Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 1229:5405d36e9d48
explorer-plugin.js for plugins to adapt the default Orthanc Explorer
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Tue, 25 Nov 2014 13:54:53 +0100 |
parents | efece308018e |
children | 9b4977e3c19d |
rev | line source |
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0 | 1 /** |
62 | 2 * Orthanc - A Lightweight, RESTful DICOM Store |
689 | 3 * Copyright (C) 2012-2014 Medical Physics Department, CHU of Liege, |
0 | 4 * Belgium |
5 * | |
6 * This program is free software: you can redistribute it and/or | |
7 * modify it under the terms of the GNU General Public License as | |
8 * published by the Free Software Foundation, either version 3 of the | |
9 * License, or (at your option) any later version. | |
136 | 10 * |
11 * In addition, as a special exception, the copyright holders of this | |
12 * program give permission to link the code of its release with the | |
13 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
14 * that use the same license as the "OpenSSL" library), and distribute | |
15 * the linked executables. You must obey the GNU General Public License | |
16 * in all respects for all of the code used other than "OpenSSL". If you | |
17 * modify file(s) with this exception, you may extend this exception to | |
18 * your version of the file(s), but you are not obligated to do so. If | |
19 * you do not wish to do so, delete this exception statement from your | |
20 * version. If you delete this exception statement from all source files | |
21 * in the program, then also delete it here. | |
0 | 22 * |
23 * This program is distributed in the hope that it will be useful, but | |
24 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
26 * General Public License for more details. | |
27 * | |
28 * You should have received a copy of the GNU General Public License | |
29 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
30 **/ | |
31 | |
32 | |
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33 #include "PrecompiledHeadersServer.h" |
0 | 34 #include "ServerIndex.h" |
35 | |
6 | 36 #ifndef NOMINMAX |
2 | 37 #define NOMINMAX |
6 | 38 #endif |
39 | |
1198 | 40 #include "ServerIndexChange.h" |
8 | 41 #include "EmbeddedResources.h" |
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42 #include "OrthancInitialization.h" |
0 | 43 #include "../Core/Toolbox.h" |
44 #include "../Core/Uuid.h" | |
45 #include "../Core/DicomFormat/DicomArray.h" | |
46 #include "../Core/SQLite/Transaction.h" | |
47 #include "FromDcmtkBridge.h" | |
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48 #include "ServerContext.h" |
0 | 49 |
50 #include <boost/lexical_cast.hpp> | |
51 #include <stdio.h> | |
108 | 52 #include <glog/logging.h> |
0 | 53 |
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54 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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55 |
62 | 56 namespace Orthanc |
0 | 57 { |
58 namespace Internals | |
59 { | |
202 | 60 class ServerIndexListener : public IServerIndexListener |
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61 { |
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62 private: |
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63 struct FileToRemove |
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64 { |
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65 private: |
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66 std::string uuid_; |
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67 FileContentType type_; |
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68 |
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69 public: |
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70 FileToRemove(const FileInfo& info) : uuid_(info.GetUuid()), |
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71 type_(info.GetContentType()) |
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72 { |
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73 } |
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74 |
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75 const std::string& GetUuid() const |
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76 { |
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77 return uuid_; |
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78 } |
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79 |
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80 FileContentType GetContentType() const |
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81 { |
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82 return type_; |
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83 } |
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84 }; |
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85 |
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86 ServerContext& context_; |
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87 bool hasRemainingLevel_; |
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88 ResourceType remainingType_; |
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89 std::string remainingPublicId_; |
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90 std::list<FileToRemove> pendingFilesToRemove_; |
1196 | 91 std::list<ServerIndexChange> pendingChanges_; |
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92 uint64_t sizeOfFilesToRemove_; |
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93 bool insideTransaction_; |
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94 |
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95 void Reset() |
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96 { |
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97 sizeOfFilesToRemove_ = 0; |
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98 hasRemainingLevel_ = false; |
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99 pendingFilesToRemove_.clear(); |
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100 pendingChanges_.clear(); |
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101 } |
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102 |
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103 public: |
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104 ServerIndexListener(ServerContext& context) : context_(context), |
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105 insideTransaction_(false) |
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106 { |
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107 Reset(); |
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108 assert(ResourceType_Patient < ResourceType_Study && |
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109 ResourceType_Study < ResourceType_Series && |
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110 ResourceType_Series < ResourceType_Instance); |
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111 } |
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112 |
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113 void StartTransaction() |
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114 { |
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115 Reset(); |
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116 insideTransaction_ = true; |
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117 } |
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118 |
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119 void EndTransaction() |
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120 { |
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121 insideTransaction_ = false; |
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122 } |
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123 |
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124 uint64_t GetSizeOfFilesToRemove() |
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125 { |
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126 return sizeOfFilesToRemove_; |
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127 } |
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128 |
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129 void CommitFilesToRemove() |
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130 { |
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131 for (std::list<FileToRemove>::const_iterator |
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132 it = pendingFilesToRemove_.begin(); |
656 | 133 it != pendingFilesToRemove_.end(); ++it) |
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134 { |
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135 context_.RemoveFile(it->GetUuid(), it->GetContentType()); |
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136 } |
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137 } |
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138 |
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139 void CommitChanges() |
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140 { |
1196 | 141 for (std::list<ServerIndexChange>::const_iterator |
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142 it = pendingChanges_.begin(); |
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143 it != pendingChanges_.end(); it++) |
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144 { |
1198 | 145 context_.SignalChange(*it); |
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146 } |
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147 } |
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148 |
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149 virtual void SignalRemainingAncestor(ResourceType parentType, |
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150 const std::string& publicId) |
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151 { |
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152 LOG(INFO) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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153 |
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154 if (hasRemainingLevel_) |
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155 { |
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156 if (parentType < remainingType_) |
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157 { |
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158 remainingType_ = parentType; |
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159 remainingPublicId_ = publicId; |
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160 } |
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161 } |
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162 else |
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163 { |
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164 hasRemainingLevel_ = true; |
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165 remainingType_ = parentType; |
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166 remainingPublicId_ = publicId; |
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167 } |
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168 } |
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169 |
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170 virtual void SignalFileDeleted(const FileInfo& info) |
201
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171 { |
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172 assert(Toolbox::IsUuid(info.GetUuid())); |
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173 pendingFilesToRemove_.push_back(FileToRemove(info)); |
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174 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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175 } |
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176 |
1198 | 177 virtual void SignalChange(const ServerIndexChange& change) |
1158 | 178 { |
1198 | 179 LOG(INFO) << "Change related to resource " << change.GetPublicId() << " of type " |
180 << EnumerationToString(change.GetResourceType()) << ": " | |
181 << EnumerationToString(change.GetChangeType()); | |
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182 |
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183 if (insideTransaction_) |
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184 { |
1198 | 185 pendingChanges_.push_back(change); |
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186 } |
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187 else |
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188 { |
1198 | 189 context_.SignalChange(change); |
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190 } |
1158 | 191 } |
192 | |
201
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193 bool HasRemainingLevel() const |
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194 { |
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195 return hasRemainingLevel_; |
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196 } |
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197 |
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198 ResourceType GetRemainingType() const |
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199 { |
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200 assert(HasRemainingLevel()); |
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201 return remainingType_; |
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202 } |
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203 |
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204 const std::string& GetRemainingPublicId() const |
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205 { |
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206 assert(HasRemainingLevel()); |
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207 return remainingPublicId_; |
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208 } |
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209 }; |
0 | 210 } |
211 | |
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<SQLite::Transaction> 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 { |
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225 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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226 |
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227 transaction_.reset(index_.db_->StartTransaction()); |
