Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 1177:5b2d8c280ac2 db-changes
Plugins can monitor changes through callbacks
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Wed, 24 Sep 2014 17:37:44 +0200 |
parents | 1ea4094d077c |
children | 6b9b02a16e99 |
rev | line source |
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0 | 1 /** |
62 | 2 * Orthanc - A Lightweight, RESTful DICOM Store |
689 | 3 * Copyright (C) 2012-2014 Medical Physics Department, CHU of Liege, |
0 | 4 * Belgium |
5 * | |
6 * This program is free software: you can redistribute it and/or | |
7 * modify it under the terms of the GNU General Public License as | |
8 * published by the Free Software Foundation, either version 3 of the | |
9 * License, or (at your option) any later version. | |
136 | 10 * |
11 * In addition, as a special exception, the copyright holders of this | |
12 * program give permission to link the code of its release with the | |
13 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
14 * that use the same license as the "OpenSSL" library), and distribute | |
15 * the linked executables. You must obey the GNU General Public License | |
16 * in all respects for all of the code used other than "OpenSSL". If you | |
17 * modify file(s) with this exception, you may extend this exception to | |
18 * your version of the file(s), but you are not obligated to do so. If | |
19 * you do not wish to do so, delete this exception statement from your | |
20 * version. If you delete this exception statement from all source files | |
21 * in the program, then also delete it here. | |
0 | 22 * |
23 * This program is distributed in the hope that it will be useful, but | |
24 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
26 * General Public License for more details. | |
27 * | |
28 * You should have received a copy of the GNU General Public License | |
29 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
30 **/ | |
31 | |
32 | |
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33 #include "PrecompiledHeadersServer.h" |
0 | 34 #include "ServerIndex.h" |
35 | |
6 | 36 #ifndef NOMINMAX |
2 | 37 #define NOMINMAX |
6 | 38 #endif |
39 | |
8 | 40 #include "EmbeddedResources.h" |
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41 #include "OrthancInitialization.h" |
0 | 42 #include "../Core/Toolbox.h" |
43 #include "../Core/Uuid.h" | |
44 #include "../Core/DicomFormat/DicomArray.h" | |
45 #include "../Core/SQLite/Transaction.h" | |
46 #include "FromDcmtkBridge.h" | |
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47 #include "ServerContext.h" |
0 | 48 |
49 #include <boost/lexical_cast.hpp> | |
50 #include <stdio.h> | |
108 | 51 #include <glog/logging.h> |
0 | 52 |
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53 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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54 |
62 | 55 namespace Orthanc |
0 | 56 { |
57 namespace Internals | |
58 { | |
202 | 59 class ServerIndexListener : public IServerIndexListener |
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60 { |
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61 private: |
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62 struct FileToRemove |
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63 { |
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64 private: |
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65 std::string uuid_; |
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66 FileContentType type_; |
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67 |
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68 public: |
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69 FileToRemove(const FileInfo& info) : uuid_(info.GetUuid()), |
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70 type_(info.GetContentType()) |
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71 { |
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72 } |
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73 |
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74 const std::string& GetUuid() const |
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75 { |
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76 return uuid_; |
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77 } |
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78 |
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79 FileContentType GetContentType() const |
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80 { |
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81 return type_; |
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82 } |
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83 }; |
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84 |
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85 struct Change |
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86 { |
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87 private: |
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88 ChangeType changeType_; |
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89 ResourceType resourceType_; |
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90 std::string publicId_; |
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91 |
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92 public: |
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93 Change(ChangeType changeType, |
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94 ResourceType resourceType, |
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95 const std::string& publicId) : |
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96 changeType_(changeType), |
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97 resourceType_(resourceType), |
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98 publicId_(publicId) |
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99 { |
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100 } |
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101 |
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102 ChangeType GetChangeType() const |
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103 { |
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104 return changeType_; |
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105 } |
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106 |
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107 ResourceType GetResourceType() const |
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108 { |
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109 return resourceType_; |
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110 } |
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111 |
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112 const std::string& GetPublicId() const |
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113 { |
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114 return publicId_; |
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115 } |
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116 }; |
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117 |
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118 ServerContext& context_; |
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119 bool hasRemainingLevel_; |
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120 ResourceType remainingType_; |
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121 std::string remainingPublicId_; |
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122 std::list<FileToRemove> pendingFilesToRemove_; |
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123 std::list<Change> pendingChanges_; |
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124 uint64_t sizeOfFilesToRemove_; |
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125 |
