Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 3061:ce272138f15e db-changes
integration mainline->db-changes
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Mon, 24 Dec 2018 11:39:33 +0100 |
parents | 8fd203510d8b 4e43e67f8ecf |
children | 0e9d1731b1b0 |
rev | line source |
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0 | 1 /** |
62 | 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) 2017-2019 Osimis S.A., Belgium |
0 | 6 * |
7 * This program is free software: you can redistribute it and/or | |
8 * modify it under the terms of the GNU General Public License as | |
9 * published by the Free Software Foundation, either version 3 of the | |
10 * License, or (at your option) any later version. | |
136 | 11 * |
12 * In addition, as a special exception, the copyright holders of this | |
13 * program give permission to link the code of its release with the | |
14 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
15 * that use the same license as the "OpenSSL" library), and distribute | |
16 * the linked executables. You must obey the GNU General Public License | |
17 * in all respects for all of the code used other than "OpenSSL". If you | |
18 * modify file(s) with this exception, you may extend this exception to | |
19 * your version of the file(s), but you are not obligated to do so. If | |
20 * you do not wish to do so, delete this exception statement from your | |
21 * version. If you delete this exception statement from all source files | |
22 * in the program, then also delete it here. | |
0 | 23 * |
24 * This program is distributed in the hope that it will be useful, but | |
25 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
27 * General Public License for more details. | |
28 * | |
29 * You should have received a copy of the GNU General Public License | |
30 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
31 **/ | |
32 | |
33 | |
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34 #include "PrecompiledHeadersServer.h" |
0 | 35 #include "ServerIndex.h" |
36 | |
6 | 37 #ifndef NOMINMAX |
2 | 38 #define NOMINMAX |
6 | 39 #endif |
40 | |
1198 | 41 #include "ServerIndexChange.h" |
8 | 42 #include "EmbeddedResources.h" |
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43 #include "OrthancConfiguration.h" |
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44 #include "../Core/DicomParsing/ParsedDicomFile.h" |
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45 #include "ServerToolbox.h" |
0 | 46 #include "../Core/Toolbox.h" |
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47 #include "../Core/Logging.h" |
0 | 48 #include "../Core/DicomFormat/DicomArray.h" |
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49 |
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50 #include "../Core/DicomParsing/FromDcmtkBridge.h" |
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51 #include "ServerContext.h" |
1822 | 52 #include "DicomInstanceToStore.h" |
0 | 53 |
54 #include <boost/lexical_cast.hpp> | |
55 #include <stdio.h> | |
56 | |
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57 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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58 |
62 | 59 namespace Orthanc |
0 | 60 { |
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61 class ServerIndex::Listener : public IDatabaseListener |
0 | 62 { |
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63 private: |
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64 struct FileToRemove |
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65 { |
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66 private: |
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67 std::string uuid_; |
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68 FileContentType type_; |
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69 |
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70 public: |
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71 FileToRemove(const FileInfo& info) : uuid_(info.GetUuid()), |
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72 type_(info.GetContentType()) |
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73 { |
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74 } |
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75 |
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76 const std::string& GetUuid() const |
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77 { |
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78 return uuid_; |
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79 } |
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80 |
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81 FileContentType GetContentType() const |
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82 { |
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83 return type_; |
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84 } |
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85 }; |
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86 |
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87 ServerContext& context_; |
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88 bool hasRemainingLevel_; |
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89 ResourceType remainingType_; |
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90 std::string remainingPublicId_; |
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91 std::list<FileToRemove> pendingFilesToRemove_; |
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92 std::list<ServerIndexChange> pendingChanges_; |
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93 uint64_t sizeOfFilesToRemove_; |
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94 bool insideTransaction_; |
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95 |
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96 void Reset() |
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97 { |
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98 sizeOfFilesToRemove_ = 0; |
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99 hasRemainingLevel_ = false; |
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100 pendingFilesToRemove_.clear(); |
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101 pendingChanges_.clear(); |
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102 } |
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103 |
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104 public: |
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105 Listener(ServerContext& context) : context_(context), |
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106 insideTransaction_(false) |
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107 { |
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108 Reset(); |
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109 assert(ResourceType_Patient < ResourceType_Study && |
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110 ResourceType_Study < ResourceType_Series && |
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111 ResourceType_Series < ResourceType_Instance); |
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112 } |
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113 |
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114 void StartTransaction() |
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115 { |
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116 Reset(); |
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117 insideTransaction_ = true; |
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118 } |
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119 |
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120 void EndTransaction() |
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121 { |
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122 insideTransaction_ = false; |
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123 } |
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124 |
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125 uint64_t GetSizeOfFilesToRemove() |
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126 { |
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127 return sizeOfFilesToRemove_; |
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128 } |
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129 |
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130 void CommitFilesToRemove() |
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131 { |
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132 for (std::list<FileToRemove>::const_iterator |
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133 it = pendingFilesToRemove_.begin(); |
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134 it != pendingFilesToRemove_.end(); ++it) |
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135 { |
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136 context_.RemoveFile(it->GetUuid(), it->GetContentType()); |
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137 } |
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138 } |
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139 |
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140 void CommitChanges() |
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141 { |
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142 for (std::list<ServerIndexChange>::const_iterator |
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143 it = pendingChanges_.begin(); |
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144 it != pendingChanges_.end(); ++it) |
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145 { |
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146 context_.SignalChange(*it); |
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147 } |
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148 } |
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149 |
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150 virtual void SignalRemainingAncestor(ResourceType parentType, |
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151 const std::string& publicId) |
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152 { |
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153 VLOG(1) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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154 |
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155 if (hasRemainingLevel_) |
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156 { |
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157 if (parentType < remainingType_) |
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158 { |
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159 remainingType_ = parentType; |
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160 remainingPublicId_ = publicId; |
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161 } |
1158 | 162 } |
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163 else |
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164 { |
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165 hasRemainingLevel_ = true; |
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166 remainingType_ = parentType; |
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167 remainingPublicId_ = publicId; |
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168 } |
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169 } |
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170 |
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171 virtual void SignalFileDeleted(const FileInfo& info) |
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172 { |
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173 assert(Toolbox::IsUuid(info.GetUuid())); |
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174 pendingFilesToRemove_.push_back(FileToRemove(info)); |
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175 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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176 } |
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177 |
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178 virtual void SignalChange(const ServerIndexChange& change) |
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179 { |
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180 VLOG(1) << "Change related to resource " << change.GetPublicId() << " of type " |
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181 << EnumerationToString(change.GetResourceType()) << ": " |
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182 << EnumerationToString(change.GetChangeType()); |
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183 |
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184 if (insideTransaction_) |
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185 { |
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186 pendingChanges_.push_back(change); |
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187 } |
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188 else |
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189 { |
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190 context_.SignalChange(change); |
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191 } |
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192 } |
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193 |
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194 bool HasRemainingLevel() const |
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195 { |
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196 return hasRemainingLevel_; |
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197 } |
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198 |
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199 ResourceType GetRemainingType() const |
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200 { |
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201 assert(HasRemainingLevel()); |
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202 return remainingType_; |
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203 } |
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204 |
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205 const std::string& GetRemainingPublicId() const |
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206 { |
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207 assert(HasRemainingLevel()); |
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208 return remainingPublicId_; |
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209 } |
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210 }; |
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212 | |
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213 class ServerIndex::Transaction |
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214 { |
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215 private: |
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216 ServerIndex& index_; |
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217 std::auto_ptr<IDatabaseWrapper::ITransaction> transaction_; |
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218 bool isCommitted_; |
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219 |
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220 public: |
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221 Transaction(ServerIndex& index) : |
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222 index_(index), |
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223 isCommitted_(false) |
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224 { |
1247 | 225 transaction_.reset(index_.db_.StartTransaction()); |
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226 transaction_->Begin(); |
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227 |
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228 index_.listener_->StartTransaction(); |
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229 } |
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230 |
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231 ~Transaction() |
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232 { |
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233 index_.listener_->EndTransaction(); |
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234 |
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235 if (!isCommitted_) |
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236 { |
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237 transaction_->Rollback(); |
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238 } |
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239 } |
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240 |
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241 void Commit(uint64_t sizeOfAddedFiles) |
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242 { |
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243 if (!isCommitted_) |
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244 { |
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245 int64_t delta = (static_cast<int64_t>(sizeOfAddedFiles) - |
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246 static_cast<int64_t>(index_.listener_->GetSizeOfFilesToRemove())); |
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247 |
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248 transaction_->Commit(delta); |
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249 |
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250 // We can remove the files once the SQLite transaction has |
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251 // been successfully committed. Some files might have to be |
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252 // deleted because of recycling. |
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253 index_.listener_->CommitFilesToRemove(); |
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254 |
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255 // Send all the pending changes to the Orthanc plugins |
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256 index_.listener_->CommitChanges(); |
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257 |
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258 isCommitted_ = true; |
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259 } |
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260 } |
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261 }; |
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262 |
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263 |
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264 class ServerIndex::UnstableResourcePayload |
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265 { |
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266 private: |
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267 ResourceType type_; |
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268 std::string publicId_; |
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269 boost::posix_time::ptime time_; |
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270 |
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271 public: |
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272 UnstableResourcePayload() : type_(ResourceType_Instance) |
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273 { |
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274 } |
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275 |
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276 UnstableResourcePayload(Orthanc::ResourceType type, |
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277 const std::string& publicId) : |
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278 type_(type), |
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279 publicId_(publicId) |
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280 { |
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281 time_ = boost::posix_time::second_clock::local_time(); |
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282 } |
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283 |
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284 unsigned int GetAge() const |
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285 { |
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286 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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287 } |
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288 |
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289 ResourceType GetResourceType() const |
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290 { |
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291 return type_; |
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292 } |
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293 |
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294 const std::string& GetPublicId() const |
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295 { |
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296 return publicId_; |
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297 } |
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298 }; |
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299 |
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300 |
3027 | 301 class ServerIndex::MainDicomTagsRegistry : public boost::noncopyable |
