Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 794:437c4a83d2cc
refactoring
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Tue, 06 May 2014 10:52:20 +0200 |
| parents | ec69658b031b |
| children | 67e6400fca03 401a9633e492 |
| rev | line source |
|---|---|
| 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 | |
| 33 #include "ServerIndex.h" | |
| 34 | |
| 6 | 35 #ifndef NOMINMAX |
| 2 | 36 #define NOMINMAX |
| 6 | 37 #endif |
| 38 | |
| 8 | 39 #include "EmbeddedResources.h" |
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40 #include "OrthancInitialization.h" |
| 0 | 41 #include "../Core/Toolbox.h" |
| 42 #include "../Core/Uuid.h" | |
| 43 #include "../Core/DicomFormat/DicomArray.h" | |
| 44 #include "../Core/SQLite/Transaction.h" | |
| 45 #include "FromDcmtkBridge.h" | |
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46 #include "ServerContext.h" |
| 0 | 47 |
| 48 #include <boost/lexical_cast.hpp> | |
| 49 #include <stdio.h> | |
| 108 | 50 #include <glog/logging.h> |
| 0 | 51 |
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52 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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53 |
| 62 | 54 namespace Orthanc |
| 0 | 55 { |
| 56 namespace Internals | |
| 57 { | |
| 202 | 58 class ServerIndexListener : public IServerIndexListener |
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59 { |
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60 private: |
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61 ServerContext& context_; |
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62 bool hasRemainingLevel_; |
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63 ResourceType remainingType_; |
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64 std::string remainingPublicId_; |
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65 std::list<std::string> pendingFilesToRemove_; |
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66 uint64_t sizeOfFilesToRemove_; |
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67 |
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68 public: |
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69 ServerIndexListener(ServerContext& context) : |
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70 context_(context) |
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71 { |
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72 Reset(); |
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73 assert(ResourceType_Patient < ResourceType_Study && |
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74 ResourceType_Study < ResourceType_Series && |
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75 ResourceType_Series < ResourceType_Instance); |
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76 } |
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77 |
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78 void Reset() |
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79 { |
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80 sizeOfFilesToRemove_ = 0; |
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81 hasRemainingLevel_ = false; |
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82 pendingFilesToRemove_.clear(); |
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83 } |
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84 |
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85 uint64_t GetSizeOfFilesToRemove() |
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86 { |
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87 return sizeOfFilesToRemove_; |
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88 } |
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89 |
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90 void CommitFilesToRemove() |
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91 { |
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92 for (std::list<std::string>::iterator |
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93 it = pendingFilesToRemove_.begin(); |
| 656 | 94 it != pendingFilesToRemove_.end(); ++it) |
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95 { |
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96 context_.RemoveFile(*it); |
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97 } |
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98 } |
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99 |
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100 virtual void SignalRemainingAncestor(ResourceType parentType, |
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101 const std::string& publicId) |
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102 { |
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103 LOG(INFO) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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104 |
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105 if (hasRemainingLevel_) |
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106 { |
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107 if (parentType < remainingType_) |
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108 { |
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109 remainingType_ = parentType; |
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110 remainingPublicId_ = publicId; |
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111 } |
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112 } |
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113 else |
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114 { |
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115 hasRemainingLevel_ = true; |
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116 remainingType_ = parentType; |
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117 remainingPublicId_ = publicId; |
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118 } |
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119 } |
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120 |
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121 virtual void SignalFileDeleted(const FileInfo& info) |
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122 { |
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123 assert(Toolbox::IsUuid(info.GetUuid())); |
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124 pendingFilesToRemove_.push_back(info.GetUuid()); |
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125 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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126 } |
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127 |
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128 bool HasRemainingLevel() const |
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129 { |
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130 return hasRemainingLevel_; |
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131 } |
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132 |
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133 ResourceType GetRemainingType() const |
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134 { |
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135 assert(HasRemainingLevel()); |
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136 return remainingType_; |
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137 } |
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138 |
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139 const std::string& GetRemainingPublicId() const |
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140 { |
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141 assert(HasRemainingLevel()); |
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142 return remainingPublicId_; |
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143 } |
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144 }; |
| 0 | 145 } |
| 146 | |
| 147 | |
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148 class ServerIndex::Transaction |
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149 { |
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150 private: |
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151 ServerIndex& index_; |
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152 std::auto_ptr<SQLite::Transaction> transaction_; |
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153 bool isCommitted_; |
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154 |
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155 public: |
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156 Transaction(ServerIndex& index) : |
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157 index_(index), |
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158 isCommitted_(false) |
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159 { |
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160 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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161 |
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162 index_.listener_->Reset(); |
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163 transaction_.reset(index_.db_->StartTransaction()); |
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164 transaction_->Begin(); |
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165 } |
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166 |
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167 void Commit(uint64_t sizeOfAddedFiles) |
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168 { |
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169 if (!isCommitted_) |
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170 { |
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171 transaction_->Commit(); |
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172 |
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173 // We can remove the files once the SQLite transaction has |
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174 // been successfully committed. Some files might have to be |
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175 // deleted because of recycling. |
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176 index_.listener_->CommitFilesToRemove(); |
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177 |
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178 index_.currentStorageSize_ += sizeOfAddedFiles; |
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179 |
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180 assert(index_.currentStorageSize_ >= index_.listener_->GetSizeOfFilesToRemove()); |
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181 index_.currentStorageSize_ -= index_.listener_->GetSizeOfFilesToRemove(); |
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182 |
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183 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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184 |
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185 isCommitted_ = true; |
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186 } |
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187 } |
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188 }; |
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189 |
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190 |
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191 struct ServerIndex::UnstableResourcePayload |
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192 { |
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193 Orthanc::ResourceType type_; |
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194 boost::posix_time::ptime time_; |
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195 |
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196 UnstableResourcePayload() : type_(Orthanc::ResourceType_Instance) |
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197 { |
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198 } |
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199 |
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200 UnstableResourcePayload(Orthanc::ResourceType type) : type_(type) |
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201 { |
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202 time_ = boost::posix_time::second_clock::local_time(); |
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203 } |
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204 |
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205 unsigned int GetAge() const |