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126 public: |
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127 ServerIndexListener(ServerContext& context) : |
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128 context_(context) |
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129 { |
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130 Reset(); |
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131 assert(ResourceType_Patient < ResourceType_Study && |
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132 ResourceType_Study < ResourceType_Series && |
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133 ResourceType_Series < ResourceType_Instance); |
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134 } |
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135 |
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136 void Reset() |
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137 { |
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138 sizeOfFilesToRemove_ = 0; |
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139 hasRemainingLevel_ = false; |
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140 pendingFilesToRemove_.clear(); |
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141 } |
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142 |
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143 uint64_t GetSizeOfFilesToRemove() |
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144 { |
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145 return sizeOfFilesToRemove_; |
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146 } |
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147 |
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148 void CommitFilesToRemove() |
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149 { |
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150 for (std::list<FileToRemove>::iterator |
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151 it = pendingFilesToRemove_.begin(); |
656 | 152 it != pendingFilesToRemove_.end(); ++it) |
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153 { |
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154 context_.RemoveFile(it->GetUuid(), it->GetContentType()); |
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155 } |
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156 } |
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157 |
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158 virtual void SignalRemainingAncestor(ResourceType parentType, |
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159 const std::string& publicId) |
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160 { |
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161 LOG(INFO) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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162 |
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163 if (hasRemainingLevel_) |
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164 { |
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165 if (parentType < remainingType_) |
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166 { |
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167 remainingType_ = parentType; |
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168 remainingPublicId_ = publicId; |
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169 } |
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170 } |
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171 else |
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172 { |
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173 hasRemainingLevel_ = true; |
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174 remainingType_ = parentType; |
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175 remainingPublicId_ = publicId; |
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176 } |
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177 } |
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178 |
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179 virtual void SignalFileDeleted(const FileInfo& info) |
201
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180 { |
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181 assert(Toolbox::IsUuid(info.GetUuid())); |
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182 pendingFilesToRemove_.push_back(FileToRemove(info)); |
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183 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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184 } |
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185 |
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186 virtual void SignalChange(ChangeType changeType, |
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187 ResourceType resourceType, |
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188 const std::string& publicId) |
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190 LOG(INFO) << "Change related to resource " << publicId << " of type " |
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191 << EnumerationToString(resourceType) << ": " << EnumerationToString(changeType); |
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192 |
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193 pendingChanges_.push_back(Change(changeType, resourceType, publicId)); |
1158 | 194 } |
195 | |
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196 bool HasRemainingLevel() const |
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197 { |
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198 return hasRemainingLevel_; |
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199 } |
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200 |
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201 ResourceType GetRemainingType() const |
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202 { |
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203 assert(HasRemainingLevel()); |
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204 return remainingType_; |
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205 } |
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206 |
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207 const std::string& GetRemainingPublicId() const |
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208 { |
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209 assert(HasRemainingLevel()); |
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210 return remainingPublicId_; |
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211 } |
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212 }; |
0 | 213 } |
214 | |
215 | |
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216 class ServerIndex::Transaction |
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217 { |
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218 private: |
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219 ServerIndex& index_; |
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220 std::auto_ptr<SQLite::Transaction> transaction_; |
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221 bool isCommitted_; |
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222 |
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223 public: |
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224 Transaction(ServerIndex& index) : |
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225 index_(index), |
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226 isCommitted_(false) |
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227 { |
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228 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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229 |
