const DicomMap& mainDicomTags, |
4204 | 308 const Json::Value* dicomAsJson) ORTHANC_OVERRIDE |
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309 { |
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310 AddAnswer(answers_, context_, publicId, instanceId, mainDicomTags, dicomAsJson, level_, queryAsArray_, sequencesToReturn_, |
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311 defaultPrivateCreator_, privateCreators_, retrieveAet_); |
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312 } |
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313 }; |
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314 |
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315 |
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316 void OrthancFindRequestHandler::Handle(DicomFindAnswers& answers, |
665 | 317 const DicomMap& input, |
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318 const std::list<DicomTag>& sequencesToReturn, |
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319 const std::string& remoteIp, |
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320 const std::string& remoteAet, |
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321 const std::string& calledAet, |
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322 ModalityManufacturer manufacturer) |
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323 { |
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324 MetricsRegistry::Timer timer(context_.GetMetricsRegistry(), "orthanc_find_scp_duration_ms"); |
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325 |
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326 |
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327 /** |
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328 * Deal with global configuration |
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329 **/ |
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330 |
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331 bool caseSensitivePN; |
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332 |
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333 { |
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334 OrthancConfiguration::ReaderLock lock; |
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335 caseSensitivePN = lock.GetConfiguration().GetBooleanParameter("CaseSensitivePN", false); |
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336 |
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337 RemoteModalityParameters remote; |
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338 if (!lock.GetConfiguration().LookupDicomModalityUsingAETitle(remote, remoteAet)) |
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339 { |
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340 if (lock.GetConfiguration().GetBooleanParameter("DicomAlwaysAllowFind", false)) |
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341 { |
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342 CLOG(INFO, DICOM) << "C-FIND: Allowing SCU request from unknown modality with AET: " << remoteAet; |
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343 } |
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344 else |
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345 { |
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346 // This should never happen, given the test at bottom of |
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347 // "OrthancApplicationEntityFilter::IsAllowedRequest()" |
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348 throw OrthancException(ErrorCode_InexistentItem, |
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349 "C-FIND: Rejecting SCU request from unknown modality with AET: " + remoteAet); |
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350 } |
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351 } |
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352 } |
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353 |
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354 |
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355 |
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356 /** |
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357 * Possibly apply the user-supplied Lua filter. |
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358 **/ |
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359 |
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360 DicomMap lua; |
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361 const DicomMap* filteredInput = &input; |
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362 |
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363 if (ApplyLuaFilter(lua, input, remoteIp, remoteAet, calledAet, manufacturer)) |
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364 { |
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365 filteredInput = &lua; |
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366 } |
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367 |
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368 |
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369 /** |
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370 * Retrieve the query level. |
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371 **/ |
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372 |
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373 assert(filteredInput != NULL); |
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374 const DicomValue* levelTmp = filteredInput->TestAndGetValue(DICOM_TAG_QUERY_RETRIEVE_LEVEL); |
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375 if (levelTmp == NULL || |
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376 levelTmp->IsNull() || |
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377 levelTmp->IsBinary()) |
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378 { |
2955 | 379 throw OrthancException(ErrorCode_BadRequest, |
380 "C-FIND request without the tag 0008,0052 (QueryRetrieveLevel)"); | |
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381 } |
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382 |
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383 ResourceType level = StringToResourceType(levelTmp->GetContent().c_str()); |
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384 |
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385 if (level != ResourceType_Patient && |
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386 level != ResourceType_Study && |
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387 level != ResourceType_Series && |
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388 level != ResourceType_Instance) |
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389 { |
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390 throw OrthancException(ErrorCode_NotImplemented); |
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391 } |
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392 |
665 | 393 |
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394 DicomArray query(*filteredInput); |
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395 CLOG(INFO, DICOM) << "DICOM C-Find request at level: " << EnumerationToString(level); |
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396 |
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397 for (size_t i = 0; i < query.GetSize(); i++) |
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398 { |
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399 if (!query.GetElement(i).GetValue().IsNull()) |
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400 { |
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401 CLOG(INFO, DICOM) << " (" << query.GetElement(i).GetTag().Format() |
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402 << ") " << FromDcmtkBridge::GetTagName(query.GetElement(i)) |
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403 << " = " << context_.GetDeidentifiedContent(query.GetElement(i)); |
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404 } |
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405 } |
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406 |
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407 for (std::list<DicomTag>::const_iterator it = sequencesToReturn.begin(); |