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206 { |
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207 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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208 } |
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209 }; |
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210 |
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211 |
| 212 | 212 bool ServerIndex::DeleteResource(Json::Value& target, |
| 0 | 213 const std::string& uuid, |
| 202 | 214 ResourceType expectedType) |
| 0 | 215 { |
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216 boost::mutex::scoped_lock lock(mutex_); |
| 202 | 217 listener_->Reset(); |
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218 |
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219 Transaction t(*this); |
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220 |
| 202 | 221 int64_t id; |
| 222 ResourceType type; | |
| 223 if (!db_->LookupResource(uuid, id, type) || | |
| 224 expectedType != type) | |
| 0 | 225 { |
| 226 return false; | |
| 227 } | |
| 202 | 228 |
| 229 db_->DeleteResource(id); | |
| 0 | 230 |
| 202 | 231 if (listener_->HasRemainingLevel()) |
| 0 | 232 { |
| 202 | 233 ResourceType type = listener_->GetRemainingType(); |
| 234 const std::string& uuid = listener_->GetRemainingPublicId(); | |
| 0 | 235 |
| 236 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
| 204 | 237 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
|
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238 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
| 0 | 239 target["RemainingAncestor"]["ID"] = uuid; |
| 240 } | |
| 241 else | |
| 242 { | |
| 243 target["RemainingAncestor"] = Json::nullValue; | |
| 244 } | |
| 245 | |
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246 t.Commit(0); |
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247 |
| 0 | 248 return true; |
| 249 } | |
| 250 | |
| 251 | |
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252 void ServerIndex::FlushThread(ServerIndex* that) |
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253 { |
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254 unsigned int sleep; |
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255 |
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256 try |
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257 { |
| 744 | 258 boost::mutex::scoped_lock lock(that->mutex_); |
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259 std::string sleepString = that->db_->GetGlobalProperty(GlobalProperty_FlushSleep); |
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260 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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261 } |
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262 catch (boost::bad_lexical_cast&) |
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263 { |
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264 // By default, wait for 10 seconds before flushing |
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265 sleep = 10; |
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266 } |
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267 |
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268 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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269 |
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270 unsigned int count = 0; |
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271 |
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272 while (!that->done_) |
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273 { |
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274 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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275 count++; |
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276 if (count < sleep) |
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277 { |
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278 continue; |
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279 } |
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280 |
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281 boost::mutex::scoped_lock lock(that->mutex_); |
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282 that->db_->FlushToDisk(); |
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283 count = 0; |
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284 } |
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285 |
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286 LOG(INFO) << "Stopping the database flushing thread"; |
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287 } |
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288 |
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289 |
| 433 | 290 static void ComputeExpectedNumberOfInstances(DatabaseWrapper& db, |
| 291 int64_t series, | |
| 292 const DicomMap& dicomSummary) | |
| 293 { | |
| 294 try | |
| 295 { | |
| 656 | 296 const DicomValue* value; |
| 297 const DicomValue* value2; | |
| 298 | |
| 433 | 299 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
| 300 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
| 301 { | |
| 302 // Patch for series with temporal positions thanks to Will Ryder | |
| 303 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->AsString()); | |
| 304 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->AsString()); | |
| 305 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); | |
| 306 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
| 307 } | |
| 308 | |
| 309 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
| 310 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
| 311 { | |
| 312 // Support of Cardio-PET images | |
| 313 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->AsString()); | |
| 314 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->AsString()); | |
| 315 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); | |
| 316 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
| 317 } | |
| 318 | |
| 319 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
| 320 { | |
| 321 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->AsString()); | |
| 322 } | |
| 323 } | |
| 324 catch (boost::bad_lexical_cast) | |
| 325 { | |
| 326 } | |
| 327 } | |
| 328 | |
| 329 | |
|
226
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330 ServerIndex::ServerIndex(ServerContext& context, |
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331 const std::string& dbPath) : |
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332 done_(false), |
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333 maximumStorageSize_(0), |
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334 maximumPatients_(0) |
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335 { |
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336 listener_.reset(new Internals::ServerIndexListener(context)); |
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337 |
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338 if (dbPath == ":memory:") |
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339 { |
| 202 | 340 db_.reset(new DatabaseWrapper(*listener_)); |
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341 } |
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342 else |
| 0 | 343 { |
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344 boost::filesystem::path p = dbPath; |
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345 |
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346 try |
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347 { |
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348 boost::filesystem::create_directories(p); |
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349 } |
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350 catch (boost::filesystem::filesystem_error) |
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351 { |
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352 } |
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353 |
| 202 | 354 db_.reset(new DatabaseWrapper(p.string() + "/index", *listener_)); |
| 0 | 355 } |
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356 |
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357 currentStorageSize_ = db_->GetTotalCompressedSize(); |
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358 |
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359 // Initial recycling if the parameters have changed since the last |
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360 // execution of Orthanc |
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361 StandaloneRecycling(); |
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362 |
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363 flushThread_ = boost::thread(FlushThread, this); |
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364 unstableResourcesMonitorThread_ = boost::thread(UnstableResourcesMonitorThread, this); |
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365 } |
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366 |
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367 |
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368 ServerIndex::~ServerIndex() |
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369 { |
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370 done_ = true; |
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371 |
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372 if (flushThread_.joinable()) |
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373 { |
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374 flushThread_.join(); |
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375 } |
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376 |
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377 if (unstableResourcesMonitorThread_.joinable()) |
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378 { |
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379 unstableResourcesMonitorThread_.join(); |
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380 } |
| 0 | 381 } |
| 382 | |
| 383 | |
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384 StoreStatus ServerIndex::Store(const DicomMap& dicomSummary, |
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385 const Attachments& attachments, |
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386 const std::string& remoteAet) |
| 0 | 387 { |
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388 boost::mutex::scoped_lock lock(mutex_); |
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389 listener_->Reset(); |
| 0 | 390 |
| 178 | 391 DicomInstanceHasher hasher(dicomSummary); |
| 0 | 392 |
| 393 try | |
| 394 { | |
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395 Transaction t(*this); |
| 0 | 396 |
| 202 | 397 // Do nothing if the instance already exists |
| 0 | 398 { |
| 432 | 399 ResourceType type; |
| 400 int64_t tmp; | |
| 401 if (db_->LookupResource(hasher.HashInstance(), tmp, type)) | |
| 402 { | |
| 403 assert(type == ResourceType_Instance); | |
| 404 return StoreStatus_AlreadyStored; | |
| 405 } | |
| 0 | 406 } |
| 407 | |
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408 // Ensure there is enough room in the storage for the new instance |
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409 uint64_t instanceSize = 0; |
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410 for (Attachments::const_iterator it = attachments.begin(); |
| 656 | 411 it != attachments.end(); ++it) |
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412 { |
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413 instanceSize += it->GetCompressedSize(); |
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414 } |
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415 |
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416 Recycle(instanceSize, hasher.HashPatient()); |
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417 |
| 202 | 418 // Create the instance |
| 432 | 419 int64_t instance = db_->CreateResource(hasher.HashInstance(), ResourceType_Instance); |
| 202 | 420 |
| 421 DicomMap dicom; | |
| 422 dicomSummary.ExtractInstanceInformation(dicom); | |
| 423 db_->SetMainDicomTags(instance, dicom); | |
| 424 | |
| 432 | 425 // Detect up to which level the patient/study/series/instance |
| 426 // hierarchy must be created | |
| 427 int64_t patient = -1, study = -1, series = -1; | |
| 428 bool isNewPatient = false; | |
| 429 bool isNewStudy = false; | |