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230 index_.listener_->Reset(); |
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231 transaction_.reset(index_.db_->StartTransaction()); |
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232 transaction_->Begin(); |
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233 } |
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234 |
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235 void Commit(uint64_t sizeOfAddedFiles) |
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236 { |
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237 if (!isCommitted_) |
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238 { |
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239 transaction_->Commit(); |
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240 |
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241 // We can remove the files once the SQLite transaction has |
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242 // been successfully committed. Some files might have to be |
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243 // deleted because of recycling. |
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244 index_.listener_->CommitFilesToRemove(); |
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245 |
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246 index_.currentStorageSize_ += sizeOfAddedFiles; |
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247 |
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248 assert(index_.currentStorageSize_ >= index_.listener_->GetSizeOfFilesToRemove()); |
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249 index_.currentStorageSize_ -= index_.listener_->GetSizeOfFilesToRemove(); |
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250 |
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251 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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252 |
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253 isCommitted_ = true; |
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254 } |
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255 } |
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256 }; |
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257 |
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258 |
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259 class ServerIndex::UnstableResourcePayload |
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260 { |
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261 private: |
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262 ResourceType type_; |
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263 std::string publicId_; |
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264 boost::posix_time::ptime time_; |
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265 |
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266 public: |
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267 UnstableResourcePayload() : type_(ResourceType_Instance) |
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268 { |
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269 } |
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270 |
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271 UnstableResourcePayload(Orthanc::ResourceType type, |
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272 const std::string& publicId) : |
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273 type_(type), |
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274 publicId_(publicId) |
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275 { |
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276 time_ = boost::posix_time::second_clock::local_time(); |
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277 } |
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278 |
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279 unsigned int GetAge() const |
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280 { |
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281 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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282 } |
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283 |
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284 ResourceType GetResourceType() const |
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285 { |
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286 return type_; |
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287 } |
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288 |
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289 const std::string& GetPublicId() const |
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290 { |
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291 return publicId_; |
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292 } |
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293 }; |
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294 |
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295 |
212 | 296 bool ServerIndex::DeleteResource(Json::Value& target, |
0 | 297 const std::string& uuid, |
202 | 298 ResourceType expectedType) |
0 | 299 { |
206
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300 boost::mutex::scoped_lock lock(mutex_); |
202 | 301 listener_->Reset(); |
201
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302 |
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303 Transaction t(*this); |
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304 |
202 | 305 int64_t id; |
306 ResourceType type; | |
307 if (!db_->LookupResource(uuid, id, type) || | |
308 expectedType != type) | |
0 | 309 { |
310 return false; | |
311 } | |
202 | 312 |
313 db_->DeleteResource(id); | |
0 | 314 |
202 | 315 if (listener_->HasRemainingLevel()) |
0 | 316 { |
202 | 317 ResourceType type = listener_->GetRemainingType(); |
318 const std::string& uuid = listener_->GetRemainingPublicId(); | |
0 | 319 |
320 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
204 | 321 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
434
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322 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
0 | 323 target["RemainingAncestor"]["ID"] = uuid; |
324 } | |
325 else | |
326 { | |
327 target["RemainingAncestor"] = Json::nullValue; | |
328 } | |
329 | |
278
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330 t.Commit(0); |
264
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331 |
0 | 332 return true; |
333 } | |
334 | |
335 | |
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336 void ServerIndex::FlushThread(ServerIndex* that) |
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337 { |
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338 // By default, wait for 10 seconds before flushing |
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339 unsigned int sleep = 10; |
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340 |
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341 try |
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342 { |
744 | 343 boost::mutex::scoped_lock lock(that->mutex_); |
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344 std::string sleepString = that->db_->GetGlobalProperty(GlobalProperty_FlushSleep); |
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345 |
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346 if (Toolbox::IsInteger(sleepString)) |
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347 { |
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348 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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349 } |
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350 } |
