Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 1235:9b4977e3c19d
abstraction
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Fri, 05 Dec 2014 14:31:46 +0100 |
parents | efece308018e |
children | 21d84e3acc0d |
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 "FromDcmtkBridge.h" | |
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47 #include "ServerContext.h" |
0 | 48 |
49 #include <boost/lexical_cast.hpp> | |
50 #include <stdio.h> | |
108 | 51 #include <glog/logging.h> |
0 | 52 |
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53 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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54 |
62 | 55 namespace Orthanc |
0 | 56 { |
57 namespace Internals | |
58 { | |
202 | 59 class ServerIndexListener : public IServerIndexListener |
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60 { |
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61 private: |
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62 struct FileToRemove |
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63 { |
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64 private: |
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65 std::string uuid_; |
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66 FileContentType type_; |
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67 |
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68 public: |
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69 FileToRemove(const FileInfo& info) : uuid_(info.GetUuid()), |
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70 type_(info.GetContentType()) |
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71 { |
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72 } |
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73 |
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74 const std::string& GetUuid() const |
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75 { |
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76 return uuid_; |
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77 } |
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78 |
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79 FileContentType GetContentType() const |
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80 { |
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81 return type_; |
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82 } |
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83 }; |
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84 |
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85 ServerContext& context_; |
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86 bool hasRemainingLevel_; |
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87 ResourceType remainingType_; |
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88 std::string remainingPublicId_; |
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89 std::list<FileToRemove> pendingFilesToRemove_; |
1196 | 90 std::list<ServerIndexChange> pendingChanges_; |
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91 uint64_t sizeOfFilesToRemove_; |
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92 bool insideTransaction_; |
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93 |
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94 void Reset() |
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95 { |
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96 sizeOfFilesToRemove_ = 0; |
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97 hasRemainingLevel_ = false; |
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98 pendingFilesToRemove_.clear(); |
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99 pendingChanges_.clear(); |
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100 } |
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101 |
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102 public: |
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103 ServerIndexListener(ServerContext& context) : context_(context), |
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104 insideTransaction_(false) |
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105 { |
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106 Reset(); |
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107 assert(ResourceType_Patient < ResourceType_Study && |
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108 ResourceType_Study < ResourceType_Series && |
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109 ResourceType_Series < ResourceType_Instance); |
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110 } |
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111 |
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112 void StartTransaction() |
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113 { |
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114 Reset(); |
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115 insideTransaction_ = true; |
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116 } |
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117 |
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118 void EndTransaction() |
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119 { |
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120 insideTransaction_ = false; |
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121 } |
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122 |
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123 uint64_t GetSizeOfFilesToRemove() |
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124 { |
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125 return sizeOfFilesToRemove_; |
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126 } |
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127 |
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128 void CommitFilesToRemove() |
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129 { |
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130 for (std::list<FileToRemove>::const_iterator |
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131 it = pendingFilesToRemove_.begin(); |
656 | 132 it != pendingFilesToRemove_.end(); ++it) |
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133 { |
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134 context_.RemoveFile(it->GetUuid(), it->GetContentType()); |
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135 } |
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136 } |
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137 |
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138 void CommitChanges() |
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139 { |
1196 | 140 for (std::list<ServerIndexChange>::const_iterator |
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141 it = pendingChanges_.begin(); |
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142 it != pendingChanges_.end(); it++) |
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143 { |
1198 | 144 context_.SignalChange(*it); |
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145 } |
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146 } |
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147 |
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148 virtual void SignalRemainingAncestor(ResourceType parentType, |
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149 const std::string& publicId) |
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150 { |
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151 LOG(INFO) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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152 |
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153 if (hasRemainingLevel_) |
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154 { |
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155 if (parentType < remainingType_) |
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156 { |
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157 remainingType_ = parentType; |
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158 remainingPublicId_ = publicId; |
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159 } |
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160 } |
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161 else |
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162 { |
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163 hasRemainingLevel_ = true; |
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164 remainingType_ = parentType; |
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165 remainingPublicId_ = publicId; |
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166 } |
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167 } |
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168 |
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169 virtual void SignalFileDeleted(const FileInfo& info) |
201
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170 { |
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171 assert(Toolbox::IsUuid(info.GetUuid())); |
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172 pendingFilesToRemove_.push_back(FileToRemove(info)); |
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173 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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174 } |
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175 |
1198 | 176 virtual void SignalChange(const ServerIndexChange& change) |
1158 | 177 { |
1198 | 178 LOG(INFO) << "Change related to resource " << change.GetPublicId() << " of type " |
179 << EnumerationToString(change.GetResourceType()) << ": " | |
180 << EnumerationToString(change.GetChangeType()); | |
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181 |
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182 if (insideTransaction_) |
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183 { |
1198 | 184 pendingChanges_.push_back(change); |
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185 } |
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186 else |
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187 { |
1198 | 188 context_.SignalChange(change); |
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189 } |
1158 | 190 } |
191 | |
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192 bool HasRemainingLevel() const |
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193 { |
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194 return hasRemainingLevel_; |
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195 } |
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196 |
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197 ResourceType GetRemainingType() const |
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198 { |
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199 assert(HasRemainingLevel()); |
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200 return remainingType_; |
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201 } |
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202 |
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203 const std::string& GetRemainingPublicId() const |
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204 { |
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205 assert(HasRemainingLevel()); |
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206 return remainingPublicId_; |
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207 } |
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208 }; |
0 | 209 } |
210 | |
211 | |
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212 class ServerIndex::Transaction |
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213 { |
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214 private: |
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215 ServerIndex& index_; |
1235 | 216 std::auto_ptr<SQLite::ITransaction> transaction_; |
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217 bool isCommitted_; |
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218 |
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219 public: |
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220 Transaction(ServerIndex& index) : |
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221 index_(index), |
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222 isCommitted_(false) |
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223 { |
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224 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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225 |
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226 transaction_.reset(index_.db_->StartTransaction()); |
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227 transaction_->Begin(); |
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228 |
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229 index_.listener_->StartTransaction(); |
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230 } |
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231 |
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232 ~Transaction() |
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233 { |
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234 index_.listener_->EndTransaction(); |
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235 } |
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236 |
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237 void Commit(uint64_t sizeOfAddedFiles) |
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238 { |
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239 if (!isCommitted_) |
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240 { |
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241 transaction_->Commit(); |
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242 |
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243 // We can remove the files once the SQLite transaction has |
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244 // been successfully committed. Some files might have to be |
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245 // deleted because of recycling. |
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246 index_.listener_->CommitFilesToRemove(); |