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228 transaction_->Begin(); |
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229 |
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230 index_.listener_->StartTransaction(); |
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231 } |
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232 |
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233 ~Transaction() |
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234 { |
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235 index_.listener_->EndTransaction(); |
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236 } |
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237 |
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238 void Commit(uint64_t sizeOfAddedFiles) |
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239 { |
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240 if (!isCommitted_) |
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241 { |
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242 transaction_->Commit(); |
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243 |
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244 // We can remove the files once the SQLite transaction has |
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245 // been successfully committed. Some files might have to be |
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246 // deleted because of recycling. |
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247 index_.listener_->CommitFilesToRemove(); |
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248 |
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249 index_.currentStorageSize_ += sizeOfAddedFiles; |
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250 |
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251 assert(index_.currentStorageSize_ >= index_.listener_->GetSizeOfFilesToRemove()); |
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252 index_.currentStorageSize_ -= index_.listener_->GetSizeOfFilesToRemove(); |
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253 |
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254 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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255 |
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256 // Send all the pending changes to the Orthanc plugins |
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257 index_.listener_->CommitChanges(); |
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258 |
278
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259 isCommitted_ = true; |
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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 |
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265 class ServerIndex::UnstableResourcePayload |
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266 { |
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267 private: |
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268 ResourceType type_; |
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269 std::string publicId_; |
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270 boost::posix_time::ptime time_; |
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271 |
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272 public: |
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273 UnstableResourcePayload() : type_(ResourceType_Instance) |
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274 { |
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275 } |
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276 |
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277 UnstableResourcePayload(Orthanc::ResourceType type, |
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278 const std::string& publicId) : |
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279 type_(type), |
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280 publicId_(publicId) |
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281 { |
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282 time_ = boost::posix_time::second_clock::local_time(); |
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283 } |
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284 |
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285 unsigned int GetAge() const |
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286 { |
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287 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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288 } |
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289 |
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290 ResourceType GetResourceType() const |
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291 { |
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292 return type_; |
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293 } |
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294 |
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295 const std::string& GetPublicId() const |
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296 { |
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297 return publicId_; |
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298 } |
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299 }; |
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300 |
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301 |
212 | 302 bool ServerIndex::DeleteResource(Json::Value& target, |
0 | 303 const std::string& uuid, |
202 | 304 ResourceType expectedType) |
0 | 305 { |
206
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306 boost::mutex::scoped_lock lock(mutex_); |
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307 |
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308 Transaction t(*this); |
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309 |
202 | 310 int64_t id; |
311 ResourceType type; | |
312 if (!db_->LookupResource(uuid, id, type) || | |
313 expectedType != type) | |
0 | 314 { |
315 return false; | |
316 } | |
202 | 317 |
318 db_->DeleteResource(id); | |
0 | 319 |
202 | 320 if (listener_->HasRemainingLevel()) |
0 | 321 { |
202 | 322 ResourceType type = listener_->GetRemainingType(); |
323 const std::string& uuid = listener_->GetRemainingPublicId(); | |
0 | 324 |
325 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
204 | 326 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
434
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327 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
0 | 328 target["RemainingAncestor"]["ID"] = uuid; |
329 } | |
330 else | |
331 { | |
332 target["RemainingAncestor"] = Json::nullValue; | |
333 } | |
334 | |
278
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335 t.Commit(0); |
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336 |
0 | 337 return true; |
338 } | |
339 | |
340 | |
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341 void ServerIndex::FlushThread(ServerIndex* that) |
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342 { |
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343 // By default, wait for 10 seconds before flushing |
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344 unsigned int sleep = 10; |
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345 |
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346 try |
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347 { |
744 | 348 boost::mutex::scoped_lock lock(that->mutex_); |
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349 std::string sleepString = that->db_->GetGlobalProperty(GlobalProperty_FlushSleep, ""); |
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350 |
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351 if (Toolbox::IsInteger(sleepString)) |
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352 { |
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353 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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354 } |
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355 } |
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356 catch (boost::bad_lexical_cast&) |
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357 { |
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358 } |
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359 |
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360 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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361 |
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362 unsigned int count = 0; |
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363 |
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364 while (!that->done_) |
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365 { |
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366 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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367 count++; |
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368 if (count < sleep) |
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369 { |
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370 continue; |
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371 } |
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372 |
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373 boost::mutex::scoped_lock lock(that->mutex_); |
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374 that->db_->FlushToDisk(); |
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375 count = 0; |
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376 } |
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377 |
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378 LOG(INFO) << "Stopping the database flushing thread"; |
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379 } |
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380 |
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381 |
433 | 382 static void ComputeExpectedNumberOfInstances(DatabaseWrapper& db, |
383 int64_t series, | |
384 const DicomMap& dicomSummary) | |
385 { | |
386 try | |
387 { | |
656 | 388 const DicomValue* value; |
389 const DicomValue* value2; | |
390 | |
433 | 391 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
392 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
393 { | |
394 // Patch for series with temporal positions thanks to Will Ryder | |
395 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->AsString()); | |
396 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->AsString()); | |
397 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); | |
398 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
399 } | |
400 | |
401 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
402 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
403 { | |
404 // Support of Cardio-PET images | |
405 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->AsString()); | |
406 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->AsString()); | |
407 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); | |
408 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
409 } | |
410 | |
411 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
412 { | |
413 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->AsString()); | |
414 } | |
415 } | |
416 catch (boost::bad_lexical_cast) | |
417 { | |
418 } | |
419 } | |
420 | |
421 | |
226
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422 ServerIndex::ServerIndex(ServerContext& context, |
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423 const std::string& dbPath) : |
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424 done_(false), |
269
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425 maximumStorageSize_(0), |
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426 maximumPatients_(0) |
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427 { |
226
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428 listener_.reset(new Internals::ServerIndexListener(context)); |
186
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429 |
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430 if (dbPath == ":memory:") |
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431 { |
202 | 432 db_.reset(new DatabaseWrapper(*listener_)); |
180
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433 } |
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434 else |
0 | 435 { |
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436 boost::filesystem::path p = dbPath; |
180
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437 |
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438 try |
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439 { |
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440 boost::filesystem::create_directories(p); |
180
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441 } |
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442 catch (boost::filesystem::filesystem_error) |
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443 { |
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444 } |
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445 |
202 | 446 db_.reset(new DatabaseWrapper(p.string() + "/index", *listener_)); |
0 | 447 } |
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448 |
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449 currentStorageSize_ = db_->GetTotalCompressedSize(); |
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450 |
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451 // Initial recycling if the parameters have changed since the last |
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452 // execution of Orthanc |
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453 StandaloneRecycling(); |
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454 |
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455 flushThread_ = boost::thread(FlushThread, this); |
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456 unstableResourcesMonitorThread_ = boost::thread(UnstableResourcesMonitorThread, this); |
206
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457 } |
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458 |