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351 catch (boost::bad_lexical_cast&) |
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352 { |
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353 } |
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354 |
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355 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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356 |
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357 unsigned int count = 0; |
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358 |
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359 while (!that->done_) |
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360 { |
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361 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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362 count++; |
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363 if (count < sleep) |
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364 { |
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365 continue; |
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366 } |
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367 |
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368 boost::mutex::scoped_lock lock(that->mutex_); |
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369 that->db_->FlushToDisk(); |
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370 count = 0; |
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371 } |
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372 |
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373 LOG(INFO) << "Stopping the database flushing thread"; |
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374 } |
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375 |
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376 |
433 | 377 static void ComputeExpectedNumberOfInstances(DatabaseWrapper& db, |
378 int64_t series, | |
379 const DicomMap& dicomSummary) | |
380 { | |
381 try | |
382 { | |
656 | 383 const DicomValue* value; |
384 const DicomValue* value2; | |
385 | |
433 | 386 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
387 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
388 { | |
389 // Patch for series with temporal positions thanks to Will Ryder | |
390 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->AsString()); | |
391 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->AsString()); | |
392 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); | |
393 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
394 } | |
395 | |
396 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
397 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
398 { | |
399 // Support of Cardio-PET images | |
400 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->AsString()); | |
401 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->AsString()); | |
402 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); | |
403 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
404 } | |
405 | |
406 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
407 { | |
408 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->AsString()); | |
409 } | |
410 } | |
411 catch (boost::bad_lexical_cast) | |
412 { | |
413 } | |
414 } | |
415 | |
416 | |
226
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417 ServerIndex::ServerIndex(ServerContext& context, |
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418 const std::string& dbPath) : |
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419 done_(false), |
269
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420 maximumStorageSize_(0), |
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421 maximumPatients_(0) |
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422 { |
226
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423 listener_.reset(new Internals::ServerIndexListener(context)); |
186
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424 |
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425 if (dbPath == ":memory:") |
180
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426 { |
202 | 427 db_.reset(new DatabaseWrapper(*listener_)); |
180
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428 } |
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429 else |
0 | 430 { |
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431 boost::filesystem::path p = dbPath; |
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432 |
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433 try |
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434 { |
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435 boost::filesystem::create_directories(p); |
180
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436 } |
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437 catch (boost::filesystem::filesystem_error) |
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438 { |
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439 } |
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440 |
202 | 441 db_.reset(new DatabaseWrapper(p.string() + "/index", *listener_)); |
0 | 442 } |
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443 |
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444 currentStorageSize_ = db_->GetTotalCompressedSize(); |
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445 |
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446 // Initial recycling if the parameters have changed since the last |
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447 // execution of Orthanc |
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448 StandaloneRecycling(); |
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449 |
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450 flushThread_ = boost::thread(FlushThread, this); |
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451 unstableResourcesMonitorThread_ = boost::thread(UnstableResourcesMonitorThread, this); |
206
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452 } |
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453 |
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454 |
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455 ServerIndex::~ServerIndex() |
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456 { |
511
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457 done_ = true; |
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458 |
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459 if (flushThread_.joinable()) |
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460 { |
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461 flushThread_.join(); |
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462 } |
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463 |
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464 if (unstableResourcesMonitorThread_.joinable()) |
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465 { |
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466 unstableResourcesMonitorThread_.join(); |
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467 } |
0 | 468 } |
469 | |
470 | |
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471 StoreStatus ServerIndex::Store(std::map<MetadataType, std::string>& instanceMetadata, |
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472 const DicomMap& dicomSummary, |
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473 const Attachments& attachments, |
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474 const std::string& remoteAet, |
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475 const MetadataMap& metadata) |
0 | 476 { |
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477 boost::mutex::scoped_lock lock(mutex_); |