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247 |
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248 index_.currentStorageSize_ += sizeOfAddedFiles; |
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249 |
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250 assert(index_.currentStorageSize_ >= index_.listener_->GetSizeOfFilesToRemove()); |
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251 index_.currentStorageSize_ -= index_.listener_->GetSizeOfFilesToRemove(); |
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252 |
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253 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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254 |
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255 // Send all the pending changes to the Orthanc plugins |
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256 index_.listener_->CommitChanges(); |
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257 |
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258 isCommitted_ = true; |
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259 } |
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260 } |
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261 }; |
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262 |
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263 |
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264 class ServerIndex::UnstableResourcePayload |
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265 { |
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266 private: |
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267 ResourceType type_; |
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268 std::string publicId_; |
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269 boost::posix_time::ptime time_; |
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270 |
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271 public: |
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272 UnstableResourcePayload() : type_(ResourceType_Instance) |
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273 { |
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274 } |
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275 |
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276 UnstableResourcePayload(Orthanc::ResourceType type, |
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277 const std::string& publicId) : |
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278 type_(type), |
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279 publicId_(publicId) |
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280 { |
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281 time_ = boost::posix_time::second_clock::local_time(); |
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282 } |
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283 |
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284 unsigned int GetAge() const |
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285 { |
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286 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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287 } |
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288 |
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289 ResourceType GetResourceType() const |
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290 { |
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291 return type_; |
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292 } |
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293 |
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294 const std::string& GetPublicId() const |
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295 { |
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296 return publicId_; |
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297 } |
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298 }; |
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299 |
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300 |
212 | 301 bool ServerIndex::DeleteResource(Json::Value& target, |
0 | 302 const std::string& uuid, |
202 | 303 ResourceType expectedType) |
0 | 304 { |
206
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305 boost::mutex::scoped_lock lock(mutex_); |
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306 |
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307 Transaction t(*this); |
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308 |
202 | 309 int64_t id; |
310 ResourceType type; | |
311 if (!db_->LookupResource(uuid, id, type) || | |
312 expectedType != type) | |
0 | 313 { |
314 return false; | |
315 } | |
202 | 316 |
317 db_->DeleteResource(id); | |
0 | 318 |
202 | 319 if (listener_->HasRemainingLevel()) |
0 | 320 { |
202 | 321 ResourceType type = listener_->GetRemainingType(); |
322 const std::string& uuid = listener_->GetRemainingPublicId(); | |
0 | 323 |
324 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
204 | 325 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
434
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326 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
0 | 327 target["RemainingAncestor"]["ID"] = uuid; |
328 } | |
329 else | |
330 { | |
331 target["RemainingAncestor"] = Json::nullValue; | |
332 } | |
333 | |
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334 t.Commit(0); |
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335 |
0 | 336 return true; |
337 } | |
338 | |
339 | |
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340 void ServerIndex::FlushThread(ServerIndex* that) |
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341 { |
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342 // By default, wait for 10 seconds before flushing |
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343 unsigned int sleep = 10; |
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344 |
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345 try |
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346 { |
744 | 347 boost::mutex::scoped_lock lock(that->mutex_); |
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348 std::string sleepString = that->db_->GetGlobalProperty(GlobalProperty_FlushSleep, ""); |
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349 |
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350 if (Toolbox::IsInteger(sleepString)) |
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351 { |
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352 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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353 } |
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354 } |
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355 catch (boost::bad_lexical_cast&) |
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356 { |
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357 } |
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358 |
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359 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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360 |
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361 unsigned int count = 0; |
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362 |
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363 while (!that->done_) |
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364 { |
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365 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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366 count++; |
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367 if (count < sleep) |
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368 { |
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369 continue; |
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370 } |
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371 |
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372 boost::mutex::scoped_lock lock(that->mutex_); |
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373 that->db_->FlushToDisk(); |
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374 count = 0; |
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375 } |
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376 |
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377 LOG(INFO) << "Stopping the database flushing thread"; |
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378 } |
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379 |
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380 |
433 | 381 static void ComputeExpectedNumberOfInstances(DatabaseWrapper& db, |
382 int64_t series, | |
383 const DicomMap& dicomSummary) | |
384 { | |
385 try | |
386 { | |
656 | 387 const DicomValue* value; |
388 const DicomValue* value2; | |
389 | |
433 | 390 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
391 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
392 { | |
393 // Patch for series with temporal positions thanks to Will Ryder | |
394 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->AsString()); | |
395 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->AsString()); | |
396 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); | |
397 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
398 } | |
399 | |
400 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
401 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
402 { | |
403 // Support of Cardio-PET images | |
404 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->AsString()); | |
405 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->AsString()); | |
406 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); | |
407 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
408 } | |
409 | |
410 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
411 { | |
412 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->AsString()); | |
413 } | |
414 } | |
415 catch (boost::bad_lexical_cast) | |
416 { | |
417 } | |
418 } | |
419 | |
420 | |
226
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421 ServerIndex::ServerIndex(ServerContext& context, |
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422 const std::string& dbPath) : |
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423 done_(false), |
269
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424 maximumStorageSize_(0), |
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425 maximumPatients_(0) |
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426 { |
226
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427 listener_.reset(new Internals::ServerIndexListener(context)); |
186
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428 |
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429 if (dbPath == ":memory:") |
180
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430 { |
202 | 431 db_.reset(new DatabaseWrapper(*listener_)); |
180
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432 } |
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433 else |
0 | 434 { |
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435 boost::filesystem::path p = dbPath; |
180
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436 |
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437 try |
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438 { |
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439 boost::filesystem::create_directories(p); |
180
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440 } |
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441 catch (boost::filesystem::filesystem_error) |
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442 { |
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443 } |
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444 |
202 | 445 db_.reset(new DatabaseWrapper(p.string() + "/index", *listener_)); |
0 | 446 } |
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447 |
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448 currentStorageSize_ = db_->GetTotalCompressedSize(); |
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449 |
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450 // Initial recycling if the parameters have changed since the last |
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451 // execution of Orthanc |
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452 StandaloneRecycling(); |
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453 |
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454 flushThread_ = boost::thread(FlushThread, this); |
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455 unstableResourcesMonitorThread_ = boost::thread(UnstableResourcesMonitorThread, this); |
206
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456 } |
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457 |
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458 |
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459 ServerIndex::~ServerIndex() |
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460 { |
511
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461 done_ = true; |
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462 |
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463 if (flushThread_.joinable()) |
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464 { |
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465 flushThread_.join(); |
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466 } |
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467 |
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468 if (unstableResourcesMonitorThread_.joinable()) |
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469 { |
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470 unstableResourcesMonitorThread_.join(); |
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471 } |
0 | 472 } |
473 | |
474 | |
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475 StoreStatus ServerIndex::Store(std::map<MetadataType, std::string>& instanceMetadata, |
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476 const DicomMap& dicomSummary, |
232
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477 const Attachments& attachments, |