302 { | |
303 private: | |
304 class TagInfo | |
305 { | |
306 private: | |
307 ResourceType level_; | |
308 DicomTagType type_; | |
309 | |
310 public: | |
311 TagInfo() | |
312 { | |
313 } | |
314 | |
315 TagInfo(ResourceType level, | |
316 DicomTagType type) : | |
317 level_(level), | |
318 type_(type) | |
319 { | |
320 } | |
321 | |
322 ResourceType GetLevel() const | |
323 { | |
324 return level_; | |
325 } | |
326 | |
327 DicomTagType GetType() const | |
328 { | |
329 return type_; | |
330 } | |
331 }; | |
332 | |
333 typedef std::map<DicomTag, TagInfo> Registry; | |
334 | |
335 | |
336 Registry registry_; | |
337 | |
338 void LoadTags(ResourceType level) | |
339 { | |
340 const DicomTag* tags = NULL; | |
341 size_t size; | |
342 | |
343 ServerToolbox::LoadIdentifiers(tags, size, level); | |
344 | |
345 for (size_t i = 0; i < size; i++) | |
346 { | |
347 if (registry_.find(tags[i]) == registry_.end()) | |
348 { | |
349 registry_[tags[i]] = TagInfo(level, DicomTagType_Identifier); | |
350 } | |
351 else | |
352 { | |
353 // These patient-level tags are copied in the study level | |
354 assert(level == ResourceType_Study && | |
355 (tags[i] == DICOM_TAG_PATIENT_ID || | |
356 tags[i] == DICOM_TAG_PATIENT_NAME || | |
357 tags[i] == DICOM_TAG_PATIENT_BIRTH_DATE)); | |
358 } | |
359 } | |
360 | |
361 DicomMap::LoadMainDicomTags(tags, size, level); | |
362 | |
363 for (size_t i = 0; i < size; i++) | |
364 { | |
365 if (registry_.find(tags[i]) == registry_.end()) | |
366 { | |
367 registry_[tags[i]] = TagInfo(level, DicomTagType_Main); | |
368 } | |
369 } | |
370 } | |
371 | |
372 public: | |
373 MainDicomTagsRegistry() | |
374 { | |
375 LoadTags(ResourceType_Patient); | |
376 LoadTags(ResourceType_Study); | |
377 LoadTags(ResourceType_Series); | |
378 LoadTags(ResourceType_Instance); | |
379 } | |
380 | |
381 void LookupTag(ResourceType& level, | |
382 DicomTagType& type, | |
383 const DicomTag& tag) const | |
384 { | |
385 Registry::const_iterator it = registry_.find(tag); | |
386 | |
387 if (it == registry_.end()) | |
388 { | |
389 // Default values | |
390 level = ResourceType_Instance; | |
391 type = DicomTagType_Generic; | |
392 } | |
393 else | |
394 { | |
395 level = it->second.GetLevel(); | |
396 type = it->second.GetType(); | |
397 } | |
398 } | |
399 }; | |
400 | |
401 | |
212 | 402 bool ServerIndex::DeleteResource(Json::Value& target, |
0 | 403 const std::string& uuid, |
202 | 404 ResourceType expectedType) |
0 | 405 { |
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406 boost::mutex::scoped_lock lock(mutex_); |
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407 |
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408 Transaction t(*this); |
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409 |
202 | 410 int64_t id; |
411 ResourceType type; | |
1294 | 412 if (!db_.LookupResource(id, type, uuid) || |
202 | 413 expectedType != type) |
0 | 414 { |
415 return false; | |
416 } | |
202 | 417 |
1247 | 418 db_.DeleteResource(id); |
0 | 419 |
202 | 420 if (listener_->HasRemainingLevel()) |
0 | 421 { |
202 | 422 ResourceType type = listener_->GetRemainingType(); |
423 const std::string& uuid = listener_->GetRemainingPublicId(); | |
0 | 424 |
425 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
204 | 426 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
434
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427 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
0 | 428 target["RemainingAncestor"]["ID"] = uuid; |
429 } | |
430 else | |
431 { | |
432 target["RemainingAncestor"] = Json::nullValue; | |
433 } | |
434 | |
278
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435 t.Commit(0); |
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436 |
0 | 437 return true; |
438 } | |
439 | |
440 | |
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441 void ServerIndex::FlushThread(ServerIndex* that, |
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442 unsigned int threadSleep) |
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443 { |
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444 // By default, wait for 10 seconds before flushing |
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445 unsigned int sleep = 10; |
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446 |
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447 try |
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448 { |
744 | 449 boost::mutex::scoped_lock lock(that->mutex_); |
1239 | 450 std::string sleepString; |
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451 |
1247 | 452 if (that->db_.LookupGlobalProperty(sleepString, GlobalProperty_FlushSleep) && |
1239 | 453 Toolbox::IsInteger(sleepString)) |
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454 { |
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455 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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456 } |
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457 } |
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458 catch (boost::bad_lexical_cast&) |
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459 { |
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460 } |
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461 |
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462 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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463 |
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464 unsigned int count = 0; |
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465 |
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466 while (!that->done_) |
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467 { |
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468 boost::this_thread::sleep(boost::posix_time::milliseconds(threadSleep)); |
511
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469 count++; |
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470 if (count < sleep) |
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471 { |
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472 continue; |
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473 } |
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474 |
2217 | 475 Logging::Flush(); |
476 | |
511
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477 boost::mutex::scoped_lock lock(that->mutex_); |
1247 | 478 that->db_.FlushToDisk(); |
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479 count = 0; |
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480 } |
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481 |
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482 LOG(INFO) << "Stopping the database flushing thread"; |
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483 } |
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484 |
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485 |
1247 | 486 static void ComputeExpectedNumberOfInstances(IDatabaseWrapper& db, |
433 | 487 int64_t series, |
488 const DicomMap& dicomSummary) | |
489 { | |
490 try | |
491 { | |
656 | 492 const DicomValue* value; |
493 const DicomValue* value2; | |
494 | |
433 | 495 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
496 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
497 { | |
498 // Patch for series with temporal positions thanks to Will Ryder | |
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499 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->GetContent()); |
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500 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->GetContent()); |
433 | 501 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); |
502 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
503 } | |
504 | |
505 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
506 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
507 { | |
508 // Support of Cardio-PET images | |
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509 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->GetContent()); |
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510 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->GetContent()); |
433 | 511 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); |
512 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
513 } | |
514 | |
515 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
516 { | |
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517 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->GetContent()); |
433 | 518 } |
519 } | |
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520 catch (OrthancException&) |
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521 { |
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522 } |
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523 catch (boost::bad_lexical_cast&) |
433 | 524 { |
525 } | |
526 } | |
527 | |
528 | |
1237 | 529 |
530 | |
1238 | 531 bool ServerIndex::GetMetadataAsInteger(int64_t& result, |
1237 | 532 int64_t id, |
533 MetadataType type) | |
534 { | |
1238 | 535 std::string s; |
1247 | 536 if (!db_.LookupMetadata(s, id, type)) |
1237 | 537 { |
538 return false; | |
539 } | |
540 | |
541 try | |
542 { | |
1238 | 543 result = boost::lexical_cast<int64_t>(s); |
1237 | 544 return true; |
545 } | |
546 catch (boost::bad_lexical_cast&) | |
547 { | |
548 return false; | |
549 } | |
550 } | |
551 | |
552 | |
1297 | 553 void ServerIndex::LogChange(int64_t internalId, |
554 ChangeType changeType, | |
555 ResourceType resourceType, | |
556 const std::string& publicId) | |
557 { | |
558 ServerIndexChange change(changeType, resourceType, publicId); | |
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559 |
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560 if (changeType <= ChangeType_INTERNAL_LastLogged) |
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561 { |
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562 db_.LogChange(internalId, change); |
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563 } |
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564 |
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565 assert(listener_.get() != NULL); |
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566 listener_->SignalChange(change); |
1297 | 567 } |
568 | |
1237 | 569 |
570 uint64_t ServerIndex::IncrementGlobalSequenceInternal(GlobalProperty property) | |
571 { | |
572 std::string oldValue; | |
573 | |
1247 | 574 if (db_.LookupGlobalProperty(oldValue, property)) |
1237 | 575 { |
576 uint64_t oldNumber; | |
577 | |
578 try | |
579 { | |
580 oldNumber = boost::lexical_cast<uint64_t>(oldValue); | |
1247 | 581 db_.SetGlobalProperty(property, boost::lexical_cast<std::string>(oldNumber + 1)); |
1237 | 582 return oldNumber + 1; |
583 } | |
584 catch (boost::bad_lexical_cast&) | |
585 { | |
586 throw OrthancException(ErrorCode_InternalError); | |
587 } | |
588 } | |
589 else | |
590 { | |
591 // Initialize the sequence at "1" | |
1247 | 592 db_.SetGlobalProperty(property, "1"); |
1237 | 593 return 1; |
594 } | |
595 } | |
596 | |
597 | |
598 | |
1299 | 599 int64_t ServerIndex::CreateResource(const std::string& publicId, |
600 ResourceType type) | |
601 { | |
602 int64_t id = db_.CreateResource(publicId, type); | |
603 | |
604 ChangeType changeType; | |
605 switch (type) | |
606 { | |
607 case ResourceType_Patient: | |
608 changeType = ChangeType_NewPatient; | |
609 break; | |
610 | |
611 case ResourceType_Study: | |
612 changeType = ChangeType_NewStudy; | |
613 break; | |
614 | |
615 case ResourceType_Series: | |
616 changeType = ChangeType_NewSeries; | |
617 break; | |
618 | |
619 case ResourceType_Instance: | |
620 changeType = ChangeType_NewInstance; | |
621 break; | |
622 | |
623 default: | |
624 throw OrthancException(ErrorCode_InternalError); | |
625 } | |
626 | |
627 ServerIndexChange change(changeType, type, publicId); | |
628 db_.LogChange(id, change); | |
1300
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629 |
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630 assert(listener_.get() != NULL); |
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631 listener_->SignalChange(change); |
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632 |
1299 | 633 return id; |
634 } | |
635 | |
1286 | 636 |
226
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637 ServerIndex::ServerIndex(ServerContext& context, |
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638 IDatabaseWrapper& db, |
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639 unsigned int threadSleep) : |
511
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640 done_(false), |
1247 | 641 db_(db), |
269
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642 maximumStorageSize_(0), |
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643 maximumPatients_(0), |
3027 | 644 overwrite_(false), |
645 mainDicomTagsRegistry_(new MainDicomTagsRegistry) | |
186
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646 { |
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647 listener_.reset(new Listener(context)); |
1247 | 648 db_.SetListener(*listener_); |
180
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649 |
269
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650 // Initial recycling if the parameters have changed since the last |
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651 // execution of Orthanc |
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652 StandaloneRecycling(); |
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653 |
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654 if (db.HasFlushToDisk()) |
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655 { |
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656 flushThread_ = boost::thread(FlushThread, this, threadSleep); |
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657 } |
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658 |
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659 unstableResourcesMonitorThread_ = boost::thread |
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660 (UnstableResourcesMonitorThread, this, threadSleep); |
206
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661 } |
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662 |
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663 |
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664 |
206
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665 ServerIndex::~ServerIndex() |
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666 { |
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667 if (!done_) |
511
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668 { |
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669 LOG(ERROR) << "INTERNAL ERROR: ServerIndex::Stop() should be invoked manually to avoid mess in the destruction order!"; |
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670 Stop(); |
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671 } |
0 | 672 } |
673 | |
674 | |
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675 |
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676 void ServerIndex::Stop() |
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677 { |
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678 if (!done_) |
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679 { |
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680 done_ = true; |
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681 |
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682 if (db_.HasFlushToDisk() && |
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683 flushThread_.joinable()) |
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684 { |
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685 flushThread_.join(); |
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686 } |
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687 |
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688 if (unstableResourcesMonitorThread_.joinable()) |
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689 { |
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690 unstableResourcesMonitorThread_.join(); |
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691 } |
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692 } |
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693 } |
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694 |
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695 |
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696 |
2188 | 697 void ServerIndex::SetInstanceMetadata(std::map<MetadataType, std::string>& instanceMetadata, |
698 int64_t instance, | |
699 MetadataType metadata, | |
700 const std::string& value) | |
701 { | |
702 db_.SetMetadata(instance, metadata, value); | |
703 instanceMetadata[metadata] = value; | |
704 } | |
705 | |
706 | |
707 | |
1006
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708 StoreStatus ServerIndex::Store(std::map<MetadataType, std::string>& instanceMetadata, |
1822 | 709 DicomInstanceToStore& instanceToStore, |
710 const Attachments& attachments) | |
0 | 711 { |
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712 boost::mutex::scoped_lock lock(mutex_); |
0 | 713 |
1822 | 714 const DicomMap& dicomSummary = instanceToStore.GetSummary(); |
715 const ServerIndex::MetadataMap& metadata = instanceToStore.GetMetadata(); | |
716 | |
1006
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717 instanceMetadata.clear(); |
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718 |
0 | 719 try |
720 { | |
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721 Transaction t(*this); |
0 | 722 |
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723 // Check whether this instance is already stored |
0 | 724 { |
432 | 725 ResourceType type; |
726 int64_t tmp; | |
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727 if (db_.LookupResource(tmp, type, instanceToStore.GetHasher().HashInstance())) |
432 | 728 { |
729 assert(type == ResourceType_Instance); | |
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730 |
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731 if (overwrite_) |
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732 { |
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733 // Overwrite the old instance |
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734 LOG(INFO) << "Overwriting instance: " << instanceToStore.GetHasher().HashInstance(); |
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735 db_.DeleteResource(tmp); |
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736 } |
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737 else |
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738 { |
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739 // Do nothing if the instance already exists |
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740 db_.GetAllMetadata(instanceMetadata, tmp); |
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741 return StoreStatus_AlreadyStored; |
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742 } |
432 | 743 } |
0 | 744 } |
745 | |
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746 // Ensure there is enough room in the storage for the new instance |
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747 uint64_t instanceSize = 0; |
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748 for (Attachments::const_iterator it = attachments.begin(); |
656 | 749 it != attachments.end(); ++it) |
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750 { |
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751 instanceSize += it->GetCompressedSize(); |
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752 } |
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753 |
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754 Recycle(instanceSize, instanceToStore.GetHasher().HashPatient()); |
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755 |
202 | 756 // Create the instance |
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757 int64_t instance = CreateResource(instanceToStore.GetHasher().HashInstance(), ResourceType_Instance); |
2120 | 758 ServerToolbox::StoreMainDicomTags(db_, instance, ResourceType_Instance, dicomSummary); |
202 | 759 |
432 | 760 // Detect up to which level the patient/study/series/instance |
761 // hierarchy must be created | |
762 int64_t patient = -1, study = -1, series = -1; | |
763 bool isNewPatient = false; | |
764 bool isNewStudy = false; | |
765 bool isNewSeries = false; | |
766 | |
0 | 767 { |
432 | 768 ResourceType dummy; |
769 | |
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770 if (db_.LookupResource(series, dummy, instanceToStore.GetHasher().HashSeries())) |
432 | 771 { |
772 assert(dummy == ResourceType_Series); | |
773 // The patient, the study and the series already exist | |
774 | |
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775 bool ok = (db_.LookupResource(patient, dummy, instanceToStore.GetHasher().HashPatient()) && |
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776 db_.LookupResource(study, dummy, instanceToStore.GetHasher().HashStudy())); |
432 | 777 assert(ok); |
778 } | |
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779 else if (db_.LookupResource(study, dummy, instanceToStore.GetHasher().HashStudy())) |
432 | 780 { |
781 assert(dummy == ResourceType_Study); | |
782 | |
783 // New series: The patient and the study already exist | |