| 430 bool isNewSeries = false; | |
| 431 | |
| 0 | 432 { |
| 432 | 433 ResourceType dummy; |
| 434 | |
| 435 if (db_->LookupResource(hasher.HashSeries(), series, dummy)) | |
| 436 { | |
| 437 assert(dummy == ResourceType_Series); | |
| 438 // The patient, the study and the series already exist | |
| 439 | |
| 440 bool ok = (db_->LookupResource(hasher.HashPatient(), patient, dummy) && | |
| 441 db_->LookupResource(hasher.HashStudy(), study, dummy)); | |
| 442 assert(ok); | |
| 443 } | |
| 444 else if (db_->LookupResource(hasher.HashStudy(), study, dummy)) | |
| 445 { | |
| 446 assert(dummy == ResourceType_Study); | |
| 447 | |
| 448 // New series: The patient and the study already exist | |
| 449 isNewSeries = true; | |
| 450 | |
| 451 bool ok = db_->LookupResource(hasher.HashPatient(), patient, dummy); | |
| 452 assert(ok); | |
| 453 } | |
| 454 else if (db_->LookupResource(hasher.HashPatient(), patient, dummy)) | |
| 455 { | |
| 456 assert(dummy == ResourceType_Patient); | |
| 457 | |
| 458 // New study and series: The patient already exist | |
| 459 isNewStudy = true; | |
| 460 isNewSeries = true; | |
| 461 } | |
| 462 else | |
| 463 { | |
| 464 // New patient, study and series: Nothing exists | |
| 465 isNewPatient = true; | |
| 466 isNewStudy = true; | |
| 467 isNewSeries = true; | |
| 468 } | |
| 469 } | |
| 470 | |
| 471 // Create the series if needed | |
| 472 if (isNewSeries) | |
| 473 { | |
| 202 | 474 series = db_->CreateResource(hasher.HashSeries(), ResourceType_Series); |
| 475 dicomSummary.ExtractSeriesInformation(dicom); | |
| 476 db_->SetMainDicomTags(series, dicom); | |
| 432 | 477 } |
| 202 | 478 |
| 432 | 479 // Create the study if needed |
| 480 if (isNewStudy) | |
| 481 { | |
| 482 study = db_->CreateResource(hasher.HashStudy(), ResourceType_Study); | |
| 483 dicomSummary.ExtractStudyInformation(dicom); | |
| 484 db_->SetMainDicomTags(study, dicom); | |
| 485 } | |
| 486 | |
| 487 // Create the patient if needed | |
| 488 if (isNewPatient) | |
| 489 { | |
| 490 patient = db_->CreateResource(hasher.HashPatient(), ResourceType_Patient); | |
| 491 dicomSummary.ExtractPatientInformation(dicom); | |
| 492 db_->SetMainDicomTags(patient, dicom); | |
| 493 } | |
| 202 | 494 |
| 432 | 495 // Create the parent-to-child links |
| 496 db_->AttachChild(series, instance); | |
| 497 | |
| 498 if (isNewSeries) | |
| 499 { | |
| 500 db_->AttachChild(study, series); | |
| 0 | 501 } |
| 432 | 502 |
| 503 if (isNewStudy) | |
| 0 | 504 { |
| 432 | 505 db_->AttachChild(patient, study); |
| 0 | 506 } |
| 507 | |
| 432 | 508 // Sanity checks |
| 509 assert(patient != -1); | |
| 510 assert(study != -1); | |
| 511 assert(series != -1); | |
| 512 assert(instance != -1); | |
| 513 | |
| 202 | 514 // Attach the files to the newly created instance |
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515 for (Attachments::const_iterator it = attachments.begin(); |
| 656 | 516 it != attachments.end(); ++it) |
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517 { |
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518 db_->AddAttachment(instance, *it); |
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519 } |
| 202 | 520 |
| 521 // Attach the metadata | |
| 432 | 522 std::string now = Toolbox::GetNowIsoString(); |
| 523 db_->SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); | |
| 524 db_->SetMetadata(series, MetadataType_LastUpdate, now); | |
| 525 db_->SetMetadata(study, MetadataType_LastUpdate, now); | |
| 526 db_->SetMetadata(patient, MetadataType_LastUpdate, now); | |
| 202 | 527 db_->SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
| 528 | |
| 529 const DicomValue* value; | |
| 530 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
| 531 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
| 0 | 532 { |
| 202 | 533 db_->SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
| 0 | 534 } |
| 535 | |
| 202 | 536 if (isNewSeries) |
| 537 { | |
| 433 | 538 ComputeExpectedNumberOfInstances(*db_, series, dicomSummary); |
| 202 | 539 } |
| 540 | |
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541 // Check whether the series of this new instance is now completed |
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542 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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543 if (seriesStatus == SeriesStatus_Complete) |
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544 { |
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545 db_->LogChange(ChangeType_CompletedSeries, series, ResourceType_Series); |
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546 } |
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547 |
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548 // Mark the parent resources of this instance as unstable |
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549 MarkAsUnstable(patient, ResourceType_Patient); |
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550 MarkAsUnstable(study, ResourceType_Study); |
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551 MarkAsUnstable(series, ResourceType_Series); |
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552 |
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553 t.Commit(instanceSize); |
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554 |
| 0 | 555 return StoreStatus_Success; |
| 556 } | |
| 62 | 557 catch (OrthancException& e) |
| 0 | 558 { |
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559 LOG(ERROR) << "EXCEPTION [" << e.What() << "]" |
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560 << " (SQLite status: " << db_->GetErrorMessage() << ")"; |
| 0 | 561 } |
| 562 | |
| 563 return StoreStatus_Failure; | |
| 564 } | |
| 565 | |
| 566 | |
| 238 | 567 void ServerIndex::ComputeStatistics(Json::Value& target) |
| 0 | 568 { |
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569 boost::mutex::scoped_lock lock(mutex_); |
| 238 | 570 target = Json::objectValue; |
| 0 | 571 |
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572 uint64_t cs = currentStorageSize_; |
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573 assert(cs == db_->GetTotalCompressedSize()); |
| 238 | 574 uint64_t us = db_->GetTotalUncompressedSize(); |
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575 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
| 238 | 576 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
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577 target["TotalDiskSizeMB"] = boost::lexical_cast<unsigned int>(cs / MEGA_BYTES); |
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578 target["TotalUncompressedSizeMB"] = boost::lexical_cast<unsigned int>(us / MEGA_BYTES); |
| 238 | 579 |
| 580 target["CountPatients"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Patient)); | |
| 581 target["CountStudies"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Study)); | |
| 582 target["CountSeries"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Series)); | |
| 583 target["CountInstances"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Instance)); | |
| 584 } | |
| 585 | |
|
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586 |
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587 |
| 585 | 588 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
| 199 | 589 { |
| 590 // Get the expected number of instances in this series (from the metadata) | |
| 202 | 591 std::string s = db_->GetMetadata(id, MetadataType_Series_ExpectedNumberOfInstances); |
| 199 | 592 |
| 593 size_t expected; | |
| 594 try | |
| 595 { | |
| 596 expected = boost::lexical_cast<size_t>(s); | |
| 597 } | |
| 598 catch (boost::bad_lexical_cast&) | |
| 599 { | |
| 600 return SeriesStatus_Unknown; | |
| 601 } | |
| 602 | |
| 603 // Loop over the instances of this series | |
| 604 std::list<int64_t> children; | |
| 202 | 605 db_->GetChildrenInternalId(children, id); |
| 199 | 606 |
| 607 std::set<size_t> instances; | |
| 608 for (std::list<int64_t>::const_iterator | |
| 656 | 609 it = children.begin(); it != children.end(); ++it) |
| 199 | 610 { |
| 611 // Get the index of this instance in the series | |
| 202 | 612 s = db_->GetMetadata(*it, MetadataType_Instance_IndexInSeries); |
| 199 | 613 size_t index; |
| 614 try | |
| 615 { | |
| 616 index = boost::lexical_cast<size_t>(s); | |
| 617 } | |
| 618 catch (boost::bad_lexical_cast&) | |
| 619 { | |
| 620 return SeriesStatus_Unknown; | |
| 621 } | |
| 622 | |
| 656 | 623 if (!(index > 0 && index <= expected)) |
| 199 | 624 { |
| 625 // Out-of-range instance index | |
| 626 return SeriesStatus_Inconsistent; | |
| 627 } | |
| 628 | |
| 629 if (instances.find(index) != instances.end()) | |
| 630 { | |
| 631 // Twice the same instance index | |
| 632 return SeriesStatus_Inconsistent; | |
| 633 } | |
| 634 | |
| 635 instances.insert(index); | |
| 636 } | |
| 637 | |
| 638 if (instances.size() == expected) | |
| 639 { | |
| 640 return SeriesStatus_Complete; | |
| 641 } | |
| 642 else | |
| 643 { | |
| 644 return SeriesStatus_Missing; | |
| 645 } | |
| 646 } | |
| 647 | |
| 648 | |
| 649 | |
| 202 | 650 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
| 651 int64_t resourceId) | |
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652 { |
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653 DicomMap tags; |
| 202 | 654 db_->GetMainDicomTags(tags, resourceId); |
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655 target["MainDicomTags"] = Json::objectValue; |
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656 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags); |
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657 } |
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658 |
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659 bool ServerIndex::LookupResource(Json::Value& result, |
| 199 | 660 const std::string& publicId, |
| 661 ResourceType expectedType) | |
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662 { |
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663 result = Json::objectValue; |
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664 |
|
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665 boost::mutex::scoped_lock lock(mutex_); |
| 199 | 666 |
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667 // Lookup for the requested resource |
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668 int64_t id; |
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669 ResourceType type; |
| 202 | 670 if (!db_->LookupResource(publicId, id, type) || |
| 199 | 671 type != expectedType) |
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672 { |
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673 return false; |
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674 } |
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675 |
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676 // Find the parent resource (if it exists) |
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677 if (type != ResourceType_Patient) |
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678 { |
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679 int64_t parentId; |
| 202 | 680 if (!db_->LookupParent(parentId, id)) |
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681 { |
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682 throw OrthancException(ErrorCode_InternalError); |
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683 } |
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684 |
| 202 | 685 std::string parent = db_->GetPublicId(parentId); |
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686 |
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687 switch (type) |
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688 { |
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689 case ResourceType_Study: |
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690 result["ParentPatient"] = parent; |
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691 break; |
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692 |
|
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693 case ResourceType_Series: |
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694 result["ParentStudy"] = parent; |
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695 break; |
|
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696 |
|
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697 case ResourceType_Instance: |
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698 result["ParentSeries"] = parent; |
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699 break; |
|
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|