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478 const std::string& remoteAet, |
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479 const MetadataMap& metadata) |
0 | 480 { |
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481 boost::mutex::scoped_lock lock(mutex_); |
0 | 482 |
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483 instanceMetadata.clear(); |
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484 |
178 | 485 DicomInstanceHasher hasher(dicomSummary); |
0 | 486 |
487 try | |
488 { | |
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489 Transaction t(*this); |
0 | 490 |
202 | 491 // Do nothing if the instance already exists |
0 | 492 { |
432 | 493 ResourceType type; |
494 int64_t tmp; | |
495 if (db_->LookupResource(hasher.HashInstance(), tmp, type)) | |
496 { | |
497 assert(type == ResourceType_Instance); | |
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498 db_->GetAllMetadata(instanceMetadata, tmp); |
432 | 499 return StoreStatus_AlreadyStored; |
500 } | |
0 | 501 } |
502 | |
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503 // Ensure there is enough room in the storage for the new instance |
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504 uint64_t instanceSize = 0; |
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505 for (Attachments::const_iterator it = attachments.begin(); |
656 | 506 it != attachments.end(); ++it) |
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507 { |
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508 instanceSize += it->GetCompressedSize(); |
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509 } |
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510 |
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511 Recycle(instanceSize, hasher.HashPatient()); |
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512 |
202 | 513 // Create the instance |
432 | 514 int64_t instance = db_->CreateResource(hasher.HashInstance(), ResourceType_Instance); |
202 | 515 |
516 DicomMap dicom; | |
517 dicomSummary.ExtractInstanceInformation(dicom); | |
518 db_->SetMainDicomTags(instance, dicom); | |
519 | |
432 | 520 // Detect up to which level the patient/study/series/instance |
521 // hierarchy must be created | |
522 int64_t patient = -1, study = -1, series = -1; | |
523 bool isNewPatient = false; | |
524 bool isNewStudy = false; | |
525 bool isNewSeries = false; | |
526 | |
0 | 527 { |
432 | 528 ResourceType dummy; |
529 | |
530 if (db_->LookupResource(hasher.HashSeries(), series, dummy)) | |
531 { | |
532 assert(dummy == ResourceType_Series); | |
533 // The patient, the study and the series already exist | |
534 | |
535 bool ok = (db_->LookupResource(hasher.HashPatient(), patient, dummy) && | |
536 db_->LookupResource(hasher.HashStudy(), study, dummy)); | |
537 assert(ok); | |
538 } | |
539 else if (db_->LookupResource(hasher.HashStudy(), study, dummy)) | |
540 { | |
541 assert(dummy == ResourceType_Study); | |
542 | |
543 // New series: The patient and the study already exist | |
544 isNewSeries = true; | |
545 | |
546 bool ok = db_->LookupResource(hasher.HashPatient(), patient, dummy); | |
547 assert(ok); | |
548 } | |
549 else if (db_->LookupResource(hasher.HashPatient(), patient, dummy)) | |
550 { | |
551 assert(dummy == ResourceType_Patient); | |
552 | |
553 // New study and series: The patient already exist | |
554 isNewStudy = true; | |
555 isNewSeries = true; | |
556 } | |
557 else | |
558 { | |
559 // New patient, study and series: Nothing exists | |
560 isNewPatient = true; | |
561 isNewStudy = true; | |
562 isNewSeries = true; | |
563 } | |
564 } | |
565 | |
566 // Create the series if needed | |
567 if (isNewSeries) | |
568 { | |
202 | 569 series = db_->CreateResource(hasher.HashSeries(), ResourceType_Series); |
570 dicomSummary.ExtractSeriesInformation(dicom); | |
571 db_->SetMainDicomTags(series, dicom); | |
432 | 572 } |
202 | 573 |
432 | 574 // Create the study if needed |
575 if (isNewStudy) | |
576 { | |
577 study = db_->CreateResource(hasher.HashStudy(), ResourceType_Study); | |
578 dicomSummary.ExtractStudyInformation(dicom); | |
579 db_->SetMainDicomTags(study, dicom); | |
580 } | |
581 | |
582 // Create the patient if needed | |
583 if (isNewPatient) | |
584 { | |
585 patient = db_->CreateResource(hasher.HashPatient(), ResourceType_Patient); | |
586 dicomSummary.ExtractPatientInformation(dicom); | |
587 db_->SetMainDicomTags(patient, dicom); | |
588 } | |
202 | 589 |
432 | 590 // Create the parent-to-child links |
591 db_->AttachChild(series, instance); | |
592 | |
593 if (isNewSeries) | |
594 { | |
595 db_->AttachChild(study, series); | |
0 | 596 } |
432 | 597 |
598 if (isNewStudy) | |
0 | 599 { |
432 | 600 db_->AttachChild(patient, study); |
0 | 601 } |
602 | |
432 | 603 // Sanity checks |
604 assert(patient != -1); | |
605 assert(study != -1); | |
606 assert(series != -1); | |
607 assert(instance != -1); | |
608 | |
202 | 609 // Attach the files to the newly created instance |
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610 for (Attachments::const_iterator it = attachments.begin(); |
656 | 611 it != attachments.end(); ++it) |
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612 { |
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613 db_->AddAttachment(instance, *it); |
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614 } |
202 | 615 |
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616 // Attach the user-specified metadata |
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617 for (MetadataMap::const_iterator |
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618 it = metadata.begin(); it != metadata.end(); ++it) |
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619 { |
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620 switch (it->first.first) |
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621 { |
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622 case ResourceType_Patient: |
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623 db_->SetMetadata(patient, it->first.second, it->second); |
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624 break; |
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625 |
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626 case ResourceType_Study: |
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627 db_->SetMetadata(study, it->first.second, it->second); |
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628 break; |
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629 |
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630 case ResourceType_Series: |
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631 db_->SetMetadata(series, it->first.second, it->second); |
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632 break; |
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633 |
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634 case ResourceType_Instance: |
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635 db_->SetMetadata(instance, it->first.second, it->second); |
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636 instanceMetadata[it->first.second] = it->second; |
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637 break; |
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638 |
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639 default: |
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640 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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641 } |
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642 } |
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643 |
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644 // Attach the auto-computed metadata for the patient/study/series levels |
432 | 645 std::string now = Toolbox::GetNowIsoString(); |
646 db_->SetMetadata(series, MetadataType_LastUpdate, now); | |
647 db_->SetMetadata(study, MetadataType_LastUpdate, now); | |
648 db_->SetMetadata(patient, MetadataType_LastUpdate, now); | |
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649 |
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650 // Attach the auto-computed metadata for the instance level, |
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651 // reflecting these additions into the input metadata map |
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652 db_->SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); |
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653 instanceMetadata[MetadataType_Instance_ReceptionDate] = now; |
202 | 654 |
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655 db_->SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
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656 instanceMetadata[MetadataType_Instance_RemoteAet] = remoteAet; |
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657 |
202 | 658 const DicomValue* value; |
659 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
660 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 661 { |
202 | 662 db_->SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
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663 instanceMetadata[MetadataType_Instance_IndexInSeries] = value->AsString(); |
0 | 664 } |
665 | |
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666 // Check whether the series of this new instance is now completed |
202 | 667 if (isNewSeries) |
668 { | |
433 | 669 ComputeExpectedNumberOfInstances(*db_, series, dicomSummary); |
202 | 670 } |
671 | |
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672 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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673 if (seriesStatus == SeriesStatus_Complete) |
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674 { |
1198 | 675 db_->LogChange(series, ChangeType_CompletedSeries, ResourceType_Series, hasher.HashSeries()); |
205
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676 } |
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677 |
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678 // Mark the parent resources of this instance as unstable |
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679 MarkAsUnstable(series, ResourceType_Series, hasher.HashSeries()); |
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680 MarkAsUnstable(study, ResourceType_Study, hasher.HashStudy()); |
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681 MarkAsUnstable(patient, ResourceType_Patient, hasher.HashPatient()); |
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682 |
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683 t.Commit(instanceSize); |
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684 |
0 | 685 return StoreStatus_Success; |
686 } | |
62 | 687 catch (OrthancException& e) |
0 | 688 { |
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689 LOG(ERROR) << "EXCEPTION [" << e.What() << "]" |
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690 << " (SQLite status: " << db_->GetErrorMessage() << ")"; |
0 | 691 } |
692 | |
693 return StoreStatus_Failure; | |
694 } | |
695 | |
696 | |
238 | 697 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 698 { |
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699 boost::mutex::scoped_lock lock(mutex_); |
238 | 700 target = Json::objectValue; |
0 | 701 |
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702 uint64_t cs = currentStorageSize_; |
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703 assert(cs == db_->GetTotalCompressedSize()); |
238 | 704 uint64_t us = db_->GetTotalUncompressedSize(); |
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705 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 706 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
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707 target["TotalDiskSizeMB"] = boost::lexical_cast<unsigned int>(cs / MEGA_BYTES); |
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708 target["TotalUncompressedSizeMB"] = boost::lexical_cast<unsigned int>(us / MEGA_BYTES); |
238 | 709 |
710 target["CountPatients"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Patient)); | |
711 target["CountStudies"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Study)); | |
712 target["CountSeries"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Series)); | |
713 target["CountInstances"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Instance)); | |
714 } | |
715 | |
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716 |
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717 |
585 | 718 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 719 { |
720 // Get the expected number of instances in this series (from the metadata) | |
202 | 721 std::string s = db_->GetMetadata(id, MetadataType_Series_ExpectedNumberOfInstances); |
199 | 722 |
723 size_t expected; | |
724 try | |
725 { | |
726 expected = boost::lexical_cast<size_t>(s); | |
727 } | |
728 catch (boost::bad_lexical_cast&) | |
729 { | |
730 return SeriesStatus_Unknown; | |
731 } | |
732 | |
733 // Loop over the instances of this series | |
734 std::list<int64_t> children; | |
202 | 735 db_->GetChildrenInternalId(children, id); |
199 | 736 |
737 std::set<size_t> instances; | |
738 for (std::list<int64_t>::const_iterator | |
656 | 739 it = children.begin(); it != children.end(); ++it) |
199 | 740 { |
741 // Get the index of this instance in the series | |
202 | 742 s = db_->GetMetadata(*it, MetadataType_Instance_IndexInSeries); |
199 | 743 size_t index; |
744 try | |
745 { | |
746 index = boost::lexical_cast<size_t>(s); | |
747 } | |
748 catch (boost::bad_lexical_cast&) | |
749 { | |
750 return SeriesStatus_Unknown; | |
751 } | |
752 | |
656 | 753 if (!(index > 0 && index <= expected)) |
199 | 754 { |
755 // Out-of-range instance index | |
756 return SeriesStatus_Inconsistent; | |
757 } | |
758 | |
759 if (instances.find(index) != instances.end()) | |
760 { | |
761 // Twice the same instance index | |
762 return SeriesStatus_Inconsistent; | |
763 } | |
764 | |
765 instances.insert(index); | |
766 } | |
767 | |
768 if (instances.size() == expected) | |
769 { | |
770 return SeriesStatus_Complete; | |
771 } | |
772 else | |
773 { | |
774 return SeriesStatus_Missing; | |
775 } | |
776 } | |
777 | |
778 | |
779 | |
202 | 780 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
781 int64_t resourceId) | |
198