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459 |
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460 ServerIndex::~ServerIndex() |
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461 { |
511
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462 done_ = true; |
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463 |
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464 if (flushThread_.joinable()) |
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465 { |
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466 flushThread_.join(); |
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467 } |
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468 |
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469 if (unstableResourcesMonitorThread_.joinable()) |
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470 { |
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471 unstableResourcesMonitorThread_.join(); |
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472 } |
0 | 473 } |
474 | |
475 | |
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476 StoreStatus ServerIndex::Store(std::map<MetadataType, std::string>& instanceMetadata, |
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477 const DicomMap& dicomSummary, |
232
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478 const Attachments& attachments, |
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479 const std::string& remoteAet, |
1006
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480 const MetadataMap& metadata) |
0 | 481 { |
206
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482 boost::mutex::scoped_lock lock(mutex_); |
0 | 483 |
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484 instanceMetadata.clear(); |
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485 |
178 | 486 DicomInstanceHasher hasher(dicomSummary); |
0 | 487 |
488 try | |
489 { | |
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490 Transaction t(*this); |
0 | 491 |
202 | 492 // Do nothing if the instance already exists |
0 | 493 { |
432 | 494 ResourceType type; |
495 int64_t tmp; | |
496 if (db_->LookupResource(hasher.HashInstance(), tmp, type)) | |
497 { | |
498 assert(type == ResourceType_Instance); | |
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499 db_->GetAllMetadata(instanceMetadata, tmp); |
432 | 500 return StoreStatus_AlreadyStored; |
501 } | |
0 | 502 } |
503 | |
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504 // Ensure there is enough room in the storage for the new instance |
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505 uint64_t instanceSize = 0; |
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506 for (Attachments::const_iterator it = attachments.begin(); |
656 | 507 it != attachments.end(); ++it) |
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508 { |
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509 instanceSize += it->GetCompressedSize(); |
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510 } |
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511 |
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512 Recycle(instanceSize, hasher.HashPatient()); |
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513 |
202 | 514 // Create the instance |
432 | 515 int64_t instance = db_->CreateResource(hasher.HashInstance(), ResourceType_Instance); |
202 | 516 |
517 DicomMap dicom; | |
518 dicomSummary.ExtractInstanceInformation(dicom); | |
519 db_->SetMainDicomTags(instance, dicom); | |
520 | |
432 | 521 // Detect up to which level the patient/study/series/instance |
522 // hierarchy must be created | |
523 int64_t patient = -1, study = -1, series = -1; | |
524 bool isNewPatient = false; | |
525 bool isNewStudy = false; | |
526 bool isNewSeries = false; | |
527 | |
0 | 528 { |
432 | 529 ResourceType dummy; |
530 | |
531 if (db_->LookupResource(hasher.HashSeries(), series, dummy)) | |
532 { | |
533 assert(dummy == ResourceType_Series); | |
534 // The patient, the study and the series already exist | |
535 | |
536 bool ok = (db_->LookupResource(hasher.HashPatient(), patient, dummy) && | |
537 db_->LookupResource(hasher.HashStudy(), study, dummy)); | |
538 assert(ok); | |
539 } | |
540 else if (db_->LookupResource(hasher.HashStudy(), study, dummy)) | |
541 { | |
542 assert(dummy == ResourceType_Study); | |
543 | |
544 // New series: The patient and the study already exist | |
545 isNewSeries = true; | |
546 | |
547 bool ok = db_->LookupResource(hasher.HashPatient(), patient, dummy); | |
548 assert(ok); | |
549 } | |
550 else if (db_->LookupResource(hasher.HashPatient(), patient, dummy)) | |
551 { | |
552 assert(dummy == ResourceType_Patient); | |
553 | |
554 // New study and series: The patient already exist | |
555 isNewStudy = true; | |
556 isNewSeries = true; | |
557 } | |
558 else | |
559 { | |
560 // New patient, study and series: Nothing exists | |
561 isNewPatient = true; | |
562 isNewStudy = true; | |
563 isNewSeries = true; | |
564 } | |
565 } | |
566 | |
567 // Create the series if needed | |
568 if (isNewSeries) | |
569 { | |
202 | 570 series = db_->CreateResource(hasher.HashSeries(), ResourceType_Series); |
571 dicomSummary.ExtractSeriesInformation(dicom); | |
572 db_->SetMainDicomTags(series, dicom); | |
432 | 573 } |
202 | 574 |
432 | 575 // Create the study if needed |
576 if (isNewStudy) | |
577 { | |
578 study = db_->CreateResource(hasher.HashStudy(), ResourceType_Study); | |
579 dicomSummary.ExtractStudyInformation(dicom); | |
580 db_->SetMainDicomTags(study, dicom); | |
581 } | |
582 | |
583 // Create the patient if needed | |
584 if (isNewPatient) | |
585 { | |
586 patient = db_->CreateResource(hasher.HashPatient(), ResourceType_Patient); | |
587 dicomSummary.ExtractPatientInformation(dicom); | |
588 db_->SetMainDicomTags(patient, dicom); | |
589 } | |
202 | 590 |
432 | 591 // Create the parent-to-child links |
592 db_->AttachChild(series, instance); | |
593 | |
594 if (isNewSeries) | |
595 { | |
596 db_->AttachChild(study, series); | |
0 | 597 } |
432 | 598 |
599 if (isNewStudy) | |
0 | 600 { |
432 | 601 db_->AttachChild(patient, study); |
0 | 602 } |
603 | |
432 | 604 // Sanity checks |
605 assert(patient != -1); | |
606 assert(study != -1); | |
607 assert(series != -1); | |
608 assert(instance != -1); | |
609 | |
202 | 610 // Attach the files to the newly created instance |
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611 for (Attachments::const_iterator it = attachments.begin(); |
656 | 612 it != attachments.end(); ++it) |
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613 { |
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614 db_->AddAttachment(instance, *it); |
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615 } |
202 | 616 |
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617 // Attach the user-specified metadata |
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618 for (MetadataMap::const_iterator |
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619 it = metadata.begin(); it != metadata.end(); ++it) |
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620 { |
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621 switch (it->first.first) |
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622 { |
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623 case ResourceType_Patient: |
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624 db_->SetMetadata(patient, it->first.second, it->second); |
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625 break; |
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626 |
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627 case ResourceType_Study: |
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628 db_->SetMetadata(study, it->first.second, it->second); |
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629 break; |
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630 |
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631 case ResourceType_Series: |
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632 db_->SetMetadata(series, it->first.second, it->second); |
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633 break; |
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634 |
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635 case ResourceType_Instance: |
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636 db_->SetMetadata(instance, it->first.second, it->second); |
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637 instanceMetadata[it->first.second] = it->second; |
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638 break; |
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639 |
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640 default: |
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641 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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642 } |
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643 } |
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644 |
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645 // Attach the auto-computed metadata for the patient/study/series levels |
432 | 646 std::string now = Toolbox::GetNowIsoString(); |
647 db_->SetMetadata(series, MetadataType_LastUpdate, now); | |
648 db_->SetMetadata(study, MetadataType_LastUpdate, now); | |
649 db_->SetMetadata(patient, MetadataType_LastUpdate, now); | |
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650 |
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651 // Attach the auto-computed metadata for the instance level, |
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652 // reflecting these additions into the input metadata map |
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653 db_->SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); |
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654 instanceMetadata[MetadataType_Instance_ReceptionDate] = now; |
202 | 655 |
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656 db_->SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
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657 instanceMetadata[MetadataType_Instance_RemoteAet] = remoteAet; |
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658 |
202 | 659 const DicomValue* value; |
660 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
661 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 662 { |
202 | 663 db_->SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
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664 instanceMetadata[MetadataType_Instance_IndexInSeries] = value->AsString(); |
0 | 665 } |
666 | |
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667 // Check whether the series of this new instance is now completed |
202 | 668 if (isNewSeries) |
669 { | |
433 | 670 ComputeExpectedNumberOfInstances(*db_, series, dicomSummary); |
202 | 671 } |
672 | |
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673 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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674 if (seriesStatus == SeriesStatus_Complete) |
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675 { |
1198 | 676 db_->LogChange(series, ChangeType_CompletedSeries, ResourceType_Series, hasher.HashSeries()); |
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677 } |
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678 |
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679 // Mark the parent resources of this instance as unstable |
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680 MarkAsUnstable(series, ResourceType_Series, hasher.HashSeries()); |
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681 MarkAsUnstable(study, ResourceType_Study, hasher.HashStudy()); |
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682 MarkAsUnstable(patient, ResourceType_Patient, hasher.HashPatient()); |
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683 |
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684 t.Commit(instanceSize); |
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685 |
0 | 686 return StoreStatus_Success; |
687 } | |
62 | 688 catch (OrthancException& e) |
0 | 689 { |
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690 LOG(ERROR) << "EXCEPTION [" << e.What() << "]" |
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691 << " (SQLite status: " << db_->GetErrorMessage() << ")"; |
0 | 692 } |
693 | |
694 return StoreStatus_Failure; | |
695 } | |
696 | |
697 | |
238 | 698 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 699 { |
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700 boost::mutex::scoped_lock lock(mutex_); |
238 | 701 target = Json::objectValue; |
0 | 702 |
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703 uint64_t cs = currentStorageSize_; |
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704 assert(cs == db_->GetTotalCompressedSize()); |
238 | 705 uint64_t us = db_->GetTotalUncompressedSize(); |
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706 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 707 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
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708 target["TotalDiskSizeMB"] = boost::lexical_cast<unsigned int>(cs / MEGA_BYTES); |
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709 target["TotalUncompressedSizeMB"] = boost::lexical_cast<unsigned int>(us / MEGA_BYTES); |
238 | 710 |
711 target["CountPatients"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Patient)); | |
712 target["CountStudies"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Study)); | |
713 target["CountSeries"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Series)); | |
714 target["CountInstances"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Instance)); | |
715 } | |
716 | |
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717 |
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718 |
585 | 719 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 720 { |
721 // Get the expected number of instances in this series (from the metadata) | |
202 | 722 std::string s = db_->GetMetadata(id, MetadataType_Series_ExpectedNumberOfInstances); |
199 | 723 |
724 size_t expected; | |
725 try | |
726 { | |
727 expected = boost::lexical_cast<size_t>(s); | |