700 |
|
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701 default: |
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702 throw OrthancException(ErrorCode_InternalError); |
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703 } |
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704 } |
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705 |
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706 // List the children resources |
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707 std::list<std::string> children; |
| 202 | 708 db_->GetChildrenPublicId(children, id); |
|
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|
709 |
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|
710 if (type != ResourceType_Instance) |
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711 { |
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712 Json::Value c = Json::arrayValue; |
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|
713 |
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|
714 for (std::list<std::string>::const_iterator |
| 656 | 715 it = children.begin(); it != children.end(); ++it) |
|
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716 { |
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717 c.append(*it); |
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718 } |
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|
719 |
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720 switch (type) |
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|
721 { |
|
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|
722 case ResourceType_Patient: |
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723 result["Studies"] = c; |
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724 break; |
|
198
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|
725 |
|
269
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726 case ResourceType_Study: |
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727 result["Series"] = c; |
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728 break; |
|
198
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|
729 |
|
269
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|
730 case ResourceType_Series: |
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731 result["Instances"] = c; |
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732 break; |
|
198
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|
733 |
|
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|
734 default: |
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735 throw OrthancException(ErrorCode_InternalError); |
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736 } |
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737 } |
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|
738 |
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|
739 // Set the resource type |
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740 switch (type) |
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|
741 { |
|
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742 case ResourceType_Patient: |
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743 result["Type"] = "Patient"; |
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744 break; |
|
198
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|
745 |
|
269
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|
746 case ResourceType_Study: |
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|
747 result["Type"] = "Study"; |
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|
748 break; |
| 199 | 749 |
|
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|
750 case ResourceType_Series: |
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|
751 { |
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|
752 result["Type"] = "Series"; |
|
434
ccf3a0a43dac
EnumerationDictionary
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|
753 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
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|
754 |
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755 int i; |
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756 if (db_->GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
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757 result["ExpectedNumberOfInstances"] = i; |
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758 else |
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759 result["ExpectedNumberOfInstances"] = Json::nullValue; |
|
200
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|
760 |
|
269
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761 break; |
|
200
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762 } |
|
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763 |
|
269
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764 case ResourceType_Instance: |
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765 { |
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766 result["Type"] = "Instance"; |
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767 |
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768 FileInfo attachment; |
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769 if (!db_->LookupAttachment(attachment, id, FileContentType_Dicom)) |
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770 { |
|
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771 throw OrthancException(ErrorCode_InternalError); |
|
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772 } |
|
200
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|
773 |
|
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774 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
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|
775 result["FileUuid"] = attachment.GetUuid(); |
|
200
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|
776 |
|
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777 int i; |
|
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778 if (db_->GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
|
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779 result["IndexInSeries"] = i; |
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|
780 else |
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781 result["IndexInSeries"] = Json::nullValue; |
|
198
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|
782 |
|
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783 break; |
|
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|
784 } |
|
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785 |
|
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|
786 default: |
|
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787 throw OrthancException(ErrorCode_InternalError); |
|
198
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788 } |
|
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789 |
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790 // Record the remaining information |
|
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791 result["ID"] = publicId; |
| 202 | 792 MainDicomTagsToJson(result, id); |
|
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793 |
| 315 | 794 std::string tmp; |
| 795 | |
| 796 tmp = db_->GetMetadata(id, MetadataType_AnonymizedFrom); | |
| 797 if (tmp.size() != 0) | |
| 798 result["AnonymizedFrom"] = tmp; | |
| 799 | |
| 800 tmp = db_->GetMetadata(id, MetadataType_ModifiedFrom); | |
| 801 if (tmp.size() != 0) | |
| 802 result["ModifiedFrom"] = tmp; | |
| 803 | |
|
511
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|
804 if (type == ResourceType_Patient || |
|
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|
805 type == ResourceType_Study || |
|
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|
806 type == ResourceType_Series) |
|
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|
807 { |
|
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|
808 result["IsStable"] = !unstableResources_.Contains(id); |
|
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|
809 } |
|
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|
810 |
|
198
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|
811 return true; |
|
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|
812 } |
|
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813 |
| 0 | 814 |
|
232
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|
815 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
|
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|
816 const std::string& instanceUuid, |
| 233 | 817 FileContentType contentType) |
| 0 | 818 { |
|
206
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819 boost::mutex::scoped_lock lock(mutex_); |
| 0 | 820 |
|
193
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|
821 int64_t id; |
|
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|
822 ResourceType type; |
| 701 | 823 if (!db_->LookupResource(instanceUuid, id, type)) |
|
192
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|
824 { |
|
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|
825 throw OrthancException(ErrorCode_InternalError); |
|
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|
826 } |
|
193
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|
827 |
|
232
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|
828 if (db_->LookupAttachment(attachment, id, contentType)) |
|
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|
829 { |
| 233 | 830 assert(attachment.GetContentType() == contentType); |
|
232
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|
831 return true; |
|
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|
832 } |
|
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|
833 else |
|
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|
834 { |
|
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|
835 return false; |
|
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|
836 } |
|
192
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|
837 } |
|
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|
838 |
|
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changeset
|
839 |
|
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|
840 |
| 0 | 841 void ServerIndex::GetAllUuids(Json::Value& target, |
| 190 | 842 ResourceType resourceType) |
| 0 | 843 { |
|
206
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|
844 boost::mutex::scoped_lock lock(mutex_); |
| 202 | 845 db_->GetAllPublicIds(target, resourceType); |
| 0 | 846 } |
| 847 | |
| 848 | |
| 849 bool ServerIndex::GetChanges(Json::Value& target, | |
| 204 | 850 int64_t since, |
| 0 | 851 unsigned int maxResults) |
| 852 { | |
|
206
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|
853 boost::mutex::scoped_lock lock(mutex_); |
|
237
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|
854 db_->GetChanges(target, since, maxResults); |
|
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|
855 return true; |
|
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|
856 } |
| 0 | 857 |
|
237
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|
858 bool ServerIndex::GetLastChange(Json::Value& target) |
|
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|
859 { |
|
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|
860 boost::mutex::scoped_lock lock(mutex_); |
|
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|
861 db_->GetLastChange(target); |
| 204 | 862 return true; |
| 0 | 863 } |
| 231 | 864 |
| 865 void ServerIndex::LogExportedResource(const std::string& publicId, | |
| 866 const std::string& remoteModality) | |
| 867 { | |
| 868 boost::mutex::scoped_lock lock(mutex_); | |
| 869 | |
| 870 int64_t id; | |
| 871 ResourceType type; | |
| 872 if (!db_->LookupResource(publicId, id, type)) | |
| 873 { | |
| 874 throw OrthancException(ErrorCode_InternalError); | |
| 875 } | |
| 876 | |
| 877 std::string patientId; | |
| 878 std::string studyInstanceUid; | |
| 879 std::string seriesInstanceUid; | |
| 880 std::string sopInstanceUid; | |
| 881 | |
| 882 int64_t currentId = id; | |
| 883 ResourceType currentType = type; | |
| 884 | |
| 885 // Iteratively go up inside the patient/study/series/instance hierarchy | |
| 886 bool done = false; | |
| 887 while (!done) | |
| 888 { | |
| 889 DicomMap map; | |
| 890 db_->GetMainDicomTags(map, currentId); | |
| 891 | |
| 892 switch (currentType) | |
| 893 { | |
|
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|
894 case ResourceType_Patient: |
|
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|
895 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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|