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782 { |
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783 DicomMap tags; |
202 | 784 db_->GetMainDicomTags(tags, resourceId); |
198
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785 target["MainDicomTags"] = Json::objectValue; |
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786 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags); |
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787 } |
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788 |
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789 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 790 const std::string& publicId, |
791 ResourceType expectedType) | |
198
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792 { |
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793 result = Json::objectValue; |
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794 |
206
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795 boost::mutex::scoped_lock lock(mutex_); |
199 | 796 |
198
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797 // Lookup for the requested resource |
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798 int64_t id; |
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799 ResourceType type; |
202 | 800 if (!db_->LookupResource(publicId, id, type) || |
199 | 801 type != expectedType) |
198
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802 { |
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803 return false; |
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804 } |
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805 |
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806 // Find the parent resource (if it exists) |
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807 if (type != ResourceType_Patient) |
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808 { |
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809 int64_t parentId; |
202 | 810 if (!db_->LookupParent(parentId, id)) |
198
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811 { |
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812 throw OrthancException(ErrorCode_InternalError); |
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813 } |
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814 |
202 | 815 std::string parent = db_->GetPublicId(parentId); |
198
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816 |
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817 switch (type) |
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818 { |
269
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819 case ResourceType_Study: |
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820 result["ParentPatient"] = parent; |
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821 break; |
198
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822 |
269
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823 case ResourceType_Series: |
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824 result["ParentStudy"] = parent; |
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825 break; |
198
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826 |
269
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827 case ResourceType_Instance: |
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828 result["ParentSeries"] = parent; |
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829 break; |
198
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830 |
269
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831 default: |
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832 throw OrthancException(ErrorCode_InternalError); |
198
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833 } |
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834 } |
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835 |
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836 // List the children resources |
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837 std::list<std::string> children; |
202 | 838 db_->GetChildrenPublicId(children, id); |
198
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839 |
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840 if (type != ResourceType_Instance) |
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841 { |
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842 Json::Value c = Json::arrayValue; |
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843 |
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844 for (std::list<std::string>::const_iterator |
656 | 845 it = children.begin(); it != children.end(); ++it) |
198
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846 { |
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847 c.append(*it); |
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848 } |
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849 |
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850 switch (type) |
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|
851 { |
269
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|
852 case ResourceType_Patient: |
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|
853 result["Studies"] = c; |
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|
854 break; |
198
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|
855 |
269
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|
856 case ResourceType_Study: |
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|
857 result["Series"] = c; |
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|
858 break; |
198
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changeset
|
859 |
269
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changeset
|
860 case ResourceType_Series: |
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|
861 result["Instances"] = c; |
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|
862 break; |
198
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changeset
|
863 |
269
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|
864 default: |
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|
865 throw OrthancException(ErrorCode_InternalError); |
198
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|
866 } |
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867 } |
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868 |
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|
869 // Set the resource type |
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|
870 switch (type) |
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|
871 { |
269
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changeset
|
872 case ResourceType_Patient: |
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|
873 result["Type"] = "Patient"; |
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|
874 break; |
198
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changeset
|
875 |
269
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diff
changeset
|
876 case ResourceType_Study: |
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|
877 result["Type"] = "Study"; |
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|
878 break; |
199 | 879 |
269
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|
880 case ResourceType_Series: |
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|
881 { |
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|
882 result["Type"] = "Series"; |
434
ccf3a0a43dac
EnumerationDictionary
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433
diff
changeset
|
883 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
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|
884 |
269
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|
885 int i; |
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886 if (db_->GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
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|
887 result["ExpectedNumberOfInstances"] = i; |
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|
888 else |
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|
889 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
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diff
changeset
|
890 |
269
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changeset
|
891 break; |
200
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diff
changeset
|
892 } |
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diff
changeset
|
893 |
269
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changeset
|
894 case ResourceType_Instance: |
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|
895 { |
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changeset
|
896 result["Type"] = "Instance"; |
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|
897 |
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|
898 FileInfo attachment; |
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|
899 if (!db_->LookupAttachment(attachment, id, FileContentType_Dicom)) |
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900 { |
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|
901 throw OrthancException(ErrorCode_InternalError); |
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|
902 } |
200
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diff
changeset
|
903 |
269
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|
904 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
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|
905 result["FileUuid"] = attachment.GetUuid(); |
200
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changeset
|
906 |
269
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changeset
|
907 int i; |
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|
908 if (db_->GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
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|
909 result["IndexInSeries"] = i; |
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|
910 else |
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911 result["IndexInSeries"] = Json::nullValue; |
198
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912 |
269
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|
913 break; |
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914 } |
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915 |
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916 default: |
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917 throw OrthancException(ErrorCode_InternalError); |
198
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918 } |
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919 |
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920 // Record the remaining information |
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921 result["ID"] = publicId; |
202 | 922 MainDicomTagsToJson(result, id); |
198
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923 |
315 | 924 std::string tmp; |
925 | |
926 tmp = db_->GetMetadata(id, MetadataType_AnonymizedFrom); | |
927 if (tmp.size() != 0) | |
928 result["AnonymizedFrom"] = tmp; | |
929 | |
930 tmp = db_->GetMetadata(id, MetadataType_ModifiedFrom); | |
931 if (tmp.size() != 0) | |
932 result["ModifiedFrom"] = tmp; | |
933 | |
511
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934 if (type == ResourceType_Patient || |
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|
935 type == ResourceType_Study || |
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diff
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|
936 type == ResourceType_Series) |
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diff
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|
937 { |
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diff
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|
938 result["IsStable"] = !unstableResources_.Contains(id); |
1148
ac36589f699e
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diff
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|
939 |
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
940 tmp = db_->GetMetadata(id, MetadataType_LastUpdate); |
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LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
941 if (tmp.size() != 0) |
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
942 result["LastUpdate"] = tmp; |
511
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|
943 } |
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|
944 |
198
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945 return true; |
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946 } |
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947 |
0 | 948 |
232
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diff
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949 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
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diff
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|
950 const std::string& instanceUuid, |
233 | 951 FileContentType contentType) |
0 | 952 { |
206
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953 boost::mutex::scoped_lock lock(mutex_); |
0 | 954 |
193
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diff
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|
955 int64_t id; |
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diff
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|
956 ResourceType type; |
701 | 957 if (!db_->LookupResource(instanceUuid, id, type)) |
192
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|
958 { |
1113
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diff
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|
959 throw OrthancException(ErrorCode_UnknownResource); |
192
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960 } |
193
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diff
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|
961 |
232
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962 if (db_->LookupAttachment(attachment, id, contentType)) |
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diff
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963 { |
233 | 964 assert(attachment.GetContentType() == contentType); |
232
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|
965 return true; |
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diff
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|
966 } |