728 } | |
729 catch (boost::bad_lexical_cast&) | |
730 { | |
731 return SeriesStatus_Unknown; | |
732 } | |
733 | |
734 // Loop over the instances of this series | |
735 std::list<int64_t> children; | |
202 | 736 db_->GetChildrenInternalId(children, id); |
199 | 737 |
738 std::set<size_t> instances; | |
739 for (std::list<int64_t>::const_iterator | |
656 | 740 it = children.begin(); it != children.end(); ++it) |
199 | 741 { |
742 // Get the index of this instance in the series | |
202 | 743 s = db_->GetMetadata(*it, MetadataType_Instance_IndexInSeries); |
199 | 744 size_t index; |
745 try | |
746 { | |
747 index = boost::lexical_cast<size_t>(s); | |
748 } | |
749 catch (boost::bad_lexical_cast&) | |
750 { | |
751 return SeriesStatus_Unknown; | |
752 } | |
753 | |
656 | 754 if (!(index > 0 && index <= expected)) |
199 | 755 { |
756 // Out-of-range instance index | |
757 return SeriesStatus_Inconsistent; | |
758 } | |
759 | |
760 if (instances.find(index) != instances.end()) | |
761 { | |
762 // Twice the same instance index | |
763 return SeriesStatus_Inconsistent; | |
764 } | |
765 | |
766 instances.insert(index); | |
767 } | |
768 | |
769 if (instances.size() == expected) | |
770 { | |
771 return SeriesStatus_Complete; | |
772 } | |
773 else | |
774 { | |
775 return SeriesStatus_Missing; | |
776 } | |
777 } | |
778 | |
779 | |
780 | |
202 | 781 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
782 int64_t resourceId) | |
198
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783 { |
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784 DicomMap tags; |
202 | 785 db_->GetMainDicomTags(tags, resourceId); |
198
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786 target["MainDicomTags"] = Json::objectValue; |
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787 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags); |
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788 } |
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789 |
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790 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 791 const std::string& publicId, |
792 ResourceType expectedType) | |
198
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793 { |
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794 result = Json::objectValue; |
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795 |
206
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796 boost::mutex::scoped_lock lock(mutex_); |
199 | 797 |
198
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798 // Lookup for the requested resource |
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799 int64_t id; |
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800 ResourceType type; |
202 | 801 if (!db_->LookupResource(publicId, id, type) || |
199 | 802 type != expectedType) |
198
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803 { |
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804 return false; |
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805 } |
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806 |
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807 // Find the parent resource (if it exists) |
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808 if (type != ResourceType_Patient) |
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809 { |
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810 int64_t parentId; |
202 | 811 if (!db_->LookupParent(parentId, id)) |
198
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812 { |
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813 throw OrthancException(ErrorCode_InternalError); |
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814 } |
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815 |
202 | 816 std::string parent = db_->GetPublicId(parentId); |
198
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817 |
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818 switch (type) |
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819 { |
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820 case ResourceType_Study: |
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821 result["ParentPatient"] = parent; |
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822 break; |
198
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823 |
269
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824 case ResourceType_Series: |
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825 result["ParentStudy"] = parent; |
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826 break; |
198
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827 |
269
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828 case ResourceType_Instance: |
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829 result["ParentSeries"] = parent; |
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830 break; |
198
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831 |
269
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832 default: |
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833 throw OrthancException(ErrorCode_InternalError); |
198
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834 } |
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835 } |
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836 |
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837 // List the children resources |
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838 std::list<std::string> children; |
202 | 839 db_->GetChildrenPublicId(children, id); |
198
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840 |
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841 if (type != ResourceType_Instance) |
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842 { |
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843 Json::Value c = Json::arrayValue; |
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844 |
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845 for (std::list<std::string>::const_iterator |
656 | 846 it = children.begin(); it != children.end(); ++it) |
198
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847 { |
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848 c.append(*it); |
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849 } |
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850 |
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|
851 switch (type) |
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|
852 { |
269
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|
853 case ResourceType_Patient: |
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|
854 result["Studies"] = c; |
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|
855 break; |
198
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changeset
|
856 |
269
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|
857 case ResourceType_Study: |
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|
858 result["Series"] = c; |
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|
859 break; |
198
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changeset
|
860 |
269
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changeset
|
861 case ResourceType_Series: |
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|
862 result["Instances"] = c; |
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|
863 break; |
198
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changeset
|
864 |
269
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|
865 default: |
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|
866 throw OrthancException(ErrorCode_InternalError); |
198
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|
867 } |
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|
868 } |
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|
869 |
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|
870 // Set the resource type |
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|
871 switch (type) |
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|
872 { |
269
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changeset
|
873 case ResourceType_Patient: |
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|
874 result["Type"] = "Patient"; |
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|
875 break; |
198
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changeset
|
876 |
269
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diff
changeset
|
877 case ResourceType_Study: |
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|
878 result["Type"] = "Study"; |
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|
879 break; |
199 | 880 |
269
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|
881 case ResourceType_Series: |
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|
882 { |
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|
883 result["Type"] = "Series"; |
434
ccf3a0a43dac
EnumerationDictionary
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433
diff
changeset
|
884 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
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|
885 |
269
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|
886 int i; |
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887 if (db_->GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
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|
888 result["ExpectedNumberOfInstances"] = i; |
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|
889 else |
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|
890 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
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diff
changeset
|
891 |
269
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changeset
|
892 break; |
200
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diff
changeset
|
893 } |
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diff
changeset
|
894 |
269
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changeset
|
895 case ResourceType_Instance: |
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|
896 { |
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changeset
|
897 result["Type"] = "Instance"; |
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|
898 |
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|
899 FileInfo attachment; |
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|
900 if (!db_->LookupAttachment(attachment, id, FileContentType_Dicom)) |
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|
901 { |
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|
902 throw OrthancException(ErrorCode_InternalError); |
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|
903 } |
200
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diff
changeset
|
904 |
269
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changeset
|
905 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
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906 result["FileUuid"] = attachment.GetUuid(); |
200
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diff
changeset
|
907 |
269
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changeset
|
908 int i; |
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changeset
|
909 if (db_->GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
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910 result["IndexInSeries"] = i; |
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|
911 else |
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912 result["IndexInSeries"] = Json::nullValue; |
198
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913 |
269
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914 break; |
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915 } |
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916 |
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917 default: |
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918 throw OrthancException(ErrorCode_InternalError); |
198
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919 } |
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920 |
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921 // Record the remaining information |
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922 result["ID"] = publicId; |
202 | 923 MainDicomTagsToJson(result, id); |
198
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924 |
315 | 925 std::string tmp; |
926 | |
927 tmp = db_->GetMetadata(id, MetadataType_AnonymizedFrom); | |
928 if (tmp.size() != 0) | |
929 result["AnonymizedFrom"] = tmp; | |
930 | |
931 tmp = db_->GetMetadata(id, MetadataType_ModifiedFrom); | |
932 if (tmp.size() != 0) | |
933 result["ModifiedFrom"] = tmp; | |
934 | |
511
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935 if (type == ResourceType_Patient || |
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936 type == ResourceType_Study || |
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937 type == ResourceType_Series) |
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|
938 { |
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|
939 result["IsStable"] = !unstableResources_.Contains(id); |
1148
ac36589f699e
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diff
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|
940 |
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LastUpdate metadata is now always returned for patients, studies and series
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diff
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|
941 tmp = db_->GetMetadata(id, MetadataType_LastUpdate); |
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diff
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|
942 if (tmp.size() != 0) |
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diff
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|
943 result["LastUpdate"] = tmp; |
511
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944 } |
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945 |
198
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946 return true; |
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947 } |
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948 |
0 | 949 |
232
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950 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