896 done = true; |
|
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|
897 break; |
| 231 | 898 |
|
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|
899 case ResourceType_Study: |
|
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|
900 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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901 currentType = ResourceType_Patient; |
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|
902 break; |
| 231 | 903 |
|
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|
904 case ResourceType_Series: |
|
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|
905 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
|
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|
906 currentType = ResourceType_Study; |
|
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|
907 break; |
| 231 | 908 |
|
269
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|
909 case ResourceType_Instance: |
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|
910 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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911 currentType = ResourceType_Series; |
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|
912 break; |
| 231 | 913 |
|
269
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|
914 default: |
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|
915 throw OrthancException(ErrorCode_InternalError); |
| 231 | 916 } |
| 917 | |
| 918 // If we have not reached the Patient level, find the parent of | |
| 919 // the current resource | |
| 920 if (!done) | |
| 921 { | |
|
375
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|
922 bool ok = db_->LookupParent(currentId, currentId); |
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|
923 assert(ok); |
| 231 | 924 } |
| 925 } | |
| 926 | |
| 927 // No need for a SQLite::Transaction here, as we only insert 1 record | |
| 928 db_->LogExportedResource(type, | |
| 929 publicId, | |
| 930 remoteModality, | |
| 931 patientId, | |
| 932 studyInstanceUid, | |
| 933 seriesInstanceUid, | |
| 934 sopInstanceUid); | |
| 935 } | |
| 936 | |
| 937 | |
| 938 bool ServerIndex::GetExportedResources(Json::Value& target, | |
| 939 int64_t since, | |
| 940 unsigned int maxResults) | |
| 941 { | |
| 942 boost::mutex::scoped_lock lock(mutex_); | |
| 943 db_->GetExportedResources(target, since, maxResults); | |
| 944 return true; | |
| 945 } | |
|
237
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|
946 |
|
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|
947 bool ServerIndex::GetLastExportedResource(Json::Value& target) |
|
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|
948 { |
|
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|
949 boost::mutex::scoped_lock lock(mutex_); |
|
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|
950 db_->GetLastExportedResource(target); |
|
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|
951 return true; |
|
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952 } |
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953 |
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954 |
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955 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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956 { |
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957 if (maximumStorageSize_ != 0) |
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958 { |
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959 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
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960 assert(db_->GetTotalCompressedSize() == currentSize); |
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961 |
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962 if (currentSize + instanceSize > maximumStorageSize_) |
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963 { |
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964 return true; |
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965 } |
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966 } |
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967 |
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968 if (maximumPatients_ != 0) |
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969 { |
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970 uint64_t patientCount = db_->GetResourceCount(ResourceType_Patient); |
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971 if (patientCount > maximumPatients_) |
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972 { |
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973 return true; |
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974 } |
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975 } |
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976 |
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977 return false; |
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978 } |
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979 |
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980 |
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981 void ServerIndex::Recycle(uint64_t instanceSize, |
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982 const std::string& newPatientId) |
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983 { |
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984 if (!IsRecyclingNeeded(instanceSize)) |
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985 { |
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986 return; |
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987 } |
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988 |
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989 // Check whether other DICOM instances from this patient are |
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990 // already stored |
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991 int64_t patientToAvoid; |
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992 ResourceType type; |
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993 bool hasPatientToAvoid = db_->LookupResource(newPatientId, patientToAvoid, type); |
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994 |
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995 if (hasPatientToAvoid && type != ResourceType_Patient) |
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996 { |
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997 throw OrthancException(ErrorCode_InternalError); |
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998 } |
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999 |
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1000 // Iteratively select patient to remove until there is enough |
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1001 // space in the DICOM store |
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1002 int64_t patientToRecycle; |
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1003 while (true) |
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1004 { |
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1005 // If other instances of this patient are already in the store, |
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1006 // we must avoid to recycle them |
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1007 bool ok = hasPatientToAvoid ? |
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1008 db_->SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
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1009 db_->SelectPatientToRecycle(patientToRecycle); |
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1010 |
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1011 if (!ok) |
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1012 { |
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1013 throw OrthancException(ErrorCode_FullStorage); |
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1014 } |
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1015 |
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1016 LOG(INFO) << "Recycling one patient"; |
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1017 db_->DeleteResource(patientToRecycle); |
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1018 |
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1019 if (!IsRecyclingNeeded(instanceSize)) |
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1020 { |
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1021 // OK, we're done |
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1022 break; |
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1023 } |
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1024 } |
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1025 } |
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1026 |
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1027 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1028 { |
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1029 boost::mutex::scoped_lock lock(mutex_); |
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1030 maximumPatients_ = count; |
|
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1031 |
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1032 if (count == 0) |
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1033 { |
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1034 LOG(WARNING) << "No limit on the number of stored patients"; |
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1035 } |
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1036 else |
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1037 { |
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1038 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1039 } |
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1040 |
|
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1041 StandaloneRecycling(); |
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1042 } |
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1043 |
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1044 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1045 { |
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1046 boost::mutex::scoped_lock lock(mutex_); |
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1047 maximumStorageSize_ = size; |
|
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1048 |
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1049 if (size == 0) |
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1050 { |
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1051 LOG(WARNING) << "No limit on the size of the storage area"; |
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1052 } |
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1053 else |
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1054 { |
|
440
23e5b35e3c5c
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1055 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
|
270
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1056 } |
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|
1057 |
|
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1058 StandaloneRecycling(); |
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1059 } |
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1060 |
|
272
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1061 void ServerIndex::StandaloneRecycling() |
|
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1062 { |
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1063 // WARNING: No mutex here, do not include this as a public method |
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1064 Transaction t(*this); |
|
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1065 Recycle(0, ""); |
|
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1066 t.Commit(0); |
|
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1067 } |
|
272
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1068 |
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1069 |
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1070 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1071 { |
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1072 boost::mutex::scoped_lock lock(mutex_); |
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1073 |
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1074 // Lookup for the requested resource |
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1075 int64_t id; |
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1076 ResourceType type; |