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diff
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|
967 else |
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diff
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|
968 { |
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|
969 return false; |
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|
970 } |
192
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diff
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|
971 } |
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diff
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|
972 |
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diff
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|
973 |
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diff
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|
974 |
0 | 975 void ServerIndex::GetAllUuids(Json::Value& target, |
190 | 976 ResourceType resourceType) |
0 | 977 { |
206
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diff
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|
978 boost::mutex::scoped_lock lock(mutex_); |
202 | 979 db_->GetAllPublicIds(target, resourceType); |
0 | 980 } |
981 | |
982 | |
983 bool ServerIndex::GetChanges(Json::Value& target, | |
204 | 984 int64_t since, |
0 | 985 unsigned int maxResults) |
986 { | |
206
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diff
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|
987 boost::mutex::scoped_lock lock(mutex_); |
237
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diff
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|
988 db_->GetChanges(target, since, maxResults); |
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|
989 return true; |
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diff
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|
990 } |
0 | 991 |
237
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diff
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|
992 bool ServerIndex::GetLastChange(Json::Value& target) |
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|
993 { |
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994 boost::mutex::scoped_lock lock(mutex_); |
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diff
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|
995 db_->GetLastChange(target); |
204 | 996 return true; |
0 | 997 } |
231 | 998 |
999 void ServerIndex::LogExportedResource(const std::string& publicId, | |
1000 const std::string& remoteModality) | |
1001 { | |
1002 boost::mutex::scoped_lock lock(mutex_); | |
1003 | |
1004 int64_t id; | |
1005 ResourceType type; | |
1006 if (!db_->LookupResource(publicId, id, type)) | |
1007 { | |
1008 throw OrthancException(ErrorCode_InternalError); | |
1009 } | |
1010 | |
1011 std::string patientId; | |
1012 std::string studyInstanceUid; | |
1013 std::string seriesInstanceUid; | |
1014 std::string sopInstanceUid; | |
1015 | |
1016 int64_t currentId = id; | |
1017 ResourceType currentType = type; | |
1018 | |
1019 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1020 bool done = false; | |
1021 while (!done) | |
1022 { | |
1023 DicomMap map; | |
1024 db_->GetMainDicomTags(map, currentId); | |
1025 | |
1026 switch (currentType) | |
1027 { | |
269
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|
1028 case ResourceType_Patient: |
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1029 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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1030 done = true; |
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diff
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|
1031 break; |
231 | 1032 |
269
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diff
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|
1033 case ResourceType_Study: |
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diff
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|
1034 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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|
1035 currentType = ResourceType_Patient; |
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diff
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|
1036 break; |
231 | 1037 |
269
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diff
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|
1038 case ResourceType_Series: |
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diff
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|
1039 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
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|
1040 currentType = ResourceType_Study; |
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|
1041 break; |
231 | 1042 |
269
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diff
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|
1043 case ResourceType_Instance: |
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|
1044 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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|
1045 currentType = ResourceType_Series; |
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diff
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1046 break; |
231 | 1047 |
269
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|
1048 default: |
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1049 throw OrthancException(ErrorCode_InternalError); |
231 | 1050 } |
1051 | |
1052 // If we have not reached the Patient level, find the parent of | |
1053 // the current resource | |
1054 if (!done) | |
1055 { | |
375
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diff
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|
1056 bool ok = db_->LookupParent(currentId, currentId); |
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diff
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|
1057 assert(ok); |
231 | 1058 } |
1059 } | |
1060 | |
1235 | 1061 // No need for a SQLite::ITransaction here, as we only insert 1 record |
231 | 1062 db_->LogExportedResource(type, |
1063 publicId, | |
1064 remoteModality, | |
1065 patientId, | |
1066 studyInstanceUid, | |
1067 seriesInstanceUid, | |
1068 sopInstanceUid); | |
1069 } | |
1070 | |
1071 | |
1072 bool ServerIndex::GetExportedResources(Json::Value& target, | |
1073 int64_t since, | |
1074 unsigned int maxResults) | |
1075 { | |
1076 boost::mutex::scoped_lock lock(mutex_); | |
1077 db_->GetExportedResources(target, since, maxResults); | |
1078 return true; | |
1079 } | |
237
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diff
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|
1080 |
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|
1081 bool ServerIndex::GetLastExportedResource(Json::Value& target) |
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diff
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|
1082 { |
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|
1083 boost::mutex::scoped_lock lock(mutex_); |
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|
1084 db_->GetLastExportedResource(target); |
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|
1085 return true; |
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diff
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|
1086 } |
268
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diff
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|
1087 |
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|
1088 |
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|
1089 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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|
1090 { |
269
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|
1091 if (maximumStorageSize_ != 0) |
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|
1092 { |
278
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diff
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|
1093 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
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|
1094 assert(db_->GetTotalCompressedSize() == currentSize); |
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diff
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|
1095 |
269
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changeset
|
1096 if (currentSize + instanceSize > maximumStorageSize_) |
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|
1097 { |
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|
1098 return true; |
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|
1099 } |
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|
1100 } |
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|
1101 |
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|
1102 if (maximumPatients_ != 0) |
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|
1103 { |
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|
1104 uint64_t patientCount = db_->GetResourceCount(ResourceType_Patient); |
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1105 if (patientCount > maximumPatients_) |
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|
1106 { |
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1107 return true; |
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1108 } |
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1109 } |
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1110 |
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1111 return false; |
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1112 } |
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1113 |
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1114 |
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1115 void ServerIndex::Recycle(uint64_t instanceSize, |
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1116 const std::string& newPatientId) |
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1117 { |
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1118 if (!IsRecyclingNeeded(instanceSize)) |
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1119 { |
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1120 return; |
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1121 } |
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1122 |
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1123 // Check whether other DICOM instances from this patient are |
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1124 // already stored |
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1125 int64_t patientToAvoid; |
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1126 ResourceType type; |
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1127 bool hasPatientToAvoid = db_->LookupResource(newPatientId, patientToAvoid, type); |
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1128 |
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1129 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1130 { |
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1131 throw OrthancException(ErrorCode_InternalError); |
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1132 } |
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1133 |
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1134 // Iteratively select patient to remove until there is enough |
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1135 // space in the DICOM store |
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1136 int64_t patientToRecycle; |
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1137 while (true) |
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1138 { |
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1139 // If other instances of this patient are already in the store, |
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1140 // we must avoid to recycle them |
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1141 bool ok = hasPatientToAvoid ? |
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1142 db_->SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
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1143 db_->SelectPatientToRecycle(patientToRecycle); |
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1144 |
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1145 if (!ok) |
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1146 { |
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1147 throw OrthancException(ErrorCode_FullStorage); |
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1148 } |
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1149 |
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1150 LOG(INFO) << "Recycling one patient"; |
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1151 db_->DeleteResource(patientToRecycle); |
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1152 |
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1153 if (!IsRecyclingNeeded(instanceSize)) |
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1154 { |
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1155 // OK, we're done |
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1156 break; |
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1157 } |
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1158 } |
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1159 } |
269
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1160 |
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1161 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1162 { |
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1163 boost::mutex::scoped_lock lock(mutex_); |
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1164 maximumPatients_ = count; |
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1165 |
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1166 if (count == 0) |
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1167 { |
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1168 LOG(WARNING) << "No limit on the number of stored patients"; |
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1169 } |
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1170 else |
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1171 { |
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1172 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1173 } |
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1174 |