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951 const std::string& instanceUuid, |
233 | 952 FileContentType contentType) |
0 | 953 { |
206
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954 boost::mutex::scoped_lock lock(mutex_); |
0 | 955 |
193
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956 int64_t id; |
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957 ResourceType type; |
701 | 958 if (!db_->LookupResource(instanceUuid, id, type)) |
192
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959 { |
1113
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960 throw OrthancException(ErrorCode_UnknownResource); |
192
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961 } |
193
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|
962 |
232
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963 if (db_->LookupAttachment(attachment, id, contentType)) |
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964 { |
233 | 965 assert(attachment.GetContentType() == contentType); |
232
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966 return true; |
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|
967 } |
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|
968 else |
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|
969 { |
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|
970 return false; |
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|
971 } |
192
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|
972 } |
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|
973 |
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|
974 |
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|
975 |
0 | 976 void ServerIndex::GetAllUuids(Json::Value& target, |
190 | 977 ResourceType resourceType) |
0 | 978 { |
206
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|
979 boost::mutex::scoped_lock lock(mutex_); |
202 | 980 db_->GetAllPublicIds(target, resourceType); |
0 | 981 } |
982 | |
983 | |
984 bool ServerIndex::GetChanges(Json::Value& target, | |
204 | 985 int64_t since, |
0 | 986 unsigned int maxResults) |
987 { | |
206
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|
988 boost::mutex::scoped_lock lock(mutex_); |
237
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diff
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|
989 db_->GetChanges(target, since, maxResults); |
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|
990 return true; |
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diff
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|
991 } |
0 | 992 |
237
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|
993 bool ServerIndex::GetLastChange(Json::Value& target) |
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|
994 { |
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995 boost::mutex::scoped_lock lock(mutex_); |
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diff
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|
996 db_->GetLastChange(target); |
204 | 997 return true; |
0 | 998 } |
231 | 999 |
1000 void ServerIndex::LogExportedResource(const std::string& publicId, | |
1001 const std::string& remoteModality) | |
1002 { | |
1003 boost::mutex::scoped_lock lock(mutex_); | |
1004 | |
1005 int64_t id; | |
1006 ResourceType type; | |
1007 if (!db_->LookupResource(publicId, id, type)) | |
1008 { | |
1009 throw OrthancException(ErrorCode_InternalError); | |
1010 } | |
1011 | |
1012 std::string patientId; | |
1013 std::string studyInstanceUid; | |
1014 std::string seriesInstanceUid; | |
1015 std::string sopInstanceUid; | |
1016 | |
1017 int64_t currentId = id; | |
1018 ResourceType currentType = type; | |
1019 | |
1020 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1021 bool done = false; | |
1022 while (!done) | |
1023 { | |
1024 DicomMap map; | |
1025 db_->GetMainDicomTags(map, currentId); | |
1026 | |
1027 switch (currentType) | |
1028 { | |
269
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|
1029 case ResourceType_Patient: |
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1030 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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1031 done = true; |
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|
1032 break; |
231 | 1033 |
269
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|
1034 case ResourceType_Study: |
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|
1035 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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1036 currentType = ResourceType_Patient; |
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1037 break; |
231 | 1038 |
269
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|
1039 case ResourceType_Series: |
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|
1040 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
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1041 currentType = ResourceType_Study; |
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|
1042 break; |
231 | 1043 |
269
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1044 case ResourceType_Instance: |
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1045 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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1046 currentType = ResourceType_Series; |
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1047 break; |
231 | 1048 |
269
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|
1049 default: |
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1050 throw OrthancException(ErrorCode_InternalError); |
231 | 1051 } |
1052 | |
1053 // If we have not reached the Patient level, find the parent of | |
1054 // the current resource | |
1055 if (!done) | |
1056 { | |
375
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diff
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|
1057 bool ok = db_->LookupParent(currentId, currentId); |
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diff
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|
1058 assert(ok); |
231 | 1059 } |
1060 } | |
1061 | |
1062 // No need for a SQLite::Transaction here, as we only insert 1 record | |
1063 db_->LogExportedResource(type, | |
1064 publicId, | |
1065 remoteModality, | |
1066 patientId, | |
1067 studyInstanceUid, | |
1068 seriesInstanceUid, | |
1069 sopInstanceUid); | |
1070 } | |
1071 | |
1072 | |
1073 bool ServerIndex::GetExportedResources(Json::Value& target, | |
1074 int64_t since, | |
1075 unsigned int maxResults) | |
1076 { | |
1077 boost::mutex::scoped_lock lock(mutex_); | |
1078 db_->GetExportedResources(target, since, maxResults); | |
1079 return true; | |
1080 } | |
237
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1081 |
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1082 bool ServerIndex::GetLastExportedResource(Json::Value& target) |
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|
1083 { |
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1084 boost::mutex::scoped_lock lock(mutex_); |
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|
1085 db_->GetLastExportedResource(target); |
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|
1086 return true; |
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|
1087 } |
268
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diff
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|
1088 |
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|
1089 |
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1090 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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1091 { |
269
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1092 if (maximumStorageSize_ != 0) |
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1093 { |
278
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|
1094 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
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|
1095 assert(db_->GetTotalCompressedSize() == currentSize); |
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|
1096 |
269
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1097 if (currentSize + instanceSize > maximumStorageSize_) |
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|
1098 { |
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|
1099 return true; |
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|
1100 } |
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1101 } |
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1102 |
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1103 if (maximumPatients_ != 0) |
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1104 { |
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1105 uint64_t patientCount = db_->GetResourceCount(ResourceType_Patient); |
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1106 if (patientCount > maximumPatients_) |
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1107 { |
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1108 return true; |
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1109 } |
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1110 } |
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1111 |
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1112 return false; |
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1113 } |
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1114 |
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1115 |
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1116 void ServerIndex::Recycle(uint64_t instanceSize, |
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1117 const std::string& newPatientId) |
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1118 { |
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1119 if (!IsRecyclingNeeded(instanceSize)) |
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1120 { |
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1121 return; |
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1122 } |
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1123 |
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1124 // Check whether other DICOM instances from this patient are |
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1125 // already stored |
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1126 int64_t patientToAvoid; |
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1127 ResourceType type; |
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1128 bool hasPatientToAvoid = db_->LookupResource(newPatientId, patientToAvoid, type); |
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1129 |
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1130 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1131 { |
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1132 throw OrthancException(ErrorCode_InternalError); |
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1133 } |
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1134 |
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1135 // Iteratively select patient to remove until there is enough |
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1136 // space in the DICOM store |
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1137 int64_t patientToRecycle; |
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1138 while (true) |
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1139 { |
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1140 // If other instances of this patient are already in the store, |
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1141 // we must avoid to recycle them |
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1142 bool ok = hasPatientToAvoid ? |
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1143 db_->SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
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1144 db_->SelectPatientToRecycle(patientToRecycle); |
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1145 |
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1146 if (!ok) |
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1147 { |
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1148 throw OrthancException(ErrorCode_FullStorage); |
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1149 } |
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1150 |
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1151 LOG(INFO) << "Recycling one patient"; |
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1152 db_->DeleteResource(patientToRecycle); |
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1153 |
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1154 if (!IsRecyclingNeeded(instanceSize)) |
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1155 { |
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1156 // OK, we're done |
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1157 break; |
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1158 } |
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1159 } |
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1160 } |
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1161 |
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1162 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1163 { |
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1164 boost::mutex::scoped_lock lock(mutex_); |
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1165 maximumPatients_ = count; |
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1166 |
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1167 if (count == 0) |
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1168 { |
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1169 LOG(WARNING) << "No limit on the number of stored patients"; |
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1170 } |
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1171 else |
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1172 { |
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1173 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1174 } |
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1175 |
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1176 StandaloneRecycling(); |
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1177 } |