784 isNewSeries = true; | |
785 | |
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786 bool ok = db_.LookupResource(patient, dummy, instanceToStore.GetHasher().HashPatient()); |
432 | 787 assert(ok); |
788 } | |
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789 else if (db_.LookupResource(patient, dummy, instanceToStore.GetHasher().HashPatient())) |
432 | 790 { |
791 assert(dummy == ResourceType_Patient); | |
792 | |
793 // New study and series: The patient already exist | |
794 isNewStudy = true; | |
795 isNewSeries = true; | |
796 } | |
797 else | |
798 { | |
799 // New patient, study and series: Nothing exists | |
800 isNewPatient = true; | |
801 isNewStudy = true; | |
802 isNewSeries = true; | |
803 } | |
804 } | |
805 | |
806 // Create the series if needed | |
807 if (isNewSeries) | |
808 { | |
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809 series = CreateResource(instanceToStore.GetHasher().HashSeries(), ResourceType_Series); |
2120 | 810 ServerToolbox::StoreMainDicomTags(db_, series, ResourceType_Series, dicomSummary); |
432 | 811 } |
202 | 812 |
432 | 813 // Create the study if needed |
814 if (isNewStudy) | |
815 { | |
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816 study = CreateResource(instanceToStore.GetHasher().HashStudy(), ResourceType_Study); |
2120 | 817 ServerToolbox::StoreMainDicomTags(db_, study, ResourceType_Study, dicomSummary); |
432 | 818 } |
819 | |
820 // Create the patient if needed | |
821 if (isNewPatient) | |
822 { | |
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823 patient = CreateResource(instanceToStore.GetHasher().HashPatient(), ResourceType_Patient); |
2120 | 824 ServerToolbox::StoreMainDicomTags(db_, patient, ResourceType_Patient, dicomSummary); |
432 | 825 } |
202 | 826 |
432 | 827 // Create the parent-to-child links |
1247 | 828 db_.AttachChild(series, instance); |
432 | 829 |
830 if (isNewSeries) | |
831 { | |
1247 | 832 db_.AttachChild(study, series); |
0 | 833 } |
432 | 834 |
835 if (isNewStudy) | |
0 | 836 { |
1247 | 837 db_.AttachChild(patient, study); |
0 | 838 } |
839 | |
432 | 840 // Sanity checks |
841 assert(patient != -1); | |
842 assert(study != -1); | |
843 assert(series != -1); | |
844 assert(instance != -1); | |
845 | |
202 | 846 // Attach the files to the newly created instance |
232
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847 for (Attachments::const_iterator it = attachments.begin(); |
656 | 848 it != attachments.end(); ++it) |
232
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849 { |
1247 | 850 db_.AddAttachment(instance, *it); |
232
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851 } |
202 | 852 |
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853 // Attach the user-specified metadata |
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854 for (MetadataMap::const_iterator |
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855 it = metadata.begin(); it != metadata.end(); ++it) |
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856 { |
1006
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857 switch (it->first.first) |
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858 { |
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859 case ResourceType_Patient: |
1247 | 860 db_.SetMetadata(patient, it->first.second, it->second); |
1006
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861 break; |
1002
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862 |
1006
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863 case ResourceType_Study: |
1247 | 864 db_.SetMetadata(study, it->first.second, it->second); |
1006
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865 break; |
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866 |
1006
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867 case ResourceType_Series: |
1247 | 868 db_.SetMetadata(series, it->first.second, it->second); |
1006
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869 break; |
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870 |
1006
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871 case ResourceType_Instance: |
2188 | 872 SetInstanceMetadata(instanceMetadata, instance, it->first.second, it->second); |
1006
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873 break; |
1002
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874 |
1006
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875 default: |
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876 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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877 } |
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878 } |
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879 |
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880 // Attach the auto-computed metadata for the patient/study/series levels |
2475
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diff
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|
881 std::string now = SystemToolbox::GetNowIsoString(true /* use UTC time (not local time) */); |
1247 | 882 db_.SetMetadata(series, MetadataType_LastUpdate, now); |
883 db_.SetMetadata(study, MetadataType_LastUpdate, now); | |
884 db_.SetMetadata(patient, MetadataType_LastUpdate, now); | |
1004
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885 |
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886 // Attach the auto-computed metadata for the instance level, |
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|
887 // reflecting these additions into the input metadata map |
2188 | 888 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_ReceptionDate, now); |
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889 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_RemoteAet, |
2664
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890 instanceToStore.GetOrigin().GetRemoteAetC()); |
2189
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diff
changeset
|
891 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_Origin, |
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892 EnumerationToString(instanceToStore.GetOrigin().GetRequestOrigin())); |
2726
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|
893 |
1823
0ef4e6e66b56
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|
894 { |
2189
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diff
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|
895 std::string s; |
2726
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896 |
2189
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diff
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|
897 if (instanceToStore.LookupTransferSyntax(s)) |
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|
898 { |
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899 // New in Orthanc 1.2.0 |
2189
c4b3259c8bce
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diff
changeset
|
900 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_TransferSyntax, s); |
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|
901 } |
2726
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changeset
|
902 |
46061a91c88a
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diff
changeset
|
903 if (instanceToStore.GetOrigin().LookupRemoteIp(s)) |
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904 { |
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|
905 // New in Orthanc 1.4.0 |
46061a91c88a
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changeset
|
906 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_RemoteIp, s); |
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907 } |
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changeset
|
908 |
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diff
changeset
|
909 if (instanceToStore.GetOrigin().LookupCalledAet(s)) |
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|
910 { |
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|
911 // New in Orthanc 1.4.0 |
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diff
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|
912 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_CalledAet, s); |
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|
913 } |
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diff
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|
914 |
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changeset
|
915 if (instanceToStore.GetOrigin().LookupHttpUsername(s)) |
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|
916 { |
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917 // New in Orthanc 1.4.0 |
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|
918 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_HttpUsername, s); |
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|
919 } |
1823
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|
920 } |
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|
921 |
202 | 922 const DicomValue* value; |
2208
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diff
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|
923 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_SOP_CLASS_UID)) != NULL && |
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|
924 !value->IsNull() && |
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|
925 !value->IsBinary()) |
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926 { |
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changeset
|
927 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_SopClassUid, value->GetContent()); |
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|
928 } |
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929 |
202 | 930 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || |
931 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 932 { |
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changeset
|
933 if (!value->IsNull() && |
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diff
changeset
|
934 !value->IsBinary()) |
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|
935 { |
2188 | 936 SetInstanceMetadata(instanceMetadata, instance, MetadataType_Instance_IndexInSeries, value->GetContent()); |
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|
937 } |
0 | 938 } |
939 | |
1004
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changeset
|
940 // Check whether the series of this new instance is now completed |
202 | 941 if (isNewSeries) |
942 { | |
1247 | 943 ComputeExpectedNumberOfInstances(db_, series, dicomSummary); |
202 | 944 } |
945 | |
205
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946 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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947 if (seriesStatus == SeriesStatus_Complete) |
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948 { |
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949 LogChange(series, ChangeType_CompletedSeries, ResourceType_Series, instanceToStore.GetHasher().HashSeries()); |
205
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950 } |
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951 |
511
3b735fdf320b
monitoring of stable patients/studies/series
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diff
changeset
|
952 // Mark the parent resources of this instance as unstable |
2898
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diff
changeset
|
953 MarkAsUnstable(series, ResourceType_Series, instanceToStore.GetHasher().HashSeries()); |
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DicomInstanceToStore::GetHasher()
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changeset
|
954 MarkAsUnstable(study, ResourceType_Study, instanceToStore.GetHasher().HashStudy()); |
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DicomInstanceToStore::GetHasher()
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955 MarkAsUnstable(patient, ResourceType_Patient, instanceToStore.GetHasher().HashPatient()); |
511
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956 |
278
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957 t.Commit(instanceSize); |
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958 |
0 | 959 return StoreStatus_Success; |
960 } | |
62 | 961 catch (OrthancException& e) |
0 | 962 { |
1247 | 963 LOG(ERROR) << "EXCEPTION [" << e.What() << "]"; |
0 | 964 } |
965 | |
966 return StoreStatus_Failure; | |
967 } | |
968 | |
969 | |
238 | 970 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 971 { |
206
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972 boost::mutex::scoped_lock lock(mutex_); |
238 | 973 target = Json::objectValue; |
0 | 974 |
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975 uint64_t cs = db_.GetTotalCompressedSize(); |
1247 | 976 uint64_t us = db_.GetTotalUncompressedSize(); |
440
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977 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 978 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
1310
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979 target["TotalDiskSizeMB"] = static_cast<unsigned int>(cs / MEGA_BYTES); |
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980 target["TotalUncompressedSizeMB"] = static_cast<unsigned int>(us / MEGA_BYTES); |
238 | 981 |
1247 | 982 target["CountPatients"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Patient)); |
983 target["CountStudies"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Study)); | |
984 target["CountSeries"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Series)); | |
985 target["CountInstances"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Instance)); | |
238 | 986 } |
987 | |
187
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988 |
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989 |
585 | 990 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 991 { |
992 // Get the expected number of instances in this series (from the metadata) | |
1238 | 993 int64_t expected; |
994 if (!GetMetadataAsInteger(expected, id, MetadataType_Series_ExpectedNumberOfInstances)) | |
199 | 995 { |
996 return SeriesStatus_Unknown; | |
997 } | |
998 | |
999 // Loop over the instances of this series | |
1000 std::list<int64_t> children; | |
1247 | 1001 db_.GetChildrenInternalId(children, id); |
199 | 1002 |
1238 | 1003 std::set<int64_t> instances; |
199 | 1004 for (std::list<int64_t>::const_iterator |
656 | 1005 it = children.begin(); it != children.end(); ++it) |
199 | 1006 { |
1007 // Get the index of this instance in the series | |
1238 | 1008 int64_t index; |
1009 if (!GetMetadataAsInteger(index, *it, MetadataType_Instance_IndexInSeries)) | |
199 | 1010 { |
1011 return SeriesStatus_Unknown; | |
1012 } | |
1013 | |
656 | 1014 if (!(index > 0 && index <= expected)) |
199 | 1015 { |
1016 // Out-of-range instance index | |
1017 return SeriesStatus_Inconsistent; | |
1018 } | |
1019 | |
1020 if (instances.find(index) != instances.end()) | |
1021 { | |
1022 // Twice the same instance index | |
1023 return SeriesStatus_Inconsistent; | |
1024 } | |
1025 | |
1026 instances.insert(index); | |
1027 } | |
1028 | |
1238 | 1029 if (static_cast<int64_t>(instances.size()) == expected) |
199 | 1030 { |
1031 return SeriesStatus_Complete; | |
1032 } | |
1033 else | |
1034 { | |
1035 return SeriesStatus_Missing; | |
1036 } | |
1037 } | |
1038 | |
1039 | |
202 | 1040 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
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1041 int64_t resourceId, |
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1042 ResourceType resourceType) |
198
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1043 { |
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1044 DicomMap tags; |
1247 | 1045 db_.GetMainDicomTags(tags, resourceId); |
1676
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1046 |
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1047 if (resourceType == ResourceType_Study) |
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1048 { |
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|
1049 DicomMap t1, t2; |
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|
1050 tags.ExtractStudyInformation(t1); |
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1051 tags.ExtractPatientInformation(t2); |
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1052 |
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1053 target["MainDicomTags"] = Json::objectValue; |
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|
1054 FromDcmtkBridge::ToJson(target["MainDicomTags"], t1, true); |
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|
1055 |
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1056 target["PatientMainDicomTags"] = Json::objectValue; |
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|
1057 FromDcmtkBridge::ToJson(target["PatientMainDicomTags"], t2, true); |
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1058 } |
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|
1059 else |
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|
1060 { |
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|
1061 target["MainDicomTags"] = Json::objectValue; |
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1062 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags, true); |
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1063 } |
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1064 } |
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1065 |
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1066 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 1067 const std::string& publicId, |
1068 ResourceType expectedType) | |
198
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1069 { |
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1070 result = Json::objectValue; |
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1071 |
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1072 boost::mutex::scoped_lock lock(mutex_); |
199 | 1073 |
198
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1074 // Lookup for the requested resource |
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1075 int64_t id; |
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1076 ResourceType type; |
1294 | 1077 if (!db_.LookupResource(id, type, publicId) || |
199 | 1078 type != expectedType) |
198
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1079 { |
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1080 return false; |
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1081 } |
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1082 |
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1083 // Find the parent resource (if it exists) |
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1084 if (type != ResourceType_Patient) |
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1085 { |
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1086 int64_t parentId; |
1247 | 1087 if (!db_.LookupParent(parentId, id)) |
198
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1088 { |
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1089 throw OrthancException(ErrorCode_InternalError); |
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1090 } |
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1091 |
1247 | 1092 std::string parent = db_.GetPublicId(parentId); |
198
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1093 |
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1094 switch (type) |
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1095 { |
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|
1096 case ResourceType_Study: |
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1097 result["ParentPatient"] = parent; |
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1098 break; |
198
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1099 |
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1100 case ResourceType_Series: |
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1101 result["ParentStudy"] = parent; |
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1102 break; |
198
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1103 |
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1104 case ResourceType_Instance: |
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1105 result["ParentSeries"] = parent; |
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1106 break; |
198
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1107 |
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1108 default: |
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1109 throw OrthancException(ErrorCode_InternalError); |
198
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1110 } |
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1111 } |
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1112 |
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1113 // List the children resources |
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1114 std::list<std::string> children; |
1247 | 1115 db_.GetChildrenPublicId(children, id); |
198
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1116 |
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1117 if (type != ResourceType_Instance) |
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1118 { |
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1119 Json::Value c = Json::arrayValue; |
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1120 |