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1175 StandaloneRecycling(); |
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1176 } |
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1177 |
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1178 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1179 { |
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1180 boost::mutex::scoped_lock lock(mutex_); |
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1181 maximumStorageSize_ = size; |
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1182 |
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1183 if (size == 0) |
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1184 { |
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1185 LOG(WARNING) << "No limit on the size of the storage area"; |
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1186 } |
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1187 else |
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1188 { |
440
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1189 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
270
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1190 } |
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1191 |
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1192 StandaloneRecycling(); |
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1193 } |
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1194 |
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1195 void ServerIndex::StandaloneRecycling() |
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1196 { |
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1197 // WARNING: No mutex here, do not include this as a public method |
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1198 Transaction t(*this); |
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1199 Recycle(0, ""); |
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1200 t.Commit(0); |
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1201 } |
272
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1202 |
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1203 |
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1204 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1205 { |
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1206 boost::mutex::scoped_lock lock(mutex_); |
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1207 |
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1208 // Lookup for the requested resource |
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1209 int64_t id; |
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1210 ResourceType type; |
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1211 if (!db_->LookupResource(publicId, id, type) || |
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1212 type != ResourceType_Patient) |
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1213 { |
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1214 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1215 } |
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1216 |
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1217 return db_->IsProtectedPatient(id); |
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1218 } |
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1219 |
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1220 |
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1221 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1222 bool isProtected) |
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1223 { |
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1224 boost::mutex::scoped_lock lock(mutex_); |
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1225 |
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1226 // Lookup for the requested resource |
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1227 int64_t id; |
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1228 ResourceType type; |
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1229 if (!db_->LookupResource(publicId, id, type) || |
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1230 type != ResourceType_Patient) |
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1231 { |
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1232 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1233 } |
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1234 |
1235 | 1235 // No need for a SQLite::ITransaction here, as we only make 1 write to the DB |
272
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1236 db_->SetProtectedPatient(id, isProtected); |
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1237 |
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1238 if (isProtected) |
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1239 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1240 else |
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1241 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1242 } |
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1243 |
304 | 1244 |
714
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1245 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1246 const std::string& publicId) |
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1247 { |
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1248 result.clear(); |
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1249 |
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1250 boost::mutex::scoped_lock lock(mutex_); |
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1251 |
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1252 ResourceType type; |
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1253 int64_t resource; |
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1254 if (!db_->LookupResource(publicId, resource, type)) |
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1255 { |
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1256 throw OrthancException(ErrorCode_UnknownResource); |
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1257 } |
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1258 |
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1259 if (type == ResourceType_Instance) |
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1260 { |
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1261 // An instance cannot have a child |
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1262 throw OrthancException(ErrorCode_BadParameterType); |
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1263 } |
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1264 |
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1265 std::list<int64_t> tmp; |
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1266 db_->GetChildrenInternalId(tmp, resource); |
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1267 |
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1268 for (std::list<int64_t>::const_iterator |
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1269 it = tmp.begin(); it != tmp.end(); ++it) |
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1270 { |
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1271 result.push_back(db_->GetPublicId(*it)); |
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1272 } |
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1273 } |
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1274 |
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1275 |
304 | 1276 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1277 const std::string& publicId) | |
1278 { | |
1279 result.clear(); | |
1280 | |
1281 boost::mutex::scoped_lock lock(mutex_); | |
1282 | |
1283 ResourceType type; | |
1284 int64_t top; | |
1285 if (!db_->LookupResource(publicId, top, type)) | |
1286 { | |
1287 throw OrthancException(ErrorCode_UnknownResource); | |
1288 } | |
1289 | |
1290 if (type == ResourceType_Instance) | |
1291 { | |
1292 // The resource is already an instance: Do not go down the hierarchy | |
1293 result.push_back(publicId); | |
1294 return; | |
1295 } | |
1296 | |
1297 std::stack<int64_t> toExplore; | |
1298 toExplore.push(top); | |
1299 | |
1300 std::list<int64_t> tmp; | |
1301 | |
1302 while (!toExplore.empty()) | |
1303 { | |
1304 // Get the internal ID of the current resource | |
1305 int64_t resource = toExplore.top(); | |
1306 toExplore.pop(); | |
1307 | |
1308 if (db_->GetResourceType(resource) == ResourceType_Instance) | |
1309 { | |
1310 result.push_back(db_->GetPublicId(resource)); | |
1311 } | |
1312 else | |
1313 { | |
1314 // Tag all the children of this resource as to be explored | |
1315 db_->GetChildrenInternalId(tmp, resource); | |
1316 for (std::list<int64_t>::const_iterator | |
656 | 1317 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1318 { |
1319 toExplore.push(*it); | |
1320 } | |
1321 } | |
1322 } | |
1323 } | |
1324 | |
306
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1325 |
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1326 void ServerIndex::SetMetadata(const std::string& publicId, |
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1327 MetadataType type, |
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1328 const std::string& value) |
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1329 { |
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1330 boost::mutex::scoped_lock lock(mutex_); |
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1331 |
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1332 ResourceType rtype; |
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1333 int64_t id; |
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1334 if (!db_->LookupResource(publicId, id, rtype)) |
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1335 { |
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1336 throw OrthancException(ErrorCode_UnknownResource); |
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1337 } |
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1338 |
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1339 db_->SetMetadata(id, type, value); |
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1340 } |
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1341 |
438 | 1342 |
1343 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1344 MetadataType type) | |
1345 { | |
1346 boost::mutex::scoped_lock lock(mutex_); | |
1347 | |
1348 ResourceType rtype; | |
1349 int64_t id; | |
1350 if (!db_->LookupResource(publicId, id, rtype)) | |
1351 { | |
1352 throw OrthancException(ErrorCode_UnknownResource); | |
1353 } | |
1354 | |
1355 db_->DeleteMetadata(id, type); | |
1356 } | |
1357 | |
1358 | |
306
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1359 bool ServerIndex::LookupMetadata(std::string& target, |
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1360 const std::string& publicId, |
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1361 MetadataType type) |
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1362 { |
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1363 boost::mutex::scoped_lock lock(mutex_); |
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1364 |
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1365 ResourceType rtype; |
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1366 int64_t id; |
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1367 if (!db_->LookupResource(publicId, id, rtype)) |
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1368 { |
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1369 throw OrthancException(ErrorCode_UnknownResource); |
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1370 } |
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1371 |
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1372 return db_->LookupMetadata(target, id, type); |
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1373 } |
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1374 |
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1375 |
739 | 1376 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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1377 const std::string& publicId) |
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1378 { |
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1379 boost::mutex::scoped_lock lock(mutex_); |
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1380 |
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1381 ResourceType rtype; |
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1382 int64_t id; |
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1383 if (!db_->LookupResource(publicId, id, rtype)) |
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1384 { |
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1385 throw OrthancException(ErrorCode_UnknownResource); |
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1386 } |
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1387 |
739 | 1388 db_->ListAvailableMetadata(target, id); |
436
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1389 } |
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1390 |
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1391 |
697
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1392 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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1393 const std::string& publicId, |
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1394 ResourceType expectedType) |
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1395 { |
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1396 boost::mutex::scoped_lock lock(mutex_); |
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1397 |
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1398 ResourceType type; |
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1399 int64_t id; |
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1400 if (!db_->LookupResource(publicId, id, type) || |
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1401 expectedType != type) |
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1402 { |
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1403 throw OrthancException(ErrorCode_UnknownResource); |
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1404 } |
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1405 |