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408 it != sequencesToReturn.end(); ++it) |
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409 { |
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410 CLOG(INFO, DICOM) << " (" << it->Format() |
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411 << ") " << FromDcmtkBridge::GetTagName(*it, "") |
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412 << " : sequence tag whose content will be copied"; |
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413 } |
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414 |
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415 // collect the private creators from the query itself |
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416 std::map<uint16_t, std::string> privateCreators; |
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417 for (size_t i = 0; i < query.GetSize(); i++) |
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418 { |
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419 const DicomElement& element = query.GetElement(i); |
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420 if (element.GetTag().IsPrivate() && element.GetTag().GetElement() == 0x10) |
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421 { |
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422 privateCreators[element.GetTag().GetGroup()] = element.GetValue().GetContent(); |
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423 } |
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424 } |
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425 |
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426 /** |
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427 * Build up the query object. |
608 | 428 **/ |
429 | |
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430 DatabaseLookup lookup; |
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431 |
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432 for (size_t i = 0; i < query.GetSize(); i++) |
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433 { |
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434 const DicomElement& element = query.GetElement(i); |
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435 const DicomTag tag = element.GetTag(); |
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436 |
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437 if (element.GetValue().IsNull() || |
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438 tag == DICOM_TAG_QUERY_RETRIEVE_LEVEL || |
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439 tag == DICOM_TAG_SPECIFIC_CHARACTER_SET) |
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440 { |
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441 continue; |
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442 } |
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443 |
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444 std::string value = element.GetValue().GetContent(); |
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445 if (value.size() == 0) |
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446 { |
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447 // An empty string corresponds to an universal constraint, so we ignore it |
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448 continue; |
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449 } |
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450 |
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451 if (FilterQueryTag(value, level, tag, manufacturer)) |
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452 { |
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453 ValueRepresentation vr = FromDcmtkBridge::LookupValueRepresentation(tag); |
1758 | 454 |
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455 // DICOM specifies that searches must be case sensitive, except |
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456 // for tags with a PN value representation |
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457 bool sensitive = true; |
2007
655489d9165d
DicomMap::ParseDicomMetaInformation()
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458 if (vr == ValueRepresentation_PersonName) |
1851
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459 { |
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460 sensitive = caseSensitivePN; |
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461 } |
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462 |
3033
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463 lookup.AddDicomConstraint(tag, value, sensitive, true /* mandatory */); |
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464 } |
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465 else |
1758 | 466 { |
4287
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467 CLOG(INFO, DICOM) << "Because of a patch for the manufacturer of the remote modality, " |
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468 << "ignoring constraint on tag (" << tag.Format() << ") " |
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469 << FromDcmtkBridge::GetTagName(element); |
1759
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removal of old implementation of search
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470 } |
611
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filtering on modalities
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471 } |
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filtering on modalities
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472 |
1361
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refactoring of C-Find SCP
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473 |
608 | 474 /** |
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475 * Run the query. |
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476 **/ |
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477 |
2876 | 478 size_t limit = (level == ResourceType_Instance) ? maxInstances_ : maxResults_; |
941
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Options to limit the number of results for an incoming C-FIND query
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479 |
3012
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480 |
4020
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collect private creators from the C-Find query itself; use DefaultPrivateCreator otherwise
Alain Mazy <alain@mazy.be>
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481 LookupVisitor visitor(answers, context_, level, *filteredInput, sequencesToReturn, privateCreators); |
3033
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482 context_.Apply(visitor, lookup, level, 0 /* "since" is not relevant to C-FIND */, limit); |
565
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483 } |
2827
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IncomingWorklistRequestFilter() to filter incoming C-FIND worklist queries
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484 |
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IncomingWorklistRequestFilter() to filter incoming C-FIND worklist queries
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485 |
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486 void OrthancFindRequestHandler::FormatOrigin(Json::Value& origin, |
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487 const std::string& remoteIp, |
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488 const std::string& remoteAet, |
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489 const std::string& calledAet, |
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490 ModalityManufacturer manufacturer) |
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491 { |
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492 origin = Json::objectValue; |
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493 origin["RemoteIp"] = remoteIp; |
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494 origin["RemoteAet"] = remoteAet; |
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495 origin["CalledAet"] = calledAet; |
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496 origin["Manufacturer"] = EnumerationToString(manufacturer); |
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497 } |
565
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498 } |