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1178 |
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1179 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1180 { |
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1181 boost::mutex::scoped_lock lock(mutex_); |
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1182 maximumStorageSize_ = size; |
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1183 |
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1184 if (size == 0) |
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1185 { |
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1186 LOG(WARNING) << "No limit on the size of the storage area"; |
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1187 } |
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1188 else |
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1189 { |
440
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1190 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
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1191 } |
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1192 |
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1193 StandaloneRecycling(); |
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1194 } |
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1195 |
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1196 void ServerIndex::StandaloneRecycling() |
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1197 { |
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1198 // WARNING: No mutex here, do not include this as a public method |
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1199 Transaction t(*this); |
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1200 Recycle(0, ""); |
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1201 t.Commit(0); |
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1202 } |
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1203 |
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1204 |
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1205 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1206 { |
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1207 boost::mutex::scoped_lock lock(mutex_); |
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1208 |
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1209 // Lookup for the requested resource |
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1210 int64_t id; |
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1211 ResourceType type; |
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1212 if (!db_->LookupResource(publicId, id, type) || |
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1213 type != ResourceType_Patient) |
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1214 { |
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1215 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1216 } |
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1217 |
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1218 return db_->IsProtectedPatient(id); |
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1219 } |
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1220 |
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1221 |
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1222 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1223 bool isProtected) |
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1224 { |
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1225 boost::mutex::scoped_lock lock(mutex_); |
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1226 |
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1227 // Lookup for the requested resource |
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1228 int64_t id; |
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1229 ResourceType type; |
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1230 if (!db_->LookupResource(publicId, id, type) || |
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1231 type != ResourceType_Patient) |
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1232 { |
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1233 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1234 } |
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1235 |
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1236 // No need for a SQLite::Transaction here, as we only make 1 write to the DB |
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1237 db_->SetProtectedPatient(id, isProtected); |
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1238 |
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1239 if (isProtected) |
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1240 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1241 else |
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1242 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1243 } |
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1244 |
304 | 1245 |
714
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1246 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1247 const std::string& publicId) |
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1248 { |
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1249 result.clear(); |
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1250 |
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1251 boost::mutex::scoped_lock lock(mutex_); |
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1252 |
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1253 ResourceType type; |
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1254 int64_t resource; |
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1255 if (!db_->LookupResource(publicId, resource, type)) |
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1256 { |
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1257 throw OrthancException(ErrorCode_UnknownResource); |
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1258 } |
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1259 |
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1260 if (type == ResourceType_Instance) |
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1261 { |
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1262 // An instance cannot have a child |
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1263 throw OrthancException(ErrorCode_BadParameterType); |
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1264 } |
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1265 |
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1266 std::list<int64_t> tmp; |
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1267 db_->GetChildrenInternalId(tmp, resource); |
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1268 |
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1269 for (std::list<int64_t>::const_iterator |
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1270 it = tmp.begin(); it != tmp.end(); ++it) |
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1271 { |
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1272 result.push_back(db_->GetPublicId(*it)); |
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1273 } |
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1274 } |
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1275 |
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1276 |
304 | 1277 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1278 const std::string& publicId) | |
1279 { | |
1280 result.clear(); | |
1281 | |
1282 boost::mutex::scoped_lock lock(mutex_); | |
1283 | |
1284 ResourceType type; | |
1285 int64_t top; | |
1286 if (!db_->LookupResource(publicId, top, type)) | |
1287 { | |
1288 throw OrthancException(ErrorCode_UnknownResource); | |
1289 } | |
1290 | |
1291 if (type == ResourceType_Instance) | |
1292 { | |
1293 // The resource is already an instance: Do not go down the hierarchy | |
1294 result.push_back(publicId); | |
1295 return; | |
1296 } | |
1297 | |
1298 std::stack<int64_t> toExplore; | |
1299 toExplore.push(top); | |
1300 | |
1301 std::list<int64_t> tmp; | |
1302 | |
1303 while (!toExplore.empty()) | |
1304 { | |
1305 // Get the internal ID of the current resource | |
1306 int64_t resource = toExplore.top(); | |
1307 toExplore.pop(); | |
1308 | |
1309 if (db_->GetResourceType(resource) == ResourceType_Instance) | |
1310 { | |
1311 result.push_back(db_->GetPublicId(resource)); | |
1312 } | |
1313 else | |
1314 { | |
1315 // Tag all the children of this resource as to be explored | |
1316 db_->GetChildrenInternalId(tmp, resource); | |
1317 for (std::list<int64_t>::const_iterator | |
656 | 1318 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1319 { |
1320 toExplore.push(*it); | |
1321 } | |
1322 } | |
1323 } | |
1324 } | |
1325 | |
306
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1326 |
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1327 void ServerIndex::SetMetadata(const std::string& publicId, |
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1328 MetadataType type, |
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1329 const std::string& value) |
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1330 { |
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1331 boost::mutex::scoped_lock lock(mutex_); |
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1332 |
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1333 ResourceType rtype; |
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1334 int64_t id; |
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1335 if (!db_->LookupResource(publicId, id, rtype)) |
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1336 { |
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1337 throw OrthancException(ErrorCode_UnknownResource); |
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1338 } |
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1339 |
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1340 db_->SetMetadata(id, type, value); |
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1341 } |
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1342 |
438 | 1343 |
1344 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1345 MetadataType type) | |
1346 { | |
1347 boost::mutex::scoped_lock lock(mutex_); | |
1348 | |
1349 ResourceType rtype; | |
1350 int64_t id; | |
1351 if (!db_->LookupResource(publicId, id, rtype)) | |
1352 { | |
1353 throw OrthancException(ErrorCode_UnknownResource); | |
1354 } | |
1355 | |
1356 db_->DeleteMetadata(id, type); | |
1357 } | |
1358 | |
1359 | |
306
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1360 bool ServerIndex::LookupMetadata(std::string& target, |
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1361 const std::string& publicId, |
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1362 MetadataType type) |
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1363 { |
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1364 boost::mutex::scoped_lock lock(mutex_); |
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1365 |
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1366 ResourceType rtype; |
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1367 int64_t id; |
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1368 if (!db_->LookupResource(publicId, id, rtype)) |
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1369 { |
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1370 throw OrthancException(ErrorCode_UnknownResource); |
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1371 } |
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1372 |
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1373 return db_->LookupMetadata(target, id, type); |
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1374 } |
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1375 |
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1376 |
739 | 1377 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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1378 const std::string& publicId) |
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1379 { |
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1380 boost::mutex::scoped_lock lock(mutex_); |
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1381 |
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1382 ResourceType rtype; |
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1383 int64_t id; |
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1384 if (!db_->LookupResource(publicId, id, rtype)) |
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1385 { |
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1386 throw OrthancException(ErrorCode_UnknownResource); |
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1387 } |
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1388 |
739 | 1389 db_->ListAvailableMetadata(target, id); |
436
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1390 } |
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1391 |
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1392 |
697
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1393 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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1394 const std::string& publicId, |
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1395 ResourceType expectedType) |
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1396 { |
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1397 boost::mutex::scoped_lock lock(mutex_); |
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1398 |
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1399 ResourceType type; |
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1400 int64_t id; |
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1401 if (!db_->LookupResource(publicId, id, type) || |
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1402 expectedType != type) |
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1403 { |
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1404 throw OrthancException(ErrorCode_UnknownResource); |
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1405 } |
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1406 |
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1407 db_->ListAvailableAttachments(target, id); |