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1121 for (std::list<std::string>::const_iterator |
656 | 1122 it = children.begin(); it != children.end(); ++it) |
198
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1123 { |
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1124 c.append(*it); |
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1125 } |
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1126 |
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1127 switch (type) |
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1128 { |
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1129 case ResourceType_Patient: |
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1130 result["Studies"] = c; |
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1131 break; |
198
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1132 |
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1133 case ResourceType_Study: |
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1134 result["Series"] = c; |
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1135 break; |
198
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1136 |
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1137 case ResourceType_Series: |
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1138 result["Instances"] = c; |
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1139 break; |
198
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diff
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|
1140 |
269
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diff
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|
1141 default: |
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|
1142 throw OrthancException(ErrorCode_InternalError); |
198
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|
1143 } |
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|
1144 } |
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|
1145 |
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diff
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|
1146 // Set the resource type |
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diff
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|
1147 switch (type) |
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diff
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|
1148 { |
269
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diff
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|
1149 case ResourceType_Patient: |
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diff
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|
1150 result["Type"] = "Patient"; |
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diff
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|
1151 break; |
198
663cc6c46d0a
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diff
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|
1152 |
269
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diff
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|
1153 case ResourceType_Study: |
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diff
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|
1154 result["Type"] = "Study"; |
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diff
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|
1155 break; |
199 | 1156 |
269
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diff
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|
1157 case ResourceType_Series: |
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diff
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|
1158 { |
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diff
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|
1159 result["Type"] = "Series"; |
434
ccf3a0a43dac
EnumerationDictionary
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
433
diff
changeset
|
1160 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
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197
diff
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|
1161 |
1238 | 1162 int64_t i; |
1237 | 1163 if (GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
1238 | 1164 result["ExpectedNumberOfInstances"] = static_cast<int>(i); |
269
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diff
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|
1165 else |
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268
diff
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|
1166 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1167 |
269
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268
diff
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|
1168 break; |
200
9c58b2b03cf0
refactoring of read operations
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parents:
199
diff
changeset
|
1169 } |
9c58b2b03cf0
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parents:
199
diff
changeset
|
1170 |
269
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diff
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|
1171 case ResourceType_Instance: |
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diff
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|
1172 { |
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diff
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|
1173 result["Type"] = "Instance"; |
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diff
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|
1174 |
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268
diff
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|
1175 FileInfo attachment; |
1247 | 1176 if (!db_.LookupAttachment(attachment, id, FileContentType_Dicom)) |
269
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diff
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|
1177 { |
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diff
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|
1178 throw OrthancException(ErrorCode_InternalError); |
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diff
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|
1179 } |
200
9c58b2b03cf0
refactoring of read operations
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parents:
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diff
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|
1180 |
269
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diff
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|
1181 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
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268
diff
changeset
|
1182 result["FileUuid"] = attachment.GetUuid(); |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1183 |
1238 | 1184 int64_t i; |
1237 | 1185 if (GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
1238 | 1186 result["IndexInSeries"] = static_cast<int>(i); |
269
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diff
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|
1187 else |
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diff
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|
1188 result["IndexInSeries"] = Json::nullValue; |
198
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diff
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|
1189 |
269
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diff
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|
1190 break; |
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diff
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|
1191 } |
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|
1192 |
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diff
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|
1193 default: |
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268
diff
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|
1194 throw OrthancException(ErrorCode_InternalError); |
198
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197
diff
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|
1195 } |
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|
1196 |
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diff
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|
1197 // Record the remaining information |
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
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parents:
197
diff
changeset
|
1198 result["ID"] = publicId; |
1668
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1199 MainDicomTagsToJson(result, id, type); |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
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197
diff
changeset
|
1200 |
315 | 1201 std::string tmp; |
1202 | |
1247 | 1203 if (db_.LookupMetadata(tmp, id, MetadataType_AnonymizedFrom)) |
1236 | 1204 { |
315 | 1205 result["AnonymizedFrom"] = tmp; |
1236 | 1206 } |
315 | 1207 |
1247 | 1208 if (db_.LookupMetadata(tmp, id, MetadataType_ModifiedFrom)) |
1236 | 1209 { |
315 | 1210 result["ModifiedFrom"] = tmp; |
1236 | 1211 } |
315 | 1212 |
511
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1213 if (type == ResourceType_Patient || |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1214 type == ResourceType_Study || |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1215 type == ResourceType_Series) |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1216 { |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1217 result["IsStable"] = !unstableResources_.Contains(id); |
1148
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1139
diff
changeset
|
1218 |
1247 | 1219 if (db_.LookupMetadata(tmp, id, MetadataType_LastUpdate)) |
1236 | 1220 { |
1148
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1139
diff
changeset
|
1221 result["LastUpdate"] = tmp; |
1236 | 1222 } |
511
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1223 } |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1224 |
198
663cc6c46d0a
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197
diff
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|
1225 return true; |
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197
diff
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|
1226 } |
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before refactoring of ServerIndex::GetXXX
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diff
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|
1227 |
0 | 1228 |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1229 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
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231
diff
changeset
|
1230 const std::string& instanceUuid, |
233 | 1231 FileContentType contentType) |
0 | 1232 { |
206
4453a010d0db
flush to disk thread
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
205
diff
changeset
|
1233 boost::mutex::scoped_lock lock(mutex_); |
0 | 1234 |
193
a1b9d1e1497b
failed attempt to compile with linux standard base
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
192
diff
changeset
|
1235 int64_t id; |
a1b9d1e1497b
failed attempt to compile with linux standard base
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
192
diff
changeset
|
1236 ResourceType type; |
1294 | 1237 if (!db_.LookupResource(id, type, instanceUuid)) |
192
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refactoring getfile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
191
diff
changeset
|
1238 { |
1113
ba5c0908600c
Refactoring of HttpOutput ("Content-Length" header is now always sent)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1102
diff
changeset
|
1239 throw OrthancException(ErrorCode_UnknownResource); |
192
c56dc32266e0
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parents:
191
diff
changeset
|
1240 } |
193
a1b9d1e1497b
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192
diff
changeset
|
1241 |
1247 | 1242 if (db_.LookupAttachment(attachment, id, contentType)) |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
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231
diff
changeset
|
1243 { |
233 | 1244 assert(attachment.GetContentType() == contentType); |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1245 return true; |
5368bbe813cf
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1246 } |
5368bbe813cf
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Sebastien Jodogne <s.jodogne@gmail.com>
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231
diff
changeset
|
1247 else |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1248 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
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231
diff
changeset
|
1249 return false; |
5368bbe813cf
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231
diff
changeset
|
1250 } |
192
c56dc32266e0
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191
diff
changeset
|
1251 } |
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191
diff
changeset
|
1252 |
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191
diff
changeset
|
1253 |
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191
diff
changeset
|
1254 |
1354 | 1255 void ServerIndex::GetAllUuids(std::list<std::string>& target, |
190 | 1256 ResourceType resourceType) |
0 | 1257 { |
1357 | 1258 boost::mutex::scoped_lock lock(mutex_); |
1259 db_.GetAllPublicIds(target, resourceType); | |
0 | 1260 } |
1261 | |
1262 | |
1509
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1486
diff
changeset
|
1263 void ServerIndex::GetAllUuids(std::list<std::string>& target, |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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diff
changeset
|
1264 ResourceType resourceType, |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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1486
diff
changeset
|
1265 size_t since, |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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1486
diff
changeset
|
1266 size_t limit) |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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1486
diff
changeset
|
1267 { |
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limit and since arguments while retrieving DICOM resources in the REST API
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diff
changeset
|
1268 if (limit == 0) |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1486
diff
changeset
|
1269 { |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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1486
diff
changeset
|
1270 target.clear(); |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
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1486
diff
changeset
|
1271 return; |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
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1486
diff
changeset
|
1272 } |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
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1486
diff
changeset
|
1273 |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1486
diff
changeset
|
1274 boost::mutex::scoped_lock lock(mutex_); |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1486
diff
changeset
|
1275 db_.GetAllPublicIds(target, resourceType, since, limit); |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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diff
changeset
|
1276 } |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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diff
changeset
|
1277 |
0586ed8897f1
limit and since arguments while retrieving DICOM resources in the REST API
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diff
changeset
|
1278 |
1244 | 1279 template <typename T> |
1280 static void FormatLog(Json::Value& target, | |
1281 const std::list<T>& log, | |
1282 const std::string& name, | |
1283 bool done, | |
1284 int64_t since) | |
1240 | 1285 { |
1286 Json::Value items = Json::arrayValue; | |
1244 | 1287 for (typename std::list<T>::const_iterator |
1304 | 1288 it = log.begin(); it != log.end(); ++it) |
1240 | 1289 { |
1290 Json::Value item; | |
1291 it->Format(item); | |
1292 items.append(item); | |
1293 } | |
1294 | |
1295 target = Json::objectValue; | |
1244 | 1296 target[name] = items; |
1240 | 1297 target["Done"] = done; |
1298 | |
1305 | 1299 int64_t last = (log.empty() ? since : log.back().GetSeq()); |
1240 | 1300 target["Last"] = static_cast<int>(last); |
1301 } | |
1302 | |
1303 | |
1247 | 1304 void ServerIndex::GetChanges(Json::Value& target, |
204 | 1305 int64_t since, |
0 | 1306 unsigned int maxResults) |
1307 { | |
1240 | 1308 std::list<ServerIndexChange> changes; |
1309 bool done; | |
1310 | |
1311 { | |
1312 boost::mutex::scoped_lock lock(mutex_); | |
2717
d33659c28c6b
fix missing transaction
Sebastien Jodogne <s.jodogne@gmail.com>
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2668
diff
changeset
|
1313 |
d33659c28c6b
fix missing transaction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2668
diff
changeset
|
1314 // Fix wrt. Orthanc <= 1.3.2: A transaction was missing, as |
d33659c28c6b
fix missing transaction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2668
diff
changeset
|
1315 // "GetLastChange()" involves calls to "GetPublicId()" |
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1316 Transaction transaction(*this); |
1247 | 1317 db_.GetChanges(changes, done, since, maxResults); |
2717
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1318 transaction.Commit(0); |
1240 | 1319 } |
1320 | |
1244 | 1321 FormatLog(target, changes, "Changes", done, since); |
237
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1322 } |
0 | 1323 |
1240 | 1324 |
1247 | 1325 void ServerIndex::GetLastChange(Json::Value& target) |
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1326 { |
1240 | 1327 std::list<ServerIndexChange> changes; |
1328 | |
1329 { | |
1330 boost::mutex::scoped_lock lock(mutex_); | |
2717
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1331 |
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1332 // Fix wrt. Orthanc <= 1.3.2: A transaction was missing, as |
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1333 // "GetLastChange()" involves calls to "GetPublicId()" |
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1334 Transaction transaction(*this); |
1247 | 1335 db_.GetLastChange(changes); |
2717
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1336 transaction.Commit(0); |
1240 | 1337 } |
1338 | |
1244 | 1339 FormatLog(target, changes, "Changes", true, 0); |
0 | 1340 } |
231 | 1341 |
1240 | 1342 |
231 | 1343 void ServerIndex::LogExportedResource(const std::string& publicId, |
1344 const std::string& remoteModality) | |
1345 { | |
1346 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1347 Transaction transaction(*this); |
231 | 1348 |
1349 int64_t id; | |
1350 ResourceType type; | |
1294 | 1351 if (!db_.LookupResource(id, type, publicId)) |
231 | 1352 { |
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1353 throw OrthancException(ErrorCode_InexistentItem); |
231 | 1354 } |
1355 | |
1356 std::string patientId; | |
1357 std::string studyInstanceUid; | |
1358 std::string seriesInstanceUid; | |
1359 std::string sopInstanceUid; | |
1360 | |
1361 int64_t currentId = id; | |
1362 ResourceType currentType = type; | |
1363 | |
1364 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1365 bool done = false; | |
1366 while (!done) | |
1367 { | |
1368 DicomMap map; | |
1247 | 1369 db_.GetMainDicomTags(map, currentId); |
231 | 1370 |
1371 switch (currentType) | |
1372 { | |
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1373 case ResourceType_Patient: |
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1374 if (map.HasTag(DICOM_TAG_PATIENT_ID)) |
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1375 { |
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1376 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).GetContent(); |
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1377 } |
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1378 done = true; |
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1379 break; |
231 | 1380 |
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1381 case ResourceType_Study: |
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1382 if (map.HasTag(DICOM_TAG_STUDY_INSTANCE_UID)) |
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1383 { |
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1384 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).GetContent(); |
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1385 } |
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1386 currentType = ResourceType_Patient; |
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1387 break; |
231 | 1388 |
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1389 case ResourceType_Series: |
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1390 if (map.HasTag(DICOM_TAG_SERIES_INSTANCE_UID)) |
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1391 { |
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1392 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).GetContent(); |
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1393 } |
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1394 currentType = ResourceType_Study; |
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1395 break; |
231 | 1396 |
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1397 case ResourceType_Instance: |
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1398 if (map.HasTag(DICOM_TAG_SOP_INSTANCE_UID)) |