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1077 if (!db_->LookupResource(publicId, id, type) || |
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1078 type != ResourceType_Patient) |
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1079 { |
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1080 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1081 } |
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1082 |
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1083 return db_->IsProtectedPatient(id); |
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1084 } |
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1085 |
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1086 |
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1087 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1088 bool isProtected) |
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1089 { |
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1090 boost::mutex::scoped_lock lock(mutex_); |
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1091 |
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1092 // Lookup for the requested resource |
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1093 int64_t id; |
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1094 ResourceType type; |
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1095 if (!db_->LookupResource(publicId, id, type) || |
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1096 type != ResourceType_Patient) |
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1097 { |
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1098 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1099 } |
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1100 |
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1101 // No need for a SQLite::Transaction here, as we only make 1 write to the DB |
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1102 db_->SetProtectedPatient(id, isProtected); |
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1103 |
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1104 if (isProtected) |
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1105 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1106 else |
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1107 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1108 } |
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1109 |
| 304 | 1110 |
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1111 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1112 const std::string& publicId) |
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1113 { |
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1114 result.clear(); |
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1115 |
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1116 boost::mutex::scoped_lock lock(mutex_); |
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1117 |
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1118 ResourceType type; |
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1119 int64_t resource; |
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1120 if (!db_->LookupResource(publicId, resource, type)) |
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1121 { |
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1122 throw OrthancException(ErrorCode_UnknownResource); |
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1123 } |
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1124 |
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1125 if (type == ResourceType_Instance) |
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1126 { |
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1127 // An instance cannot have a child |
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1128 throw OrthancException(ErrorCode_BadParameterType); |
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1129 } |
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1130 |
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1131 std::list<int64_t> tmp; |
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1132 db_->GetChildrenInternalId(tmp, resource); |
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1133 |
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1134 for (std::list<int64_t>::const_iterator |
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1135 it = tmp.begin(); it != tmp.end(); ++it) |
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1136 { |
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1137 result.push_back(db_->GetPublicId(*it)); |
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1138 } |
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1139 } |
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1140 |
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1141 |
| 304 | 1142 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
| 1143 const std::string& publicId) | |
| 1144 { | |
| 1145 result.clear(); | |
| 1146 | |
| 1147 boost::mutex::scoped_lock lock(mutex_); | |
| 1148 | |
| 1149 ResourceType type; | |
| 1150 int64_t top; | |
| 1151 if (!db_->LookupResource(publicId, top, type)) | |
| 1152 { | |
| 1153 throw OrthancException(ErrorCode_UnknownResource); | |
| 1154 } | |
| 1155 | |
| 1156 if (type == ResourceType_Instance) | |
| 1157 { | |
| 1158 // The resource is already an instance: Do not go down the hierarchy | |
| 1159 result.push_back(publicId); | |
| 1160 return; | |
| 1161 } | |
| 1162 | |
| 1163 std::stack<int64_t> toExplore; | |
| 1164 toExplore.push(top); | |
| 1165 | |
| 1166 std::list<int64_t> tmp; | |
| 1167 | |
| 1168 while (!toExplore.empty()) | |
| 1169 { | |
| 1170 // Get the internal ID of the current resource | |
| 1171 int64_t resource = toExplore.top(); | |
| 1172 toExplore.pop(); | |
| 1173 | |
| 1174 if (db_->GetResourceType(resource) == ResourceType_Instance) | |
| 1175 { | |
| 1176 result.push_back(db_->GetPublicId(resource)); | |
| 1177 } | |
| 1178 else | |
| 1179 { | |
| 1180 // Tag all the children of this resource as to be explored | |
| 1181 db_->GetChildrenInternalId(tmp, resource); | |
| 1182 for (std::list<int64_t>::const_iterator | |
| 656 | 1183 it = tmp.begin(); it != tmp.end(); ++it) |
| 304 | 1184 { |
| 1185 toExplore.push(*it); | |
| 1186 } | |
| 1187 } | |
| 1188 } | |
| 1189 } | |
| 1190 | |
|
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1191 |
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1192 void ServerIndex::SetMetadata(const std::string& publicId, |
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1193 MetadataType type, |
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1194 const std::string& value) |
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1195 { |
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1196 boost::mutex::scoped_lock lock(mutex_); |
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1197 |
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1198 ResourceType rtype; |
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1199 int64_t id; |
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1200 if (!db_->LookupResource(publicId, id, rtype)) |
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1201 { |
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1202 throw OrthancException(ErrorCode_UnknownResource); |
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1203 } |
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1204 |
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1205 db_->SetMetadata(id, type, value); |
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1206 } |
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1207 |
| 438 | 1208 |
| 1209 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
| 1210 MetadataType type) | |
| 1211 { | |
| 1212 boost::mutex::scoped_lock lock(mutex_); | |
| 1213 | |
| 1214 ResourceType rtype; | |
| 1215 int64_t id; | |
| 1216 if (!db_->LookupResource(publicId, id, rtype)) | |
| 1217 { | |
| 1218 throw OrthancException(ErrorCode_UnknownResource); | |
| 1219 } | |
| 1220 | |
| 1221 db_->DeleteMetadata(id, type); | |
| 1222 } | |
| 1223 | |
| 1224 | |
|
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1225 bool ServerIndex::LookupMetadata(std::string& target, |
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1226 const std::string& publicId, |
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1227 MetadataType type) |
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1228 { |
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1229 boost::mutex::scoped_lock lock(mutex_); |
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1230 |
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1231 ResourceType rtype; |
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1232 int64_t id; |
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1233 if (!db_->LookupResource(publicId, id, rtype)) |
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1234 { |
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1235 throw OrthancException(ErrorCode_UnknownResource); |
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1236 } |
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1237 |
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1238 return db_->LookupMetadata(target, id, type); |
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1239 } |
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1240 |
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1241 |
| 739 | 1242 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
|
436
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|
1243 const std::string& publicId) |
|
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1244 { |
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1245 boost::mutex::scoped_lock lock(mutex_); |
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1246 |
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|
1247 ResourceType rtype; |
|
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1248 int64_t id; |
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1249 if (!db_->LookupResource(publicId, id, rtype)) |
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1250 { |
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1251 throw OrthancException(ErrorCode_UnknownResource); |
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1252 } |
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1253 |
| 739 | 1254 db_->ListAvailableMetadata(target, id); |
|
436
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1255 } |
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|
1256 |
|
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|
1257 |
|
697
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|
1258 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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|
1259 const std::string& publicId, |
|
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|
1260 ResourceType expectedType) |
|
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|
1261 { |
|
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|
1262 boost::mutex::scoped_lock lock(mutex_); |
|
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|
1263 |
|
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|
1264 ResourceType type; |
|
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1265 int64_t id; |
|
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1266 if (!db_->LookupResource(publicId, id, type) || |
|
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|
1267 expectedType != type) |
|
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|
1268 { |
|
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|
1269 throw OrthancException(ErrorCode_UnknownResource); |
|
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1270 } |
|
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|
1271 |
|
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|
1272 db_->ListAvailableAttachments(target, id); |
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1273 } |
|
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|
1274 |
|
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|
1275 |
|
306
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|
1276 bool ServerIndex::LookupParent(std::string& target, |
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1277 const std::string& publicId) |
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1278 { |
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|
1279 boost::mutex::scoped_lock lock(mutex_); |
|
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|
1280 |
|