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1408 } |
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1409 |
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1410 |
306
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1411 bool ServerIndex::LookupParent(std::string& target, |
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1412 const std::string& publicId) |
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1413 { |
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1414 boost::mutex::scoped_lock lock(mutex_); |
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1415 |
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1416 ResourceType type; |
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1417 int64_t id; |
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1418 if (!db_->LookupResource(publicId, id, type)) |
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1419 { |
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1420 throw OrthancException(ErrorCode_UnknownResource); |
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1421 } |
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1422 |
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1423 int64_t parentId; |
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1424 if (db_->LookupParent(parentId, id)) |
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1425 { |
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1426 target = db_->GetPublicId(parentId); |
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1427 return true; |
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1428 } |
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1429 else |
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1430 { |
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1431 return false; |
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1432 } |
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1433 } |
310 | 1434 |
1435 | |
1436 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1437 { | |
1438 boost::mutex::scoped_lock lock(mutex_); | |
311 | 1439 |
1440 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
1441 | |
1442 transaction->Begin(); | |
1443 uint64_t seq = db_->IncrementGlobalSequence(sequence); | |
1444 transaction->Commit(); | |
1445 | |
1446 return seq; | |
310 | 1447 } |
315 | 1448 |
1449 | |
1450 | |
1451 void ServerIndex::LogChange(ChangeType changeType, | |
1452 const std::string& publicId) | |
1453 { | |
1454 boost::mutex::scoped_lock lock(mutex_); | |
1455 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
1456 transaction->Begin(); | |
1457 | |
1458 int64_t id; | |
1459 ResourceType type; | |
1460 if (!db_->LookupResource(publicId, id, type)) | |
1461 { | |
1462 throw OrthancException(ErrorCode_UnknownResource); | |
1463 } | |
1464 | |
1198 | 1465 db_->LogChange(id, changeType, type, publicId); |
315 | 1466 |
1467 transaction->Commit(); | |
1468 } | |
413
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1469 |
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1470 |
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1471 void ServerIndex::DeleteChanges() |
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1472 { |
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1473 boost::mutex::scoped_lock lock(mutex_); |
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1474 db_->ClearTable("Changes"); |
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1475 } |
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1476 |
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1477 void ServerIndex::DeleteExportedResources() |
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1478 { |
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|
1479 boost::mutex::scoped_lock lock(mutex_); |
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1480 db_->ClearTable("ExportedResources"); |
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1481 } |
440
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1482 |
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1483 |
646 | 1484 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
1485 /* out */ uint64_t& uncompressedSize, | |
1486 /* out */ unsigned int& countStudies, | |
1487 /* out */ unsigned int& countSeries, | |
1488 /* out */ unsigned int& countInstances, | |
1489 /* in */ int64_t id, | |
1490 /* in */ ResourceType type) | |
440
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1491 { |
646 | 1492 std::stack<int64_t> toExplore; |
1493 toExplore.push(id); | |
440
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1494 |
646 | 1495 countInstances = 0; |
1496 countSeries = 0; | |
1497 countStudies = 0; | |
1498 compressedSize = 0; | |
1499 uncompressedSize = 0; | |
440
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1500 |
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1501 while (!toExplore.empty()) |
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1502 { |
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1503 // Get the internal ID of the current resource |
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1504 int64_t resource = toExplore.top(); |
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1505 toExplore.pop(); |
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1506 |
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1507 ResourceType thisType = db_->GetResourceType(resource); |
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1508 |
702
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1509 std::list<FileContentType> f; |
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1510 db_->ListAvailableAttachments(f, resource); |
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1511 |
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1512 for (std::list<FileContentType>::const_iterator |
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1513 it = f.begin(); it != f.end(); ++it) |
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1514 { |
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1515 FileInfo attachment; |
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1516 if (db_->LookupAttachment(attachment, resource, *it)) |
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1517 { |
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1518 compressedSize += attachment.GetCompressedSize(); |
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1519 uncompressedSize += attachment.GetUncompressedSize(); |
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1520 } |
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1521 } |
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|
1522 |
440
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1523 if (thisType == ResourceType_Instance) |
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1524 { |
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1525 countInstances++; |
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1526 } |
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1527 else |
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|
1528 { |
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|
1529 switch (thisType) |
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1530 { |
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|
1531 case ResourceType_Study: |
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1532 countStudies++; |
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1533 break; |
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1534 |
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|
1535 case ResourceType_Series: |
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1536 countSeries++; |
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1537 break; |
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1538 |
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1539 default: |
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1540 break; |
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1541 } |
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1542 |
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1543 // Tag all the children of this resource as to be explored |
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1544 std::list<int64_t> tmp; |
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1545 db_->GetChildrenInternalId(tmp, resource); |
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1546 for (std::list<int64_t>::const_iterator |
656 | 1547 it = tmp.begin(); it != tmp.end(); ++it) |
440
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1548 { |
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1549 toExplore.push(*it); |
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1550 } |
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1551 } |
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1552 } |
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1553 |
646 | 1554 if (countStudies == 0) |
1555 { | |
1556 countStudies = 1; | |
1557 } | |
1558 | |
1559 if (countSeries == 0) | |
1560 { | |
1561 countSeries = 1; | |
1562 } | |
1563 } | |
1564 | |
1565 | |
1566 | |
1567 void ServerIndex::GetStatistics(Json::Value& target, | |
1568 const std::string& publicId) | |
1569 { | |
1570 boost::mutex::scoped_lock lock(mutex_); | |
1571 | |
1572 ResourceType type; | |
1573 int64_t top; | |
1574 if (!db_->LookupResource(publicId, top, type)) | |
1575 { | |
1576 throw OrthancException(ErrorCode_UnknownResource); | |
1577 } | |
1578 | |
1579 uint64_t uncompressedSize; | |
1580 uint64_t compressedSize; | |
1581 unsigned int countStudies; | |
1582 unsigned int countSeries; | |
1583 unsigned int countInstances; | |
1584 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1585 countSeries, countInstances, top, type); | |
1586 | |
440
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1587 target = Json::objectValue; |
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1588 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
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1589 target["DiskSizeMB"] = boost::lexical_cast<unsigned int>(compressedSize / MEGA_BYTES); |
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1590 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
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1591 target["UncompressedSizeMB"] = boost::lexical_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
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|
1592 |
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1593 switch (type) |
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1594 { |
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1595 // Do NOT add "break" below this point! |
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1596 case ResourceType_Patient: |
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1597 target["CountStudies"] = countStudies; |
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1598 |
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1599 case ResourceType_Study: |
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1600 target["CountSeries"] = countSeries; |
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1601 |
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1602 case ResourceType_Series: |
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1603 target["CountInstances"] = countInstances; |
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1604 |
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1605 case ResourceType_Instance: |
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1606 default: |
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1607 break; |
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1608 } |
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1609 } |
511
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1610 |
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1611 |
646 | 1612 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
1613 /* out */ uint64_t& uncompressedSize, | |
1614 /* out */ unsigned int& countStudies, | |
1615 /* out */ unsigned int& countSeries, | |
1616 /* out */ unsigned int& countInstances, | |
1617 const std::string& publicId) | |
1618 { | |
1619 boost::mutex::scoped_lock lock(mutex_); | |
1620 | |
1621 ResourceType type; | |
1622 int64_t top; | |
1623 if (!db_->LookupResource(publicId, top, type)) | |
1624 { | |
1625 throw OrthancException(ErrorCode_UnknownResource); | |
1626 } | |
1627 | |
1628 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1629 countSeries, countInstances, top, type); | |
1630 } | |
1631 | |
1632 | |
511
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1633 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
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1634 { |
810
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1635 int stableAge = Configuration::GetGlobalIntegerParameter("StableAge", 60); |
511
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1636 if (stableAge <= 0) |
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1637 { |
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1638 stableAge = 60; |
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1639 } |
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1640 |
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1641 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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1642 |
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1643 while (!that->done_) |
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1644 { |
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1645 // Check for stable resources each second |
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1646 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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1647 |
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1648 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 1649 |
511
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1650 while (!that->unstableResources_.IsEmpty() && |
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1651 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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1652 { |