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1399 { |
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1400 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).GetContent(); |
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1401 } |
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1402 currentType = ResourceType_Series; |
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1403 break; |
231 | 1404 |
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1405 default: |
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1406 throw OrthancException(ErrorCode_InternalError); |
231 | 1407 } |
1408 | |
1409 // If we have not reached the Patient level, find the parent of | |
1410 // the current resource | |
1411 if (!done) | |
1412 { | |
1247 | 1413 bool ok = db_.LookupParent(currentId, currentId); |
375
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1414 assert(ok); |
231 | 1415 } |
1416 } | |
1417 | |
1246 | 1418 ExportedResource resource(-1, |
1419 type, | |
1420 publicId, | |
1421 remoteModality, | |
2475
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|
1422 SystemToolbox::GetNowIsoString(true /* use UTC time (not local time) */), |
1246 | 1423 patientId, |
1424 studyInstanceUid, | |
1425 seriesInstanceUid, | |
1426 sopInstanceUid); | |
1310
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1427 |
1247 | 1428 db_.LogExportedResource(resource); |
1310
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|
1429 transaction.Commit(0); |
231 | 1430 } |
1431 | |
1432 | |
1247 | 1433 void ServerIndex::GetExportedResources(Json::Value& target, |
231 | 1434 int64_t since, |
1435 unsigned int maxResults) | |
1436 { | |
1244 | 1437 std::list<ExportedResource> exported; |
1438 bool done; | |
1439 | |
1440 { | |
1441 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1442 db_.GetExportedResources(exported, done, since, maxResults); |
1244 | 1443 } |
1444 | |
1445 FormatLog(target, exported, "Exports", done, since); | |
231 | 1446 } |
237
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1447 |
1244 | 1448 |
1247 | 1449 void ServerIndex::GetLastExportedResource(Json::Value& target) |
237
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1450 { |
1244 | 1451 std::list<ExportedResource> exported; |
1452 | |
1453 { | |
1454 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1455 db_.GetLastExportedResource(exported); |
1244 | 1456 } |
1457 | |
1458 FormatLog(target, exported, "Exports", true, 0); | |
237
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1459 } |
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1460 |
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1461 |
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1462 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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1463 { |
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1464 if (maximumStorageSize_ != 0) |
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1465 { |
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|
1466 assert(maximumStorageSize_ >= instanceSize); |
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1467 |
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1468 if (db_.IsDiskSizeAbove(maximumStorageSize_ - instanceSize)) |
269
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1469 { |
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1470 return true; |
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1471 } |
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1472 } |
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1473 |
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1474 if (maximumPatients_ != 0) |
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1475 { |
1247 | 1476 uint64_t patientCount = db_.GetResourceCount(ResourceType_Patient); |
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1477 if (patientCount > maximumPatients_) |
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1478 { |
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1479 return true; |
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1480 } |
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1481 } |
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1482 |
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1483 return false; |
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1484 } |
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1485 |
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1486 |
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1487 void ServerIndex::Recycle(uint64_t instanceSize, |
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1488 const std::string& newPatientId) |
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1489 { |
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1490 if (!IsRecyclingNeeded(instanceSize)) |
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1491 { |
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1492 return; |
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1493 } |
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1494 |
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1495 // Check whether other DICOM instances from this patient are |
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1496 // already stored |
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1497 int64_t patientToAvoid; |
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1498 ResourceType type; |
1294 | 1499 bool hasPatientToAvoid = db_.LookupResource(patientToAvoid, type, newPatientId); |
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1500 |
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1501 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1502 { |
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1503 throw OrthancException(ErrorCode_InternalError); |
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1504 } |
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1505 |
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1506 // Iteratively select patient to remove until there is enough |
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1507 // space in the DICOM store |
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1508 int64_t patientToRecycle; |
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1509 while (true) |
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1510 { |
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1511 // If other instances of this patient are already in the store, |
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1512 // we must avoid to recycle them |
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1513 bool ok = hasPatientToAvoid ? |
1247 | 1514 db_.SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
1515 db_.SelectPatientToRecycle(patientToRecycle); | |
269
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1516 |
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1517 if (!ok) |
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1518 { |
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1519 throw OrthancException(ErrorCode_FullStorage); |
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1520 } |
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1521 |
1331
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Prevent freeze on C-FIND if no DICOM tag is to be returned
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1522 VLOG(1) << "Recycling one patient"; |
1247 | 1523 db_.DeleteResource(patientToRecycle); |
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1524 |
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1525 if (!IsRecyclingNeeded(instanceSize)) |
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1526 { |
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1527 // OK, we're done |
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1528 break; |
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1529 } |
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1530 } |
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1531 } |
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1532 |
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1533 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1534 { |
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1535 boost::mutex::scoped_lock lock(mutex_); |
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1536 maximumPatients_ = count; |
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1537 |
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1538 if (count == 0) |
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1539 { |
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1540 LOG(WARNING) << "No limit on the number of stored patients"; |
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1541 } |
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1542 else |
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1543 { |
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1544 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1545 } |
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1546 |
269
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1547 StandaloneRecycling(); |
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1548 } |
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1549 |
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1550 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1551 { |
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1552 boost::mutex::scoped_lock lock(mutex_); |
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1553 maximumStorageSize_ = size; |
270
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1554 |
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1555 if (size == 0) |
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1556 { |
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1557 LOG(WARNING) << "No limit on the size of the storage area"; |
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1558 } |
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|
1559 else |
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|
1560 { |
440
23e5b35e3c5c
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diff
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|
1561 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
270
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1562 } |
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|
1563 |
269
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|
1564 StandaloneRecycling(); |
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1565 } |
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1566 |
2825
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diff
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|
1567 void ServerIndex::SetOverwriteInstances(bool overwrite) |
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diff
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|
1568 { |
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2726
diff
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|
1569 boost::mutex::scoped_lock lock(mutex_); |
8aa6aef11b70
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diff
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|
1570 overwrite_ = overwrite; |
8aa6aef11b70
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2726
diff
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|
1571 } |
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2726
diff
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|
1572 |
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New configuration option "OverwriteInstances" to choose how duplicate SOPInstanceUID are handled
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|
1573 |
272
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|
1574 void ServerIndex::StandaloneRecycling() |
269
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1575 { |
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1576 // WARNING: No mutex here, do not include this as a public method |
278
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|
1577 Transaction t(*this); |
269
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|
1578 Recycle(0, ""); |
278
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|
1579 t.Commit(0); |
269
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1580 } |
272
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|
1581 |
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|
1582 |
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|
1583 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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|
1584 { |
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|
1585 boost::mutex::scoped_lock lock(mutex_); |
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|
1586 |
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|
1587 // Lookup for the requested resource |
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1588 int64_t id; |
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1589 ResourceType type; |
1294 | 1590 if (!db_.LookupResource(id, type, publicId) || |
272
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|
1591 type != ResourceType_Patient) |
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diff
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|
1592 { |
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|
1593 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1594 } |
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1595 |
1247 | 1596 return db_.IsProtectedPatient(id); |
272
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1597 } |
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diff
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|
1598 |
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diff
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|
1599 |
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|
1600 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1601 bool isProtected) |
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|
1602 { |
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|
1603 boost::mutex::scoped_lock lock(mutex_); |
1310
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|
1604 Transaction transaction(*this); |
272
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1605 |
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1606 // Lookup for the requested resource |
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1607 int64_t id; |
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1608 ResourceType type; |
1294 | 1609 if (!db_.LookupResource(id, type, publicId) || |
272
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1610 type != ResourceType_Patient) |
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1611 { |
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1612 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1613 } |
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1614 |
1247 | 1615 db_.SetProtectedPatient(id, isProtected); |
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1616 transaction.Commit(0); |
272
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1617 |
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1618 if (isProtected) |
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1619 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1620 else |
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1621 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1622 } |
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1623 |
304 | 1624 |
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|
1625 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1626 const std::string& publicId) |
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1627 { |
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1628 result.clear(); |
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1629 |
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|
1630 boost::mutex::scoped_lock lock(mutex_); |
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1631 |
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|
1632 ResourceType type; |
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|
1633 int64_t resource; |
1294 | 1634 if (!db_.LookupResource(resource, type, publicId)) |
714
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|
1635 { |
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|
1636 throw OrthancException(ErrorCode_UnknownResource); |
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1637 } |
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|
1638 |
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|
1639 if (type == ResourceType_Instance) |
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|
1640 { |
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1641 // An instance cannot have a child |
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1642 throw OrthancException(ErrorCode_BadParameterType); |
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1643 } |
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1644 |
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1645 std::list<int64_t> tmp; |
1247 | 1646 db_.GetChildrenInternalId(tmp, resource); |
714
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1647 |
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1648 for (std::list<int64_t>::const_iterator |
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1649 it = tmp.begin(); it != tmp.end(); ++it) |
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1650 { |
1247 | 1651 result.push_back(db_.GetPublicId(*it)); |
714
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1652 } |
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1653 } |
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1654 |
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1655 |
304 | 1656 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1657 const std::string& publicId) | |
1658 { | |
1659 result.clear(); | |
1660 | |
1661 boost::mutex::scoped_lock lock(mutex_); | |
1662 | |
1663 ResourceType type; | |
1664 int64_t top; | |
1294 | 1665 if (!db_.LookupResource(top, type, publicId)) |
304 | 1666 { |
1667 throw OrthancException(ErrorCode_UnknownResource); | |
1668 } | |
1669 | |
1670 if (type == ResourceType_Instance) | |
1671 { | |
1672 // The resource is already an instance: Do not go down the hierarchy | |
1673 result.push_back(publicId); | |
1674 return; | |
1675 } | |
1676 | |
1677 std::stack<int64_t> toExplore; | |
1678 toExplore.push(top); | |
1679 | |
1680 std::list<int64_t> tmp; | |
1681 | |
1682 while (!toExplore.empty()) | |
1683 { | |
1684 // Get the internal ID of the current resource | |
1685 int64_t resource = toExplore.top(); | |
1686 toExplore.pop(); | |
1687 | |
1247 | 1688 if (db_.GetResourceType(resource) == ResourceType_Instance) |
304 | 1689 { |
1247 | 1690 result.push_back(db_.GetPublicId(resource)); |
304 | 1691 } |
1692 else | |
1693 { | |
1694 // Tag all the children of this resource as to be explored | |
1247 | 1695 db_.GetChildrenInternalId(tmp, resource); |
304 | 1696 for (std::list<int64_t>::const_iterator |
656 | 1697 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1698 { |
1699 toExplore.push(*it); | |
1700 } | |
1701 } | |
1702 } | |
1703 } | |
1704 | |
306
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1705 |
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1706 void ServerIndex::SetMetadata(const std::string& publicId, |
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1707 MetadataType type, |
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1708 const std::string& value) |
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1709 { |
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1710 boost::mutex::scoped_lock lock(mutex_); |
1773
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1711 Transaction t(*this); |
306
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1712 |
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1713 ResourceType rtype; |
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1714 int64_t id; |
1294 | 1715 if (!db_.LookupResource(id, rtype, publicId)) |
306
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1716 { |
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1717 throw OrthancException(ErrorCode_UnknownResource); |
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1718 } |
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1719 |
1247 | 1720 db_.SetMetadata(id, type, value); |
1773
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1721 |
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1722 if (IsUserMetadata(type)) |
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1723 { |
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1724 LogChange(id, ChangeType_UpdatedMetadata, rtype, publicId); |
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1725 } |
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1726 |
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1727 t.Commit(0); |
306
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1728 } |
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1729 |
438 | 1730 |
1731 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1732 MetadataType type) | |
1733 { | |
1734 boost::mutex::scoped_lock lock(mutex_); | |
1773
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|
1735 Transaction t(*this); |