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|
1281 ResourceType type; |
|
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|
1282 int64_t id; |
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|
1283 if (!db_->LookupResource(publicId, id, type)) |
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|
1284 { |
|
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|
1285 throw OrthancException(ErrorCode_UnknownResource); |
|
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|
1286 } |
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|
1287 |
|
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|
1288 int64_t parentId; |
|
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|
1289 if (db_->LookupParent(parentId, id)) |
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|
1290 { |
|
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|
1291 target = db_->GetPublicId(parentId); |
|
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|
1292 return true; |
|
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|
1293 } |
|
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|
1294 else |
|
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|
1295 { |
|
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|
1296 return false; |
|
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1297 } |
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|
1298 } |
| 310 | 1299 |
| 1300 | |
| 1301 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
| 1302 { | |
| 1303 boost::mutex::scoped_lock lock(mutex_); | |
| 311 | 1304 |
| 1305 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
| 1306 | |
| 1307 transaction->Begin(); | |
| 1308 uint64_t seq = db_->IncrementGlobalSequence(sequence); | |
| 1309 transaction->Commit(); | |
| 1310 | |
| 1311 return seq; | |
| 310 | 1312 } |
| 315 | 1313 |
| 1314 | |
| 1315 | |
| 1316 void ServerIndex::LogChange(ChangeType changeType, | |
| 1317 const std::string& publicId) | |
| 1318 { | |
| 1319 boost::mutex::scoped_lock lock(mutex_); | |
| 1320 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
| 1321 transaction->Begin(); | |
| 1322 | |
| 1323 int64_t id; | |
| 1324 ResourceType type; | |
| 1325 if (!db_->LookupResource(publicId, id, type)) | |
| 1326 { | |
| 1327 throw OrthancException(ErrorCode_UnknownResource); | |
| 1328 } | |
| 1329 | |
| 1330 db_->LogChange(changeType, id, type); | |
| 1331 | |
| 1332 transaction->Commit(); | |
| 1333 } | |
|
413
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|
1334 |
|
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|
1335 |
|
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|
1336 void ServerIndex::DeleteChanges() |
|
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|
1337 { |
|
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|
1338 boost::mutex::scoped_lock lock(mutex_); |
|
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|
1339 db_->ClearTable("Changes"); |
|
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|
1340 } |
|
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|
1341 |
|
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|
1342 void ServerIndex::DeleteExportedResources() |
|
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|
1343 { |
|
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|
1344 boost::mutex::scoped_lock lock(mutex_); |
|
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|
1345 db_->ClearTable("ExportedResources"); |
|
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|
1346 } |
|
440
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|
1347 |
|
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|
1348 |
| 646 | 1349 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
| 1350 /* out */ uint64_t& uncompressedSize, | |
| 1351 /* out */ unsigned int& countStudies, | |
| 1352 /* out */ unsigned int& countSeries, | |
| 1353 /* out */ unsigned int& countInstances, | |
| 1354 /* in */ int64_t id, | |
| 1355 /* in */ ResourceType type) | |
|
440
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|
1356 { |
| 646 | 1357 std::stack<int64_t> toExplore; |
| 1358 toExplore.push(id); | |
|
440
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|
1359 |
| 646 | 1360 countInstances = 0; |
| 1361 countSeries = 0; | |
| 1362 countStudies = 0; | |
| 1363 compressedSize = 0; | |
| 1364 uncompressedSize = 0; | |
|
440
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|
1365 |
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|
1366 while (!toExplore.empty()) |
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|
1367 { |
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|
1368 // Get the internal ID of the current resource |
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|
1369 int64_t resource = toExplore.top(); |
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|
1370 toExplore.pop(); |
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|
1371 |
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|
1372 ResourceType thisType = db_->GetResourceType(resource); |
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|
1373 |
|
702
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|
1374 std::list<FileContentType> f; |
|
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|
1375 db_->ListAvailableAttachments(f, resource); |
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|
1376 |
|
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|
1377 for (std::list<FileContentType>::const_iterator |
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1378 it = f.begin(); it != f.end(); ++it) |
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1379 { |
|
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|
1380 FileInfo attachment; |
|
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|
1381 if (db_->LookupAttachment(attachment, resource, *it)) |
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1382 { |
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1383 compressedSize += attachment.GetCompressedSize(); |
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1384 uncompressedSize += attachment.GetUncompressedSize(); |
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|
1385 } |
|
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|
1386 } |
|
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|
1387 |
|
440
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1388 if (thisType == ResourceType_Instance) |
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1389 { |
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|
1390 countInstances++; |
|
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1391 } |
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|
1392 else |
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|
1393 { |
|
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|
1394 switch (thisType) |
|
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|
1395 { |
|
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|
1396 case ResourceType_Study: |
|
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|
1397 countStudies++; |
|
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diff
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|
1398 break; |
|
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|
1399 |
|
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diff
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|
1400 case ResourceType_Series: |
|
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|
1401 countSeries++; |
|
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diff
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|
1402 break; |
|
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diff
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|
1403 |
|
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diff
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|
1404 default: |
|
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diff
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|
1405 break; |
|
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diff
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|
1406 } |
|
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|
1407 |
|
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|
1408 // Tag all the children of this resource as to be explored |
|
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|
1409 std::list<int64_t> tmp; |
|
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|
1410 db_->GetChildrenInternalId(tmp, resource); |
|
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|
1411 for (std::list<int64_t>::const_iterator |
| 656 | 1412 it = tmp.begin(); it != tmp.end(); ++it) |
|
440
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|
1413 { |
|
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|
1414 toExplore.push(*it); |
|
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|
1415 } |
|
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|
1416 } |
|
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|
1417 } |
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|
1418 |
| 646 | 1419 if (countStudies == 0) |
| 1420 { | |
| 1421 countStudies = 1; | |
| 1422 } | |
| 1423 | |
| 1424 if (countSeries == 0) | |
| 1425 { | |
| 1426 countSeries = 1; | |
| 1427 } | |
| 1428 } | |
| 1429 | |
| 1430 | |
| 1431 | |
| 1432 void ServerIndex::GetStatistics(Json::Value& target, | |
| 1433 const std::string& publicId) | |
| 1434 { | |
| 1435 boost::mutex::scoped_lock lock(mutex_); | |
| 1436 | |
| 1437 ResourceType type; | |
| 1438 int64_t top; | |
| 1439 if (!db_->LookupResource(publicId, top, type)) | |
| 1440 { | |
| 1441 throw OrthancException(ErrorCode_UnknownResource); | |
| 1442 } | |
| 1443 | |
| 1444 uint64_t uncompressedSize; | |
| 1445 uint64_t compressedSize; | |
| 1446 unsigned int countStudies; | |
| 1447 unsigned int countSeries; | |
| 1448 unsigned int countInstances; | |
| 1449 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
| 1450 countSeries, countInstances, top, type); | |
| 1451 | |
|
440
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|
1452 target = Json::objectValue; |
|
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|
1453 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
|
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1454 target["DiskSizeMB"] = boost::lexical_cast<unsigned int>(compressedSize / MEGA_BYTES); |
|
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1455 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
|
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|
1456 target["UncompressedSizeMB"] = boost::lexical_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
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|
1457 |
|
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|
1458 switch (type) |
|
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1459 { |
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1460 // Do NOT add "break" below this point! |
|
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1461 case ResourceType_Patient: |
|
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1462 target["CountStudies"] = countStudies; |
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1463 |
|
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|
1464 case ResourceType_Study: |
|
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1465 target["CountSeries"] = countSeries; |
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|
1466 |
|
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|
1467 case ResourceType_Series: |
|
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1468 target["CountInstances"] = countInstances; |
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|
1469 |
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|
1470 case ResourceType_Instance: |
|
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|
1471 default: |
|
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|
1472 break; |
|
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|
1473 } |
|
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|
1474 } |
|
511
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|
1475 |
|
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|
1476 |
| 646 | 1477 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
| 1478 /* out */ uint64_t& uncompressedSize, | |
| 1479 /* out */ unsigned int& countStudies, | |
| 1480 /* out */ unsigned int& countSeries, | |
| 1481 /* out */ unsigned int& countInstances, | |
| 1482 const std::string& publicId) | |
| 1483 { | |
| 1484 boost::mutex::scoped_lock lock(mutex_); | |
| 1485 | |
| 1486 ResourceType type; | |
| 1487 int64_t top; | |