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1653 // This DICOM resource has not received any new instance for |
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1654 // some time. It can be considered as stable. |
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1655 |
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1656 UnstableResourcePayload payload; |
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1657 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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1658 |
513 | 1659 // Ensure that the resource is still existing before logging the change |
1660 if (that->db_->IsExistingResource(id)) | |
511
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1661 { |
1177
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|
1662 switch (payload.GetResourceType()) |
513 | 1663 { |
1177
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|
1664 case ResourceType_Patient: |
1198 | 1665 that->db_->LogChange(id, ChangeType_StablePatient, ResourceType_Patient, payload.GetPublicId()); |
513 | 1666 break; |
511
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1667 |
1177
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diff
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|
1668 case ResourceType_Study: |
1198 | 1669 that->db_->LogChange(id, ChangeType_StableStudy, ResourceType_Study, payload.GetPublicId()); |
513 | 1670 break; |
511
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|
1671 |
1177
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diff
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|
1672 case ResourceType_Series: |
1198 | 1673 that->db_->LogChange(id, ChangeType_StableSeries, ResourceType_Series, payload.GetPublicId()); |
513 | 1674 break; |
1675 | |
1676 default: | |
1677 throw OrthancException(ErrorCode_InternalError); | |
1678 } | |
1679 | |
1680 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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1681 } |
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1682 } |
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|
1683 } |
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|
1684 |
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|
1685 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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1686 } |
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|
1687 |
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|
1688 |
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|
1689 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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|
1690 Orthanc::ResourceType type, |
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|
1691 const std::string& publicId) |
511
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|
1692 { |
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|
1693 // WARNING: Before calling this method, "mutex_" must be locked. |
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1694 |
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|
1695 assert(type == Orthanc::ResourceType_Patient || |
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|
1696 type == Orthanc::ResourceType_Study || |
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|
1697 type == Orthanc::ResourceType_Series); |
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|
1698 |
1177
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diff
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|
1699 UnstableResourcePayload payload(type, publicId); |
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diff
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|
1700 unstableResources_.AddOrMakeMostRecent(id, payload); |
511
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|
1701 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
1189
6b9b02a16e99
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1702 |
1198 | 1703 db_->LogChange(id, ChangeType_NewChildInstance, type, publicId); |
511
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|
1704 } |
521 | 1705 |
1706 | |
1707 | |
1162 | 1708 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1709 const DicomTag& tag, | |
1710 const std::string& value, | |
1711 ResourceType type) | |
615 | 1712 { |
1713 result.clear(); | |
1714 | |
1715 boost::mutex::scoped_lock lock(mutex_); | |
1716 | |
1717 std::list<int64_t> id; | |
1162 | 1718 db_->LookupIdentifier(id, tag, value); |
615 | 1719 |
1720 for (std::list<int64_t>::const_iterator | |
656 | 1721 it = id.begin(); it != id.end(); ++it) |
615 | 1722 { |
1723 if (db_->GetResourceType(*it) == type) | |
1724 { | |
1725 result.push_back(db_->GetPublicId(*it)); | |
1726 } | |
1727 } | |
1728 } | |
1729 | |
1730 | |
1162 | 1731 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1732 const DicomTag& tag, | |
1733 const std::string& value) | |
521 | 1734 { |
1735 result.clear(); | |
1736 | |
1737 boost::mutex::scoped_lock lock(mutex_); | |
1738 | |
1739 std::list<int64_t> id; | |
1162 | 1740 db_->LookupIdentifier(id, tag, value); |
521 | 1741 |
1742 for (std::list<int64_t>::const_iterator | |
656 | 1743 it = id.begin(); it != id.end(); ++it) |
521 | 1744 { |
1745 result.push_back(db_->GetPublicId(*it)); | |
1746 } | |
1747 } | |
1748 | |
1749 | |
1162 | 1750 void ServerIndex::LookupIdentifier(std::list< std::pair<ResourceType, std::string> >& result, |
1751 const std::string& value) | |
521 | 1752 { |
1753 result.clear(); | |
1754 | |
1755 boost::mutex::scoped_lock lock(mutex_); | |
1756 | |
1757 std::list<int64_t> id; | |
1162 | 1758 db_->LookupIdentifier(id, value); |
521 | 1759 |
1760 for (std::list<int64_t>::const_iterator | |
656 | 1761 it = id.begin(); it != id.end(); ++it) |
521 | 1762 { |
1139
f167b672db94
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1763 result.push_back(std::make_pair(db_->GetResourceType(*it), |
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|
1764 db_->GetPublicId(*it))); |
521 | 1765 } |
1766 } | |
699
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|
1767 |
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1768 |
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|
1769 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1770 const std::string& publicId) |
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1771 { |
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1772 boost::mutex::scoped_lock lock(mutex_); |
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1773 |
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1774 Transaction t(*this); |
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1775 |
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1776 ResourceType resourceType; |
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1777 int64_t resourceId; |
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|
1778 if (!db_->LookupResource(publicId, resourceId, resourceType)) |
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1779 { |
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1780 return StoreStatus_Failure; // Inexistent resource |
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1781 } |
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|
1782 |
704
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|
1783 // Remove possible previous attachment |
699
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|
1784 db_->DeleteAttachment(resourceId, attachment.GetContentType()); |
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1785 |
704
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diff
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|
1786 // Locate the patient of the target resource |
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1787 int64_t patientId = resourceId; |
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1788 for (;;) |
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1789 { |
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1790 int64_t parent; |
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1791 if (db_->LookupParent(parent, patientId)) |
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1792 { |
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1793 // We have not reached the patient level yet |
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1794 patientId = parent; |
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1795 } |
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1796 else |
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1797 { |
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1798 // We have reached the patient level |
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1799 break; |
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1800 } |
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1801 } |
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1802 |
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1803 // Possibly apply the recycling mechanism while preserving this patient |
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1804 assert(db_->GetResourceType(patientId) == ResourceType_Patient); |
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1805 Recycle(attachment.GetCompressedSize(), db_->GetPublicId(patientId)); |
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1806 |
699
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1807 db_->AddAttachment(resourceId, attachment); |
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1808 |
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1809 t.Commit(attachment.GetCompressedSize()); |
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1810 |
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1811 return StoreStatus_Success; |
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1812 } |
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1813 |
702
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1814 |
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1815 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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1816 FileContentType type) |
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1817 { |
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1818 boost::mutex::scoped_lock lock(mutex_); |
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1819 |
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1820 Transaction t(*this); |
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1821 |
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1822 ResourceType rtype; |
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1823 int64_t id; |
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1824 if (!db_->LookupResource(publicId, id, rtype)) |
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1825 { |
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1826 throw OrthancException(ErrorCode_UnknownResource); |
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1827 } |
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1828 |
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1829 db_->DeleteAttachment(id, type); |
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1830 |
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1831 t.Commit(0); |
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1832 } |
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1833 |
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1834 |
1002
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1835 bool ServerIndex::GetMetadata(Json::Value& target, |
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1836 const std::string& publicId) |
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1837 { |
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1838 boost::mutex::scoped_lock lock(mutex_); |
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1839 |
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1840 target = Json::objectValue; |
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1841 |
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1842 ResourceType type; |
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1843 int64_t id; |
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1844 if (!db_->LookupResource(publicId, id, type)) |
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1845 { |
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1846 return false; |
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1847 } |
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1848 |
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1849 std::list<MetadataType> metadata; |
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1850 db_->ListAvailableMetadata(metadata, id); |
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1851 |
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1852 for (std::list<MetadataType>::const_iterator |
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1853 it = metadata.begin(); it != metadata.end(); it++) |
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1854 { |
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1855 std::string key = EnumerationToString(*it); |
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1856 std::string value = db_->GetMetadata(id, *it); |
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1857 target[key] = value; |
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1858 } |
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1859 |
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1860 return true; |
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1861 } |
1218
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1862 |
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1863 |
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1864 std::string ServerIndex::GetGlobalProperty(GlobalProperty property, |
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1865 const std::string& defaultValue) |
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1866 { |
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1867 boost::mutex::scoped_lock lock(mutex_); |
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1868 return db_->GetGlobalProperty(property, defaultValue); |
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1869 } |
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|
1870 |
0 | 1871 } |