438 | 1736 |
1737 ResourceType rtype; | |
1738 int64_t id; | |
1294 | 1739 if (!db_.LookupResource(id, rtype, publicId)) |
438 | 1740 { |
1741 throw OrthancException(ErrorCode_UnknownResource); | |
1742 } | |
1743 | |
1247 | 1744 db_.DeleteMetadata(id, type); |
1773
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|
1745 |
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|
1746 if (IsUserMetadata(type)) |
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|
1747 { |
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|
1748 LogChange(id, ChangeType_UpdatedMetadata, rtype, publicId); |
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|
1749 } |
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|
1750 |
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|
1751 t.Commit(0); |
438 | 1752 } |
1753 | |
1754 | |
306
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|
1755 bool ServerIndex::LookupMetadata(std::string& target, |
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1756 const std::string& publicId, |
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1757 MetadataType type) |
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1758 { |
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1759 boost::mutex::scoped_lock lock(mutex_); |
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1760 |
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|
1761 ResourceType rtype; |
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1762 int64_t id; |
1294 | 1763 if (!db_.LookupResource(id, rtype, publicId)) |
306
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|
1764 { |
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1765 throw OrthancException(ErrorCode_UnknownResource); |
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1766 } |
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1767 |
1247 | 1768 return db_.LookupMetadata(target, id, type); |
306
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1769 } |
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|
1770 |
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1771 |
739 | 1772 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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|
1773 const std::string& publicId) |
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|
1774 { |
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1775 boost::mutex::scoped_lock lock(mutex_); |
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|
1776 |
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|
1777 ResourceType rtype; |
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|
1778 int64_t id; |
1294 | 1779 if (!db_.LookupResource(id, rtype, publicId)) |
436
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diff
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|
1780 { |
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diff
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|
1781 throw OrthancException(ErrorCode_UnknownResource); |
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diff
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|
1782 } |
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diff
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|
1783 |
1247 | 1784 db_.ListAvailableMetadata(target, id); |
436
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|
1785 } |
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|
1786 |
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diff
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|
1787 |
697
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|
1788 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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diff
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|
1789 const std::string& publicId, |
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diff
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|
1790 ResourceType expectedType) |
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diff
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|
1791 { |
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diff
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|
1792 boost::mutex::scoped_lock lock(mutex_); |
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diff
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|
1793 |
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|
1794 ResourceType type; |
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|
1795 int64_t id; |
1294 | 1796 if (!db_.LookupResource(id, type, publicId) || |
697
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|
1797 expectedType != type) |
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|
1798 { |
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|
1799 throw OrthancException(ErrorCode_UnknownResource); |
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1800 } |
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1801 |
1247 | 1802 db_.ListAvailableAttachments(target, id); |
697
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1803 } |
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1804 |
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1805 |
306
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1806 bool ServerIndex::LookupParent(std::string& target, |
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1807 const std::string& publicId) |
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1808 { |
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1809 boost::mutex::scoped_lock lock(mutex_); |
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1810 |
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1811 ResourceType type; |
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1812 int64_t id; |
1294 | 1813 if (!db_.LookupResource(id, type, publicId)) |
306
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1814 { |
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1815 throw OrthancException(ErrorCode_UnknownResource); |
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1816 } |
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1817 |
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1818 int64_t parentId; |
1247 | 1819 if (db_.LookupParent(parentId, id)) |
306
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1820 { |
1247 | 1821 target = db_.GetPublicId(parentId); |
306
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1822 return true; |
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1823 } |
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1824 else |
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1825 { |
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1826 return false; |
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1827 } |
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1828 } |
310 | 1829 |
1830 | |
1831 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1832 { | |
1833 boost::mutex::scoped_lock lock(mutex_); | |
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1834 Transaction transaction(*this); |
311 | 1835 |
1237 | 1836 uint64_t seq = IncrementGlobalSequenceInternal(sequence); |
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1837 transaction.Commit(0); |
311 | 1838 |
1839 return seq; | |
310 | 1840 } |
315 | 1841 |
1842 | |
1843 | |
1844 void ServerIndex::LogChange(ChangeType changeType, | |
1845 const std::string& publicId) | |
1846 { | |
1847 boost::mutex::scoped_lock lock(mutex_); | |
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1848 Transaction transaction(*this); |
315 | 1849 |
1850 int64_t id; | |
1851 ResourceType type; | |
1294 | 1852 if (!db_.LookupResource(id, type, publicId)) |
315 | 1853 { |
1854 throw OrthancException(ErrorCode_UnknownResource); | |
1855 } | |
1856 | |
1237 | 1857 LogChange(id, changeType, type, publicId); |
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1858 transaction.Commit(0); |
315 | 1859 } |
413
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1860 |
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1861 |
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1862 void ServerIndex::DeleteChanges() |
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1863 { |
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1864 boost::mutex::scoped_lock lock(mutex_); |
1286 | 1865 db_.ClearChanges(); |
413
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1866 } |
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1867 |
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1868 void ServerIndex::DeleteExportedResources() |
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1869 { |
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1870 boost::mutex::scoped_lock lock(mutex_); |
1286 | 1871 db_.ClearExportedResources(); |
413
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1872 } |
440
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1873 |
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1874 |
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1875 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& diskSize, |
646 | 1876 /* out */ uint64_t& uncompressedSize, |
1877 /* out */ unsigned int& countStudies, | |
1878 /* out */ unsigned int& countSeries, | |
1879 /* out */ unsigned int& countInstances, | |
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1880 /* out */ uint64_t& dicomDiskSize, |
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1881 /* out */ uint64_t& dicomUncompressedSize, |
646 | 1882 /* in */ int64_t id, |
1883 /* in */ ResourceType type) | |
440
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1884 { |
646 | 1885 std::stack<int64_t> toExplore; |
1886 toExplore.push(id); | |
440
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1887 |
646 | 1888 countInstances = 0; |
1889 countSeries = 0; | |
1890 countStudies = 0; | |
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1891 diskSize = 0; |
646 | 1892 uncompressedSize = 0; |
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1893 dicomDiskSize = 0; |
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1894 dicomUncompressedSize = 0; |
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1895 |
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1896 while (!toExplore.empty()) |
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1897 { |
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1898 // Get the internal ID of the current resource |
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1899 int64_t resource = toExplore.top(); |
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1900 toExplore.pop(); |
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1901 |
1247 | 1902 ResourceType thisType = db_.GetResourceType(resource); |
440
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1903 |
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1904 std::list<FileContentType> f; |
1247 | 1905 db_.ListAvailableAttachments(f, resource); |
702
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1906 |
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1907 for (std::list<FileContentType>::const_iterator |
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1908 it = f.begin(); it != f.end(); ++it) |
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1909 { |
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1910 FileInfo attachment; |
1247 | 1911 if (db_.LookupAttachment(attachment, resource, *it)) |
702
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1912 { |
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1913 if (attachment.GetContentType() == FileContentType_Dicom) |
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1914 { |
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1915 dicomDiskSize += attachment.GetCompressedSize(); |
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1916 dicomUncompressedSize += attachment.GetUncompressedSize(); |
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1917 } |
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1918 |
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1919 diskSize += attachment.GetCompressedSize(); |
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1920 uncompressedSize += attachment.GetUncompressedSize(); |
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1921 } |
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1922 } |
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1923 |
440
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1924 if (thisType == ResourceType_Instance) |
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1925 { |
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1926 countInstances++; |
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1927 } |
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1928 else |
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1929 { |
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1930 switch (thisType) |
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1931 { |
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1932 case ResourceType_Study: |
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1933 countStudies++; |
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1934 break; |
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1935 |
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1936 case ResourceType_Series: |
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1937 countSeries++; |
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1938 break; |
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1939 |
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1940 default: |
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1941 break; |
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1942 } |
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1943 |
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1944 // Tag all the children of this resource as to be explored |
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1945 std::list<int64_t> tmp; |
1247 | 1946 db_.GetChildrenInternalId(tmp, resource); |
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1947 for (std::list<int64_t>::const_iterator |
656 | 1948 it = tmp.begin(); it != tmp.end(); ++it) |
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1949 { |
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1950 toExplore.push(*it); |
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1951 } |
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1952 } |
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1953 } |
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1954 |
646 | 1955 if (countStudies == 0) |
1956 { | |
1957 countStudies = 1; | |
1958 } | |
1959 | |
1960 if (countSeries == 0) | |
1961 { | |
1962 countSeries = 1; | |
1963 } | |
1964 } | |
1965 | |
1966 | |
1967 | |
1968 void ServerIndex::GetStatistics(Json::Value& target, | |
1969 const std::string& publicId) | |
1970 { | |
1971 boost::mutex::scoped_lock lock(mutex_); | |
1972 | |
1973 ResourceType type; | |
1974 int64_t top; | |
1294 | 1975 if (!db_.LookupResource(top, type, publicId)) |
646 | 1976 { |
1977 throw OrthancException(ErrorCode_UnknownResource); | |
1978 } | |
1979 | |
1980 uint64_t uncompressedSize; | |
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1981 uint64_t diskSize; |
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1982 uint64_t dicomUncompressedSize; |
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1983 uint64_t dicomDiskSize; |
646 | 1984 unsigned int countStudies; |
1985 unsigned int countSeries; | |
1986 unsigned int countInstances; | |
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1987 GetStatisticsInternal(diskSize, uncompressedSize, countStudies, |
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1988 countSeries, countInstances, dicomDiskSize, dicomUncompressedSize, top, type); |
646 | 1989 |
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1990 target = Json::objectValue; |
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1991 target["DiskSize"] = boost::lexical_cast<std::string>(diskSize); |
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1992 target["DiskSizeMB"] = static_cast<unsigned int>(diskSize / MEGA_BYTES); |
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1993 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
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1994 target["UncompressedSizeMB"] = static_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
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1995 |
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1996 target["DicomDiskSize"] = boost::lexical_cast<std::string>(dicomDiskSize); |
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1997 target["DicomDiskSizeMB"] = static_cast<unsigned int>(dicomDiskSize / MEGA_BYTES); |
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1998 target["DicomUncompressedSize"] = boost::lexical_cast<std::string>(dicomUncompressedSize); |
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1999 target["DicomUncompressedSizeMB"] = static_cast<unsigned int>(dicomUncompressedSize / MEGA_BYTES); |
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2000 |
440
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2001 switch (type) |
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2002 { |
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2003 // Do NOT add "break" below this point! |
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2004 case ResourceType_Patient: |
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2005 target["CountStudies"] = countStudies; |
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2006 |
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2007 case ResourceType_Study: |
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2008 target["CountSeries"] = countSeries; |
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2009 |
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2010 case ResourceType_Series: |
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2011 target["CountInstances"] = countInstances; |
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2012 |
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2013 case ResourceType_Instance: |
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2014 default: |
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2015 break; |
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2016 } |
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2017 } |
511
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2018 |
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2019 |
2987
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2020 void ServerIndex::GetStatistics(/* out */ uint64_t& diskSize, |
646 | 2021 /* out */ uint64_t& uncompressedSize, |
2022 /* out */ unsigned int& countStudies, | |
2023 /* out */ unsigned int& countSeries, | |
2024 /* out */ unsigned int& countInstances, | |
2987
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2025 /* out */ uint64_t& dicomDiskSize, |
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2026 /* out */ uint64_t& dicomUncompressedSize, |
646 | 2027 const std::string& publicId) |
2028 { | |
2029 boost::mutex::scoped_lock lock(mutex_); | |
2030 | |
2031 ResourceType type; | |
2032 int64_t top; | |
1294 | 2033 if (!db_.LookupResource(top, type, publicId)) |
646 | 2034 { |
2035 throw OrthancException(ErrorCode_UnknownResource); | |
2036 } | |
2037 | |
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2038 GetStatisticsInternal(diskSize, uncompressedSize, countStudies, |
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2039 countSeries, countInstances, dicomDiskSize, |
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2040 dicomUncompressedSize, top, type); |
646 | 2041 } |
2042 | |
2043 | |
2665
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2044 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that, |
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2045 unsigned int threadSleep) |
511
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2046 { |
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2047 int stableAge; |
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2048 |
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2049 { |
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2050 OrthancConfiguration::ReaderLock lock; |
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2051 stableAge = lock.GetConfiguration().GetUnsignedIntegerParameter("StableAge", 60); |
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2052 } |
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2053 |
511
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2054 if (stableAge <= 0) |
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2055 { |
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2056 stableAge = 60; |
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2057 } |
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2058 |
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2059 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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2060 |
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2061 while (!that->done_) |
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2062 { |
2665
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2063 // Check for stable resources each few seconds |