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1406 db_->ListAvailableAttachments(target, id); |
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1407 } |
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1408 |
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1409 |
306
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1410 bool ServerIndex::LookupParent(std::string& target, |
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1411 const std::string& publicId) |
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1412 { |
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1413 boost::mutex::scoped_lock lock(mutex_); |
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1414 |
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1415 ResourceType type; |
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1416 int64_t id; |
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1417 if (!db_->LookupResource(publicId, id, type)) |
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1418 { |
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1419 throw OrthancException(ErrorCode_UnknownResource); |
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1420 } |
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1421 |
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1422 int64_t parentId; |
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1423 if (db_->LookupParent(parentId, id)) |
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1424 { |
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1425 target = db_->GetPublicId(parentId); |
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1426 return true; |
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1427 } |
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1428 else |
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1429 { |
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1430 return false; |
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1431 } |
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1432 } |
310 | 1433 |
1434 | |
1435 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1436 { | |
1437 boost::mutex::scoped_lock lock(mutex_); | |
311 | 1438 |
1235 | 1439 std::auto_ptr<SQLite::ITransaction> transaction(db_->StartTransaction()); |
311 | 1440 |
1441 transaction->Begin(); | |
1442 uint64_t seq = db_->IncrementGlobalSequence(sequence); | |
1443 transaction->Commit(); | |
1444 | |
1445 return seq; | |
310 | 1446 } |
315 | 1447 |
1448 | |
1449 | |
1450 void ServerIndex::LogChange(ChangeType changeType, | |
1451 const std::string& publicId) | |
1452 { | |
1453 boost::mutex::scoped_lock lock(mutex_); | |
1235 | 1454 std::auto_ptr<SQLite::ITransaction> transaction(db_->StartTransaction()); |
315 | 1455 transaction->Begin(); |
1456 | |
1457 int64_t id; | |
1458 ResourceType type; | |
1459 if (!db_->LookupResource(publicId, id, type)) | |
1460 { | |
1461 throw OrthancException(ErrorCode_UnknownResource); | |
1462 } | |
1463 | |
1198 | 1464 db_->LogChange(id, changeType, type, publicId); |
315 | 1465 |
1466 transaction->Commit(); | |
1467 } | |
413
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1468 |
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1469 |
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1470 void ServerIndex::DeleteChanges() |
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1471 { |
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1472 boost::mutex::scoped_lock lock(mutex_); |
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1473 db_->ClearTable("Changes"); |
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1474 } |
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1475 |
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1476 void ServerIndex::DeleteExportedResources() |
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1477 { |
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1478 boost::mutex::scoped_lock lock(mutex_); |
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1479 db_->ClearTable("ExportedResources"); |
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1480 } |
440
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1481 |
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1482 |
646 | 1483 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
1484 /* out */ uint64_t& uncompressedSize, | |
1485 /* out */ unsigned int& countStudies, | |
1486 /* out */ unsigned int& countSeries, | |
1487 /* out */ unsigned int& countInstances, | |
1488 /* in */ int64_t id, | |
1489 /* in */ ResourceType type) | |
440
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1490 { |
646 | 1491 std::stack<int64_t> toExplore; |
1492 toExplore.push(id); | |
440
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1493 |
646 | 1494 countInstances = 0; |
1495 countSeries = 0; | |
1496 countStudies = 0; | |
1497 compressedSize = 0; | |
1498 uncompressedSize = 0; | |
440
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1499 |
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1500 while (!toExplore.empty()) |
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1501 { |
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1502 // Get the internal ID of the current resource |
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1503 int64_t resource = toExplore.top(); |
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1504 toExplore.pop(); |
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1505 |
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1506 ResourceType thisType = db_->GetResourceType(resource); |
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1507 |
702
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1508 std::list<FileContentType> f; |
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1509 db_->ListAvailableAttachments(f, resource); |
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1510 |
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1511 for (std::list<FileContentType>::const_iterator |
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1512 it = f.begin(); it != f.end(); ++it) |
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1513 { |
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1514 FileInfo attachment; |
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1515 if (db_->LookupAttachment(attachment, resource, *it)) |
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1516 { |
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1517 compressedSize += attachment.GetCompressedSize(); |
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1518 uncompressedSize += attachment.GetUncompressedSize(); |
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1519 } |
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1520 } |
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1521 |
440
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1522 if (thisType == ResourceType_Instance) |
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1523 { |
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1524 countInstances++; |
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1525 } |
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1526 else |
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|
1527 { |
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1528 switch (thisType) |
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1529 { |
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1530 case ResourceType_Study: |
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1531 countStudies++; |
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1532 break; |
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1533 |
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1534 case ResourceType_Series: |
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1535 countSeries++; |
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1536 break; |
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1537 |
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1538 default: |
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1539 break; |
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1540 } |
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1541 |
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1542 // Tag all the children of this resource as to be explored |
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1543 std::list<int64_t> tmp; |
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1544 db_->GetChildrenInternalId(tmp, resource); |
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1545 for (std::list<int64_t>::const_iterator |
656 | 1546 it = tmp.begin(); it != tmp.end(); ++it) |
440
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1547 { |
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1548 toExplore.push(*it); |
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1549 } |
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1550 } |
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1551 } |
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1552 |
646 | 1553 if (countStudies == 0) |
1554 { | |
1555 countStudies = 1; | |
1556 } | |
1557 | |
1558 if (countSeries == 0) | |
1559 { | |
1560 countSeries = 1; | |
1561 } | |
1562 } | |
1563 | |
1564 | |
1565 | |
1566 void ServerIndex::GetStatistics(Json::Value& target, | |
1567 const std::string& publicId) | |
1568 { | |
1569 boost::mutex::scoped_lock lock(mutex_); | |
1570 | |
1571 ResourceType type; | |
1572 int64_t top; | |
1573 if (!db_->LookupResource(publicId, top, type)) | |
1574 { | |
1575 throw OrthancException(ErrorCode_UnknownResource); | |
1576 } | |
1577 | |
1578 uint64_t uncompressedSize; | |
1579 uint64_t compressedSize; | |
1580 unsigned int countStudies; | |
1581 unsigned int countSeries; | |
1582 unsigned int countInstances; | |
1583 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1584 countSeries, countInstances, top, type); | |
1585 | |
440
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1586 target = Json::objectValue; |
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1587 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
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1588 target["DiskSizeMB"] = boost::lexical_cast<unsigned int>(compressedSize / MEGA_BYTES); |
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1589 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
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1590 target["UncompressedSizeMB"] = boost::lexical_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
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1591 |
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1592 switch (type) |
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|
1593 { |
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1594 // Do NOT add "break" below this point! |
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|
1595 case ResourceType_Patient: |
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1596 target["CountStudies"] = countStudies; |
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1597 |
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1598 case ResourceType_Study: |
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1599 target["CountSeries"] = countSeries; |
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1600 |
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1601 case ResourceType_Series: |
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1602 target["CountInstances"] = countInstances; |
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1603 |
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1604 case ResourceType_Instance: |
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1605 default: |
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1606 break; |
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1607 } |
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1608 } |
511
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1609 |
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1610 |
646 | 1611 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
1612 /* out */ uint64_t& uncompressedSize, | |
1613 /* out */ unsigned int& countStudies, | |
1614 /* out */ unsigned int& countSeries, | |
1615 /* out */ unsigned int& countInstances, | |
1616 const std::string& publicId) | |
1617 { | |
1618 boost::mutex::scoped_lock lock(mutex_); | |
1619 | |
1620 ResourceType type; | |
1621 int64_t top; | |
1622 if (!db_->LookupResource(publicId, top, type)) | |
1623 { | |
1624 throw OrthancException(ErrorCode_UnknownResource); | |
1625 } | |
1626 | |
1627 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1628 countSeries, countInstances, top, type); | |
1629 } | |
1630 | |
1631 | |
511
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1632 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
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1633 { |
810
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1634 int stableAge = Configuration::GetGlobalIntegerParameter("StableAge", 60); |
511
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1635 if (stableAge <= 0) |
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1636 { |
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1637 stableAge = 60; |
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1638 } |
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1639 |
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1640 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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1641 |
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1642 while (!that->done_) |
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1643 { |
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1644 // Check for stable resources each second |
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1645 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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1646 |
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1647 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 1648 |
511
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1649 while (!that->unstableResources_.IsEmpty() && |
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1650 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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1651 { |