| 1488 if (!db_->LookupResource(publicId, top, type)) | |
| 1489 { | |
| 1490 throw OrthancException(ErrorCode_UnknownResource); | |
| 1491 } | |
| 1492 | |
| 1493 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
| 1494 countSeries, countInstances, top, type); | |
| 1495 } | |
| 1496 | |
| 1497 | |
|
511
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|
1498 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
|
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|
1499 { |
|
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|
1500 int stableAge = GetGlobalIntegerParameter("StableAge", 60); |
|
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|
1501 if (stableAge <= 0) |
|
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|
1502 { |
|
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|
1503 stableAge = 60; |
|
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|
1504 } |
|
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|
1505 |
|
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|
1506 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
|
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|
1507 |
|
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|
1508 while (!that->done_) |
|
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|
1509 { |
|
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|
1510 // Check for stable resources each second |
|
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|
1511 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
|
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|
1512 |
|
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|
1513 boost::mutex::scoped_lock lock(that->mutex_); |
| 513 | 1514 |
|
511
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|
1515 while (!that->unstableResources_.IsEmpty() && |
|
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|
1516 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
|
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|
1517 { |
|
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|
1518 // This DICOM resource has not received any new instance for |
|
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|
1519 // some time. It can be considered as stable. |
|
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|
1520 |
|
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|
1521 UnstableResourcePayload payload; |
|
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|
1522 int64_t id = that->unstableResources_.RemoveOldest(payload); |
|
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|
1523 |
| 513 | 1524 // Ensure that the resource is still existing before logging the change |
| 1525 if (that->db_->IsExistingResource(id)) | |
|
511
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|
1526 { |
| 513 | 1527 switch (payload.type_) |
| 1528 { | |
| 1529 case Orthanc::ResourceType_Patient: | |
| 1530 that->db_->LogChange(ChangeType_StablePatient, id, ResourceType_Patient); | |
| 1531 break; | |
|
511
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|
1532 |
| 513 | 1533 case Orthanc::ResourceType_Study: |
| 1534 that->db_->LogChange(ChangeType_StableStudy, id, ResourceType_Study); | |
| 1535 break; | |
|
511
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|
1536 |
| 513 | 1537 case Orthanc::ResourceType_Series: |
| 1538 that->db_->LogChange(ChangeType_StableSeries, id, ResourceType_Series); | |
| 1539 break; | |
| 1540 | |
| 1541 default: | |
| 1542 throw OrthancException(ErrorCode_InternalError); | |
| 1543 } | |
| 1544 | |
| 1545 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
|
511
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|
1546 } |
|
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|
1547 } |
|
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|
1548 } |
|
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|
1549 |
|
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|
1550 LOG(INFO) << "Closing the monitor thread for stable resources"; |
|
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|
1551 } |
|
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|
1552 |
|
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|
1553 |
|
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|
1554 void ServerIndex::MarkAsUnstable(int64_t id, |
|
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|
1555 Orthanc::ResourceType type) |
|
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|
1556 { |
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|
1557 // WARNING: Before calling this method, "mutex_" must be locked. |
|
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|
1558 |
|
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|
1559 assert(type == Orthanc::ResourceType_Patient || |
|
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|
1560 type == Orthanc::ResourceType_Study || |
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|
1561 type == Orthanc::ResourceType_Series); |
|
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|
1562 |
|
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changeset
|
1563 unstableResources_.AddOrMakeMostRecent(id, type); |
|
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|
1564 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
|
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|
1565 } |
| 521 | 1566 |
| 1567 | |
| 1568 | |
| 1569 void ServerIndex::LookupTagValue(std::list<std::string>& result, | |
| 1570 DicomTag tag, | |
| 615 | 1571 const std::string& value, |
| 1572 ResourceType type) | |
| 1573 { | |
| 1574 result.clear(); | |
| 1575 | |
| 1576 boost::mutex::scoped_lock lock(mutex_); | |
| 1577 | |
| 1578 std::list<int64_t> id; | |
| 1579 db_->LookupTagValue(id, tag, value); | |
| 1580 | |
| 1581 for (std::list<int64_t>::const_iterator | |
| 656 | 1582 it = id.begin(); it != id.end(); ++it) |
| 615 | 1583 { |
| 1584 if (db_->GetResourceType(*it) == type) | |
| 1585 { | |
| 1586 result.push_back(db_->GetPublicId(*it)); | |
| 1587 } | |
| 1588 } | |
| 1589 } | |
| 1590 | |
| 1591 | |
| 1592 void ServerIndex::LookupTagValue(std::list<std::string>& result, | |
| 1593 DicomTag tag, | |
| 521 | 1594 const std::string& value) |
| 1595 { | |
| 1596 result.clear(); | |
| 1597 | |
| 1598 boost::mutex::scoped_lock lock(mutex_); | |
| 1599 | |
| 1600 std::list<int64_t> id; | |
| 1601 db_->LookupTagValue(id, tag, value); | |
| 1602 | |
| 1603 for (std::list<int64_t>::const_iterator | |
| 656 | 1604 it = id.begin(); it != id.end(); ++it) |
| 521 | 1605 { |
| 1606 result.push_back(db_->GetPublicId(*it)); | |
| 1607 } | |
| 1608 } | |
| 1609 | |
| 1610 | |
| 1611 void ServerIndex::LookupTagValue(std::list<std::string>& result, | |
| 1612 const std::string& value) | |
| 1613 { | |
| 1614 result.clear(); | |
| 1615 | |
| 1616 boost::mutex::scoped_lock lock(mutex_); | |
| 1617 | |
| 1618 std::list<int64_t> id; | |
| 1619 db_->LookupTagValue(id, value); | |
| 1620 | |
| 1621 for (std::list<int64_t>::const_iterator | |
| 656 | 1622 it = id.begin(); it != id.end(); ++it) |
| 521 | 1623 { |
| 1624 result.push_back(db_->GetPublicId(*it)); | |
| 1625 } | |
| 1626 } | |
|
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1627 |
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1628 |
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1629 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1630 const std::string& publicId) |
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1631 { |
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1632 boost::mutex::scoped_lock lock(mutex_); |
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1633 |
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1634 Transaction t(*this); |
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1635 |
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1636 ResourceType resourceType; |
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1637 int64_t resourceId; |
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1638 if (!db_->LookupResource(publicId, resourceId, resourceType)) |
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1639 { |
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1640 return StoreStatus_Failure; // Inexistent resource |
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1641 } |
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1642 |
|
704
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1643 // Remove possible previous attachment |
|
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1644 db_->DeleteAttachment(resourceId, attachment.GetContentType()); |
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1645 |
|
704
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1646 // Locate the patient of the target resource |
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1647 int64_t patientId = resourceId; |
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1648 for (;;) |
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1649 { |
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1650 int64_t parent; |
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1651 if (db_->LookupParent(parent, patientId)) |
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1652 { |
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1653 // We have not reached the patient level yet |
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1654 patientId = parent; |
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1655 } |
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1656 else |
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|
1657 { |
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1658 // We have reached the patient level |
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1659 break; |
|
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1660 } |
|
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|
1661 } |
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|
1662 |
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1663 // Possibly apply the recycling mechanism while preserving this patient |
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1664 assert(db_->GetResourceType(patientId) == ResourceType_Patient); |
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1665 Recycle(attachment.GetCompressedSize(), db_->GetPublicId(patientId)); |
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|
1666 |
|
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1667 db_->AddAttachment(resourceId, attachment); |
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1668 |
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1669 t.Commit(attachment.GetCompressedSize()); |
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1670 |
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1671 return StoreStatus_Success; |
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1672 } |
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|
1673 |
|
702
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|
1674 |
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1675 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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1676 FileContentType type) |
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1677 { |
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1678 boost::mutex::scoped_lock lock(mutex_); |
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1679 listener_->Reset(); |
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|
1680 |
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1681 Transaction t(*this); |
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1682 |
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1683 ResourceType rtype; |
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1684 int64_t id; |
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1685 if (!db_->LookupResource(publicId, id, rtype)) |
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1686 { |
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1687 throw OrthancException(ErrorCode_UnknownResource); |
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1688 } |
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|
1689 |
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1690 db_->DeleteAttachment(id, type); |
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1691 |
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1692 t.Commit(0); |
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1693 } |
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|
1694 |
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|
1695 |
| 0 | 1696 } |