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2064 boost::this_thread::sleep(boost::posix_time::milliseconds(threadSleep)); |
511
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2065 |
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2066 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 2067 |
511
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2068 while (!that->unstableResources_.IsEmpty() && |
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2069 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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2070 { |
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2071 // This DICOM resource has not received any new instance for |
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2072 // some time. It can be considered as stable. |
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2073 |
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2074 UnstableResourcePayload payload; |
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2075 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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2076 |
513 | 2077 // Ensure that the resource is still existing before logging the change |
1247 | 2078 if (that->db_.IsExistingResource(id)) |
511
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2079 { |
1177
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2080 switch (payload.GetResourceType()) |
513 | 2081 { |
1177
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2082 case ResourceType_Patient: |
1237 | 2083 that->LogChange(id, ChangeType_StablePatient, ResourceType_Patient, payload.GetPublicId()); |
513 | 2084 break; |
511
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2085 |
1177
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2086 case ResourceType_Study: |
1237 | 2087 that->LogChange(id, ChangeType_StableStudy, ResourceType_Study, payload.GetPublicId()); |
513 | 2088 break; |
511
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2089 |
1177
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2090 case ResourceType_Series: |
1237 | 2091 that->LogChange(id, ChangeType_StableSeries, ResourceType_Series, payload.GetPublicId()); |
513 | 2092 break; |
2093 | |
2094 default: | |
2095 throw OrthancException(ErrorCode_InternalError); | |
2096 } | |
2097 | |
2098 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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2099 } |
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2100 } |
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2101 } |
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2102 |
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2103 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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2104 } |
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2105 |
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2106 |
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2107 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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2108 Orthanc::ResourceType type, |
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2109 const std::string& publicId) |
511
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2110 { |
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2111 // WARNING: Before calling this method, "mutex_" must be locked. |
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2112 |
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2113 assert(type == Orthanc::ResourceType_Patient || |
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2114 type == Orthanc::ResourceType_Study || |
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2115 type == Orthanc::ResourceType_Series); |
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2116 |
1177
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2117 UnstableResourcePayload payload(type, publicId); |
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2118 unstableResources_.AddOrMakeMostRecent(id, payload); |
511
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2119 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
1189
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2120 |
1237 | 2121 LogChange(id, ChangeType_NewChildInstance, type, publicId); |
511
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2122 } |
521 | 2123 |
2124 | |
2125 | |
3034
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|
2126 void ServerIndex::LookupIdentifierExact(std::vector<std::string>& result, |
1728
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|
2127 ResourceType level, |
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2128 const DicomTag& tag, |
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2129 const std::string& value) |
615 | 2130 { |
1727 | 2131 assert((level == ResourceType_Patient && tag == DICOM_TAG_PATIENT_ID) || |
2132 (level == ResourceType_Study && tag == DICOM_TAG_STUDY_INSTANCE_UID) || | |
2133 (level == ResourceType_Study && tag == DICOM_TAG_ACCESSION_NUMBER) || | |
2134 (level == ResourceType_Series && tag == DICOM_TAG_SERIES_INSTANCE_UID) || | |
2135 (level == ResourceType_Instance && tag == DICOM_TAG_SOP_INSTANCE_UID)); | |
1725 | 2136 |
615 | 2137 result.clear(); |
2138 | |
3034
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2139 DicomTagConstraint c(tag, ConstraintType_Equal, value, true, true); |
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2140 |
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|
2141 std::vector<DatabaseConstraint> query; |
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2142 query.push_back(DatabaseConstraint(c, level, DicomTagType_Identifier)); |
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2143 |
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2144 { |
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|
2145 boost::mutex::scoped_lock lock(mutex_); |
3036
8fd203510d8b
moving LookupIdentifierQuery to the graveyard
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3034
diff
changeset
|
2146 db_.ApplyLookupResources(result, NULL, query, level, 0); |
3034
54e422fe31ce
moving LookupResource to graveyard
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3033
diff
changeset
|
2147 } |
615 | 2148 } |
2149 | |
2150 | |
699
2929e17f8447
add attachments to resources
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
2151 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
2929e17f8447
add attachments to resources
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diff
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|
2152 const std::string& publicId) |
2929e17f8447
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diff
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|
2153 { |
2929e17f8447
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diff
changeset
|
2154 boost::mutex::scoped_lock lock(mutex_); |
2929e17f8447
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parents:
697
diff
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|
2155 |
2929e17f8447
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697
diff
changeset
|
2156 Transaction t(*this); |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2157 |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2158 ResourceType resourceType; |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2159 int64_t resourceId; |
1294 | 2160 if (!db_.LookupResource(resourceId, resourceType, publicId)) |
699
2929e17f8447
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697
diff
changeset
|
2161 { |
2929e17f8447
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parents:
697
diff
changeset
|
2162 return StoreStatus_Failure; // Inexistent resource |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2163 } |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2164 |
704
4789da60d655
recycling with custom attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2165 // Remove possible previous attachment |
1247 | 2166 db_.DeleteAttachment(resourceId, attachment.GetContentType()); |
699
2929e17f8447
add attachments to resources
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2167 |
704
4789da60d655
recycling with custom attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2168 // Locate the patient of the target resource |
4789da60d655
recycling with custom attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2169 int64_t patientId = resourceId; |
4789da60d655
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702
diff
changeset
|
2170 for (;;) |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2171 { |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2172 int64_t parent; |
1247 | 2173 if (db_.LookupParent(parent, patientId)) |
704
4789da60d655
recycling with custom attachments
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
2174 { |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2175 // We have not reached the patient level yet |
4789da60d655
recycling with custom attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2176 patientId = parent; |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2177 } |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2178 else |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2179 { |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2180 // We have reached the patient level |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2181 break; |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2182 } |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2183 } |
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2184 |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
702
diff
changeset
|
2185 // Possibly apply the recycling mechanism while preserving this patient |
1247 | 2186 assert(db_.GetResourceType(patientId) == ResourceType_Patient); |
2187 Recycle(attachment.GetCompressedSize(), db_.GetPublicId(patientId)); | |
704
4789da60d655
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
2188 |
1247 | 2189 db_.AddAttachment(resourceId, attachment); |
699
2929e17f8447
add attachments to resources
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2190 |
1773
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2191 if (IsUserContentType(attachment.GetContentType())) |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
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|
2192 { |
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New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2193 LogChange(resourceId, ChangeType_UpdatedAttachment, resourceType, publicId); |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2194 } |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2195 |
699
2929e17f8447
add attachments to resources
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2196 t.Commit(attachment.GetCompressedSize()); |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2197 |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2198 return StoreStatus_Success; |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2199 } |
2929e17f8447
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
697
diff
changeset
|
2200 |
702
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2201 |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2202 void ServerIndex::DeleteAttachment(const std::string& publicId, |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2203 FileContentType type) |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2204 { |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2205 boost::mutex::scoped_lock lock(mutex_); |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2206 Transaction t(*this); |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2207 |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2208 ResourceType rtype; |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2209 int64_t id; |
1294 | 2210 if (!db_.LookupResource(id, rtype, publicId)) |
702
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2211 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2212 throw OrthancException(ErrorCode_UnknownResource); |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2213 } |
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parents:
701
diff
changeset
|
2214 |
1247 | 2215 db_.DeleteAttachment(id, type); |
702
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2216 |
1773
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2217 if (IsUserContentType(type)) |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2218 { |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2219 LogChange(id, ChangeType_UpdatedAttachment, rtype, publicId); |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2220 } |
613df4362575
New UpdatedAttachment and UpdatedMetadata events in plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1757
diff
changeset
|
2221 |
702
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2222 t.Commit(0); |
7592a48e97e4
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diff
changeset
|
2223 } |
7592a48e97e4
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diff
changeset
|
2224 |
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diff
changeset
|
2225 |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2226 bool ServerIndex::GetMetadata(Json::Value& target, |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2227 const std::string& publicId) |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2228 { |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2229 boost::mutex::scoped_lock lock(mutex_); |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2230 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2231 target = Json::objectValue; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2232 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2233 ResourceType type; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2234 int64_t id; |
1294 | 2235 if (!db_.LookupResource(id, type, publicId)) |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2236 { |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2237 return false; |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2238 } |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2239 |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2240 std::list<MetadataType> metadata; |
1247 | 2241 db_.ListAvailableMetadata(metadata, id); |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2242 |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2243 for (std::list<MetadataType>::const_iterator |
1304 | 2244 it = metadata.begin(); it != metadata.end(); ++it) |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2245 { |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2246 std::string key = EnumerationToString(*it); |
1238 | 2247 |
2248 std::string value; | |
1247 | 2249 if (!db_.LookupMetadata(value, id, *it)) |
1238 | 2250 { |
2251 value.clear(); | |
2252 } | |
2253 | |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2254 target[key] = value; |
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diff
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|
2255 } |
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diff
changeset
|
2256 |
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Sebastien Jodogne <s.jodogne@gmail.com>
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831
diff
changeset
|
2257 return true; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2258 } |
1218
efece308018e
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diff
changeset
|
2259 |
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diff
changeset
|
2260 |
1249
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2261 void ServerIndex::SetGlobalProperty(GlobalProperty property, |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2262 const std::string& value) |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2263 { |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2264 boost::mutex::scoped_lock lock(mutex_); |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2265 db_.SetGlobalProperty(property, value); |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2266 } |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2267 |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2268 |
2668
d26dd081df97
saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
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2665
diff
changeset
|
2269 bool ServerIndex::LookupGlobalProperty(std::string& value, |
d26dd081df97
saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
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2665
diff
changeset
|
2270 GlobalProperty property) |
d26dd081df97
saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
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2665
diff
changeset
|
2271 { |
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saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
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2665
diff
changeset
|
2272 boost::mutex::scoped_lock lock(mutex_); |
d26dd081df97
saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
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2665
diff
changeset
|
2273 return db_.LookupGlobalProperty(value, property); |
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parents:
2665
diff
changeset
|
2274 } |
d26dd081df97
saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2665
diff
changeset
|
2275 |
d26dd081df97
saving jobs engine on exit
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parents:
2665
diff
changeset
|
2276 |
1218
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2277 std::string ServerIndex::GetGlobalProperty(GlobalProperty property, |
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
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1198
diff
changeset
|
2278 const std::string& defaultValue) |
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
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1198
diff
changeset
|
2279 { |
1239 | 2280 std::string value; |
2668
d26dd081df97
saving jobs engine on exit
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parents:
2665
diff
changeset
|
2281 |
d26dd081df97
saving jobs engine on exit
Sebastien Jodogne <s.jodogne@gmail.com>
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2665
diff
changeset
|
2282 if (LookupGlobalProperty(value, property)) |
1239 | 2283 { |
2284 return value; | |
2285 } | |
2286 else | |
2287 { | |
2288 return defaultValue; | |
2289 } | |
1218
efece308018e
report database version in /system
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1198
diff
changeset
|
2290 } |
efece308018e
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parents:
1198
diff
changeset
|
2291 |
1352 | 2292 |
2293 bool ServerIndex::GetMainDicomTags(DicomMap& result, | |
2294 const std::string& publicId, | |
1677
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diff
changeset
|
2295 ResourceType expectedType, |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2296 ResourceType levelOfInterest) |
1352 | 2297 { |
1677
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2298 // Yes, the following test could be shortened, but we wish to make it as clear as possible |
a903d57d9f0c
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diff
changeset
|
2299 if (!(expectedType == ResourceType_Patient && levelOfInterest == ResourceType_Patient) && |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
2300 !(expectedType == ResourceType_Study && levelOfInterest == ResourceType_Patient) && |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2301 !(expectedType == ResourceType_Study && levelOfInterest == ResourceType_Study) && |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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1676
diff
changeset
|
2302 !(expectedType == ResourceType_Series && levelOfInterest == ResourceType_Series) && |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2303 !(expectedType == ResourceType_Instance && levelOfInterest == ResourceType_Instance)) |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2304 { |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2305 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2306 } |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2307 |
1352 | 2308 result.Clear(); |
2309 | |
2310 boost::mutex::scoped_lock lock(mutex_); | |
2311 | |
2312 // Lookup for the requested resource | |
2313 int64_t id; | |
2314 ResourceType type; | |
2315 if (!db_.LookupResource(id, type, publicId) || | |
2316 type != expectedType) | |
2317 { | |
2318 return false; | |
2319 } | |
1677
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2320 |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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1676
diff
changeset
|
2321 if (type == ResourceType_Study) |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2322 { |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2323 DicomMap tmp; |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2324 db_.GetMainDicomTags(tmp, id); |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2325 |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
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1676
diff
changeset
|