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1652 // This DICOM resource has not received any new instance for |
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1653 // some time. It can be considered as stable. |
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1654 |
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1655 UnstableResourcePayload payload; |
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1656 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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1657 |
513 | 1658 // Ensure that the resource is still existing before logging the change |
1659 if (that->db_->IsExistingResource(id)) | |
511
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1660 { |
1177
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|
1661 switch (payload.GetResourceType()) |
513 | 1662 { |
1177
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|
1663 case ResourceType_Patient: |
1198 | 1664 that->db_->LogChange(id, ChangeType_StablePatient, ResourceType_Patient, payload.GetPublicId()); |
513 | 1665 break; |
511
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1666 |
1177
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diff
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|
1667 case ResourceType_Study: |
1198 | 1668 that->db_->LogChange(id, ChangeType_StableStudy, ResourceType_Study, payload.GetPublicId()); |
513 | 1669 break; |
511
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|
1670 |
1177
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diff
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|
1671 case ResourceType_Series: |
1198 | 1672 that->db_->LogChange(id, ChangeType_StableSeries, ResourceType_Series, payload.GetPublicId()); |
513 | 1673 break; |
1674 | |
1675 default: | |
1676 throw OrthancException(ErrorCode_InternalError); | |
1677 } | |
1678 | |
1679 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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1680 } |
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1681 } |
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1682 } |
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|
1683 |
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|
1684 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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1685 } |
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|
1686 |
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|
1687 |
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|
1688 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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|
1689 Orthanc::ResourceType type, |
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|
1690 const std::string& publicId) |
511
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1691 { |
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|
1692 // WARNING: Before calling this method, "mutex_" must be locked. |
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|
1693 |
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|
1694 assert(type == Orthanc::ResourceType_Patient || |
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|
1695 type == Orthanc::ResourceType_Study || |
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|
1696 type == Orthanc::ResourceType_Series); |
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1697 |
1177
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diff
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|
1698 UnstableResourcePayload payload(type, publicId); |
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diff
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|
1699 unstableResources_.AddOrMakeMostRecent(id, payload); |
511
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|
1700 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
1189
6b9b02a16e99
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|
1701 |
1198 | 1702 db_->LogChange(id, ChangeType_NewChildInstance, type, publicId); |
511
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|
1703 } |
521 | 1704 |
1705 | |
1706 | |
1162 | 1707 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1708 const DicomTag& tag, | |
1709 const std::string& value, | |
1710 ResourceType type) | |
615 | 1711 { |
1712 result.clear(); | |
1713 | |
1714 boost::mutex::scoped_lock lock(mutex_); | |
1715 | |
1716 std::list<int64_t> id; | |
1162 | 1717 db_->LookupIdentifier(id, tag, value); |
615 | 1718 |
1719 for (std::list<int64_t>::const_iterator | |
656 | 1720 it = id.begin(); it != id.end(); ++it) |
615 | 1721 { |
1722 if (db_->GetResourceType(*it) == type) | |
1723 { | |
1724 result.push_back(db_->GetPublicId(*it)); | |
1725 } | |
1726 } | |
1727 } | |
1728 | |
1729 | |
1162 | 1730 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1731 const DicomTag& tag, | |
1732 const std::string& value) | |
521 | 1733 { |
1734 result.clear(); | |
1735 | |
1736 boost::mutex::scoped_lock lock(mutex_); | |
1737 | |
1738 std::list<int64_t> id; | |
1162 | 1739 db_->LookupIdentifier(id, tag, value); |
521 | 1740 |
1741 for (std::list<int64_t>::const_iterator | |
656 | 1742 it = id.begin(); it != id.end(); ++it) |
521 | 1743 { |
1744 result.push_back(db_->GetPublicId(*it)); | |
1745 } | |
1746 } | |
1747 | |
1748 | |
1162 | 1749 void ServerIndex::LookupIdentifier(std::list< std::pair<ResourceType, std::string> >& result, |
1750 const std::string& value) | |
521 | 1751 { |
1752 result.clear(); | |
1753 | |
1754 boost::mutex::scoped_lock lock(mutex_); | |
1755 | |
1756 std::list<int64_t> id; | |
1162 | 1757 db_->LookupIdentifier(id, value); |
521 | 1758 |
1759 for (std::list<int64_t>::const_iterator | |
656 | 1760 it = id.begin(); it != id.end(); ++it) |
521 | 1761 { |
1139
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1762 result.push_back(std::make_pair(db_->GetResourceType(*it), |
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1763 db_->GetPublicId(*it))); |
521 | 1764 } |
1765 } | |
699
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|
1766 |
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1767 |
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|
1768 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1769 const std::string& publicId) |
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1770 { |
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1771 boost::mutex::scoped_lock lock(mutex_); |
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1772 |
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1773 Transaction t(*this); |
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1774 |
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1775 ResourceType resourceType; |
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1776 int64_t resourceId; |
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1777 if (!db_->LookupResource(publicId, resourceId, resourceType)) |
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1778 { |
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1779 return StoreStatus_Failure; // Inexistent resource |
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1780 } |
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|
1781 |
704
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|
1782 // Remove possible previous attachment |
699
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|
1783 db_->DeleteAttachment(resourceId, attachment.GetContentType()); |
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1784 |
704
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changeset
|
1785 // Locate the patient of the target resource |
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1786 int64_t patientId = resourceId; |
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|
1787 for (;;) |
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1788 { |
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1789 int64_t parent; |
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1790 if (db_->LookupParent(parent, patientId)) |
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1791 { |
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1792 // We have not reached the patient level yet |
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1793 patientId = parent; |
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1794 } |
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1795 else |
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1796 { |
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1797 // We have reached the patient level |
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1798 break; |
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|
1799 } |
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|
1800 } |
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1801 |
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1802 // Possibly apply the recycling mechanism while preserving this patient |
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1803 assert(db_->GetResourceType(patientId) == ResourceType_Patient); |
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1804 Recycle(attachment.GetCompressedSize(), db_->GetPublicId(patientId)); |
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1805 |
699
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1806 db_->AddAttachment(resourceId, attachment); |
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1807 |
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1808 t.Commit(attachment.GetCompressedSize()); |
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1809 |
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1810 return StoreStatus_Success; |
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1811 } |
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1812 |
702
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|
1813 |
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1814 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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1815 FileContentType type) |
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|
1816 { |
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1817 boost::mutex::scoped_lock lock(mutex_); |
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1818 |
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1819 Transaction t(*this); |
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1820 |
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1821 ResourceType rtype; |
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1822 int64_t id; |
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1823 if (!db_->LookupResource(publicId, id, rtype)) |
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1824 { |
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1825 throw OrthancException(ErrorCode_UnknownResource); |
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1826 } |
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|
1827 |
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1828 db_->DeleteAttachment(id, type); |
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1829 |
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1830 t.Commit(0); |
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|
1831 } |
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1832 |
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1833 |
1002
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|
1834 bool ServerIndex::GetMetadata(Json::Value& target, |
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|
1835 const std::string& publicId) |
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1836 { |
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1837 boost::mutex::scoped_lock lock(mutex_); |
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|
1838 |
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1839 target = Json::objectValue; |
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|
1840 |
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1841 ResourceType type; |
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1842 int64_t id; |
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1843 if (!db_->LookupResource(publicId, id, type)) |
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|
1844 { |
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1845 return false; |
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|
1846 } |
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1847 |
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1848 std::list<MetadataType> metadata; |
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1849 db_->ListAvailableMetadata(metadata, id); |
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|
1850 |
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1851 for (std::list<MetadataType>::const_iterator |
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1852 it = metadata.begin(); it != metadata.end(); it++) |
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1853 { |
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1854 std::string key = EnumerationToString(*it); |
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1855 std::string value = db_->GetMetadata(id, *it); |
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1856 target[key] = value; |
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|
1857 } |
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|
1858 |
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|
1859 return true; |
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|
1860 } |
1218
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|
1861 |
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|
1862 |
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|
1863 std::string ServerIndex::GetGlobalProperty(GlobalProperty property, |
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|
1864 const std::string& defaultValue) |
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1865 { |
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|
1866 boost::mutex::scoped_lock lock(mutex_); |
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|
1867 return db_->GetGlobalProperty(property, defaultValue); |
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|
1868 } |
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|
1869 |
0 | 1870 } |