2326 switch (levelOfInterest) |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2327 { |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2328 case ResourceType_Patient: |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2329 tmp.ExtractPatientInformation(result); |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2330 return true; |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2331 |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2332 case ResourceType_Study: |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2333 tmp.ExtractStudyInformation(result); |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2334 return true; |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2335 |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2336 default: |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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1676
diff
changeset
|
2337 throw OrthancException(ErrorCode_InternalError); |
a903d57d9f0c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2338 } |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2339 } |
1352 | 2340 else |
2341 { | |
2342 db_.GetMainDicomTags(result, id); | |
2343 return true; | |
2344 } | |
2345 } | |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2346 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
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1509
diff
changeset
|
2347 |
3006
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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2987
diff
changeset
|
2348 bool ServerIndex::GetAllMainDicomTags(DicomMap& result, |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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changeset
|
2349 const std::string& instancePublicId) |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2350 { |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2351 result.Clear(); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2352 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2353 boost::mutex::scoped_lock lock(mutex_); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2354 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2355 // Lookup for the requested resource |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2356 int64_t instance; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2357 ResourceType type; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2358 if (!db_.LookupResource(instance, type, instancePublicId) || |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2359 type != ResourceType_Instance) |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2360 { |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2361 return false; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2362 } |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2363 else |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2364 { |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2365 DicomMap tmp; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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2987
diff
changeset
|
2366 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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2987
diff
changeset
|
2367 db_.GetMainDicomTags(tmp, instance); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2368 result.Merge(tmp); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2369 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2370 int64_t series; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2371 if (!db_.LookupParent(series, instance)) |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2372 { |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2373 throw OrthancException(ErrorCode_InternalError); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2374 } |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2375 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2376 tmp.Clear(); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2377 db_.GetMainDicomTags(tmp, series); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2378 result.Merge(tmp); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2379 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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changeset
|
2380 int64_t study; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2381 if (!db_.LookupParent(study, series)) |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2382 { |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
2383 throw OrthancException(ErrorCode_InternalError); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2384 } |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
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changeset
|
2385 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2386 tmp.Clear(); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2387 db_.GetMainDicomTags(tmp, study); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2388 result.Merge(tmp); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2389 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2390 #ifndef NDEBUG |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
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2391 { |
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DicomMap::ExtractMainDicomTags()
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changeset
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2392 // Sanity test to check that all the main DICOM tags from the |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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2393 // patient level are copied at the study level |
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DicomMap::ExtractMainDicomTags()
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changeset
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2394 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2395 int64_t patient; |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2396 if (!db_.LookupParent(patient, study)) |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2397 { |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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diff
changeset
|
2398 throw OrthancException(ErrorCode_InternalError); |
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DicomMap::ExtractMainDicomTags()
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changeset
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2399 } |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
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2400 |
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DicomMap::ExtractMainDicomTags()
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changeset
|
2401 tmp.Clear(); |
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DicomMap::ExtractMainDicomTags()
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changeset
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2402 db_.GetMainDicomTags(tmp, study); |
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DicomMap::ExtractMainDicomTags()
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changeset
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2403 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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changeset
|
2404 std::set<DicomTag> patientTags; |
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DicomMap::ExtractMainDicomTags()
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2405 tmp.GetTags(patientTags); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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2406 |
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DicomMap::ExtractMainDicomTags()
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2407 for (std::set<DicomTag>::const_iterator |
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DicomMap::ExtractMainDicomTags()
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2408 it = patientTags.begin(); it != patientTags.end(); ++it) |
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DicomMap::ExtractMainDicomTags()
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2409 { |
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DicomMap::ExtractMainDicomTags()
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|
2410 assert(result.HasTag(*it)); |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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2411 } |
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DicomMap::ExtractMainDicomTags()
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2412 } |
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DicomMap::ExtractMainDicomTags()
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2413 #endif |
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DicomMap::ExtractMainDicomTags()
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2414 |
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DicomMap::ExtractMainDicomTags()
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changeset
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2415 return true; |
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DicomMap::ExtractMainDicomTags()
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changeset
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2416 } |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
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2417 } |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2987
diff
changeset
|
2418 |
0e1755e5efd0
DicomMap::ExtractMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2987
diff
changeset
|
2419 |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2420 bool ServerIndex::LookupResourceType(ResourceType& type, |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2421 const std::string& publicId) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2422 { |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2423 boost::mutex::scoped_lock lock(mutex_); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2424 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2425 int64_t id; |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2426 return db_.LookupResource(id, type, publicId); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2427 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2428 |
1668
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2429 |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2430 unsigned int ServerIndex::GetDatabaseVersion() |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2431 { |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2432 boost::mutex::scoped_lock lock(mutex_); |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2433 return db_.GetDatabaseVersion(); |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2434 } |
1750
55d52567bebb
LookupResource implemented
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1747
diff
changeset
|
2435 |
55d52567bebb
LookupResource implemented
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1747
diff
changeset
|
2436 |
1898
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2437 bool ServerIndex::LookupParent(std::string& target, |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2438 const std::string& publicId, |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2439 ResourceType parentType) |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2440 { |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2441 boost::mutex::scoped_lock lock(mutex_); |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2442 |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2443 ResourceType type; |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2444 int64_t id; |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2445 if (!db_.LookupResource(id, type, publicId)) |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2446 { |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2447 throw OrthancException(ErrorCode_UnknownResource); |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2448 } |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2449 |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2450 while (type != parentType) |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2451 { |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2452 int64_t parentId; |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2453 |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2454 if (type == ResourceType_Patient || // Cannot further go up in hierarchy |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2455 !db_.LookupParent(parentId, id)) |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2456 { |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2457 return false; |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2458 } |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2459 |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2460 id = parentId; |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2461 type = GetParentResourceType(type); |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2462 } |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2463 |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2464 target = db_.GetPublicId(id); |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2465 return true; |
e018037d4d0e
Support of optional tags for counting resources in C-Find
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1823
diff
changeset
|
2466 } |
2209
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2467 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2468 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2469 void ServerIndex::ReconstructInstance(ParsedDicomFile& dicom) |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2470 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2471 DicomMap summary; |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2472 dicom.ExtractDicomSummary(summary); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2473 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2474 DicomInstanceHasher hasher(summary); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2475 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2476 boost::mutex::scoped_lock lock(mutex_); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2477 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2478 try |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2479 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2480 Transaction t(*this); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2481 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2482 int64_t patient = -1, study = -1, series = -1, instance = -1; |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2483 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2484 ResourceType dummy; |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2485 if (!db_.LookupResource(patient, dummy, hasher.HashPatient()) || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2486 !db_.LookupResource(study, dummy, hasher.HashStudy()) || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2487 !db_.LookupResource(series, dummy, hasher.HashSeries()) || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2488 !db_.LookupResource(instance, dummy, hasher.HashInstance()) || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2489 patient == -1 || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2490 study == -1 || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2491 series == -1 || |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2492 instance == -1) |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2493 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2494 throw OrthancException(ErrorCode_InternalError); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2495 } |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2496 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2497 db_.ClearMainDicomTags(patient); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2498 db_.ClearMainDicomTags(study); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2499 db_.ClearMainDicomTags(series); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2500 db_.ClearMainDicomTags(instance); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2501 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2502 ServerToolbox::StoreMainDicomTags(db_, patient, ResourceType_Patient, summary); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2503 ServerToolbox::StoreMainDicomTags(db_, study, ResourceType_Study, summary); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2504 ServerToolbox::StoreMainDicomTags(db_, series, ResourceType_Series, summary); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2505 ServerToolbox::StoreMainDicomTags(db_, instance, ResourceType_Instance, summary); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2506 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2507 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2508 std::string s; |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2509 if (dicom.LookupTransferSyntax(s)) |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2510 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2511 db_.SetMetadata(instance, MetadataType_Instance_TransferSyntax, s); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2512 } |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2513 } |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2514 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2515 const DicomValue* value; |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2516 if ((value = summary.TestAndGetValue(DICOM_TAG_SOP_CLASS_UID)) != NULL && |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2517 !value->IsNull() && |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2518 !value->IsBinary()) |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2519 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2520 db_.SetMetadata(instance, MetadataType_Instance_SopClassUid, value->GetContent()); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2521 } |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2522 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2208
diff
changeset
|
2523 t.Commit(0); // No change in the DB size |
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2524 } |
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2525 catch (OrthancException& e) |
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2526 { |
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2527 LOG(ERROR) << "EXCEPTION [" << e.What() << "]"; |
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parents:
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|
2528 } |
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2529 } |
3025
039a9d262d64
preparing to speed up find in databases
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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2530 |
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2531 |
3029
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2532 void ServerIndex::NormalizeLookup(std::vector<DatabaseConstraint>& target, |
3027 | 2533 const DatabaseLookup& source, |
2534 ResourceType queryLevel) const | |
2535 { | |
2536 assert(mainDicomTagsRegistry_.get() != NULL); | |
3029
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2537 |
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2538 target.clear(); |
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2539 target.reserve(source.GetConstraintsCount()); |
3031 | 2540 |
3027 | 2541 for (size_t i = 0; i < source.GetConstraintsCount(); i++) |
2542 { | |
3031 | 2543 ResourceType level; |
2544 DicomTagType type; | |
3027 | 2545 |
3031 | 2546 mainDicomTagsRegistry_->LookupTag(level, type, source.GetConstraint(i).GetTag()); |
2547 | |
2548 if (type == DicomTagType_Identifier || | |
2549 type == DicomTagType_Main) | |
3027 | 2550 { |
3029
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2551 // Use the fact that patient-level tags are copied at the study level |
3031 | 2552 if (level == ResourceType_Patient && |
2553 queryLevel != ResourceType_Patient) | |
3027 | 2554 { |
3031 | 2555 level = ResourceType_Study; |
3027 | 2556 } |
3029
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2557 |
3031 | 2558 DatabaseConstraint c(source.GetConstraint(i), level, type); |
2559 target.push_back(c); | |
3027 | 2560 } |
2561 } | |
2562 } | |
2563 | |
2564 | |
3025
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2565 void ServerIndex::ApplyLookupResources(std::vector<std::string>& resourcesId, |
3036
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2566 std::vector<std::string>* instancesId, |
3025
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2567 const DatabaseLookup& lookup, |
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parents:
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2568 ResourceType queryLevel, |
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parents:
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2569 size_t limit) |
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preparing to speed up find in databases
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parents:
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2570 { |
3029
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2571 std::vector<DatabaseConstraint> normalized; |
3027 | 2572 NormalizeLookup(normalized, lookup, queryLevel); |
2573 | |
2574 { | |
2575 boost::mutex::scoped_lock lock(mutex_); | |
2576 db_.ApplyLookupResources(resourcesId, instancesId, normalized, queryLevel, limit); | |
2577 } | |
3025
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2578 } |
0 | 2579 } |