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478 listener_->Reset(); |
0 | 479 |
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480 instanceMetadata.clear(); |
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481 |
178 | 482 DicomInstanceHasher hasher(dicomSummary); |
0 | 483 |
484 try | |
485 { | |
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486 Transaction t(*this); |
0 | 487 |
202 | 488 // Do nothing if the instance already exists |
0 | 489 { |
432 | 490 ResourceType type; |
491 int64_t tmp; | |
492 if (db_->LookupResource(hasher.HashInstance(), tmp, type)) | |
493 { | |
494 assert(type == ResourceType_Instance); | |
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495 db_->GetAllMetadata(instanceMetadata, tmp); |
432 | 496 return StoreStatus_AlreadyStored; |
497 } | |
0 | 498 } |
499 | |
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500 // Ensure there is enough room in the storage for the new instance |
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501 uint64_t instanceSize = 0; |
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502 for (Attachments::const_iterator it = attachments.begin(); |
656 | 503 it != attachments.end(); ++it) |
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504 { |
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505 instanceSize += it->GetCompressedSize(); |
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506 } |
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507 |
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508 Recycle(instanceSize, hasher.HashPatient()); |
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509 |
202 | 510 // Create the instance |
432 | 511 int64_t instance = db_->CreateResource(hasher.HashInstance(), ResourceType_Instance); |
202 | 512 |
513 DicomMap dicom; | |
514 dicomSummary.ExtractInstanceInformation(dicom); | |
515 db_->SetMainDicomTags(instance, dicom); | |
516 | |
432 | 517 // Detect up to which level the patient/study/series/instance |
518 // hierarchy must be created | |
519 int64_t patient = -1, study = -1, series = -1; | |
520 bool isNewPatient = false; | |
521 bool isNewStudy = false; | |
522 bool isNewSeries = false; | |
523 | |
0 | 524 { |
432 | 525 ResourceType dummy; |
526 | |
527 if (db_->LookupResource(hasher.HashSeries(), series, dummy)) | |
528 { | |
529 assert(dummy == ResourceType_Series); | |
530 // The patient, the study and the series already exist | |
531 | |
532 bool ok = (db_->LookupResource(hasher.HashPatient(), patient, dummy) && | |
533 db_->LookupResource(hasher.HashStudy(), study, dummy)); | |
534 assert(ok); | |
535 } | |
536 else if (db_->LookupResource(hasher.HashStudy(), study, dummy)) | |
537 { | |
538 assert(dummy == ResourceType_Study); | |
539 | |
540 // New series: The patient and the study already exist | |
541 isNewSeries = true; | |
542 | |
543 bool ok = db_->LookupResource(hasher.HashPatient(), patient, dummy); | |
544 assert(ok); | |
545 } | |
546 else if (db_->LookupResource(hasher.HashPatient(), patient, dummy)) | |
547 { | |
548 assert(dummy == ResourceType_Patient); | |
549 | |
550 // New study and series: The patient already exist | |
551 isNewStudy = true; | |
552 isNewSeries = true; | |
553 } | |
554 else | |
555 { | |
556 // New patient, study and series: Nothing exists | |
557 isNewPatient = true; | |
558 isNewStudy = true; | |
559 isNewSeries = true; | |
560 } | |
561 } | |
562 | |
563 // Create the series if needed | |
564 if (isNewSeries) | |
565 { | |
202 | 566 series = db_->CreateResource(hasher.HashSeries(), ResourceType_Series); |
567 dicomSummary.ExtractSeriesInformation(dicom); | |
568 db_->SetMainDicomTags(series, dicom); | |
432 | 569 } |
202 | 570 |
432 | 571 // Create the study if needed |
572 if (isNewStudy) | |
573 { | |
574 study = db_->CreateResource(hasher.HashStudy(), ResourceType_Study); | |
575 dicomSummary.ExtractStudyInformation(dicom); | |
576 db_->SetMainDicomTags(study, dicom); | |
577 } | |
578 | |
579 // Create the patient if needed | |
580 if (isNewPatient) | |
581 { | |
582 patient = db_->CreateResource(hasher.HashPatient(), ResourceType_Patient); | |
583 dicomSummary.ExtractPatientInformation(dicom); | |
584 db_->SetMainDicomTags(patient, dicom); | |
585 } | |
202 | 586 |
432 | 587 // Create the parent-to-child links |
588 db_->AttachChild(series, instance); | |
589 | |
590 if (isNewSeries) | |
591 { | |
592 db_->AttachChild(study, series); | |
0 | 593 } |
432 | 594 |
595 if (isNewStudy) | |
0 | 596 { |
432 | 597 db_->AttachChild(patient, study); |
0 | 598 } |
599 | |
432 | 600 // Sanity checks |
601 assert(patient != -1); | |
602 assert(study != -1); | |
603 assert(series != -1); | |
604 assert(instance != -1); | |
605 | |
202 | 606 // Attach the files to the newly created instance |
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607 for (Attachments::const_iterator it = attachments.begin(); |
656 | 608 it != attachments.end(); ++it) |
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609 { |
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610 db_->AddAttachment(instance, *it); |
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611 } |
202 | 612 |
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613 // Attach the user-specified metadata |
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614 for (MetadataMap::const_iterator |
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615 it = metadata.begin(); it != metadata.end(); ++it) |
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616 { |
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617 switch (it->first.first) |
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618 { |
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619 case ResourceType_Patient: |
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620 db_->SetMetadata(patient, it->first.second, it->second); |
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621 break; |
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622 |
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623 case ResourceType_Study: |
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624 db_->SetMetadata(study, it->first.second, it->second); |
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625 break; |
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626 |
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627 case ResourceType_Series: |
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628 db_->SetMetadata(series, it->first.second, it->second); |
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629 break; |
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630 |
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631 case ResourceType_Instance: |
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632 db_->SetMetadata(instance, it->first.second, it->second); |
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633 instanceMetadata[it->first.second] = it->second; |
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634 break; |
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635 |
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636 default: |
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637 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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638 } |
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639 } |
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640 |
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641 // Attach the auto-computed metadata for the patient/study/series levels |
432 | 642 std::string now = Toolbox::GetNowIsoString(); |
643 db_->SetMetadata(series, MetadataType_LastUpdate, now); | |
644 db_->SetMetadata(study, MetadataType_LastUpdate, now); | |
645 db_->SetMetadata(patient, MetadataType_LastUpdate, now); | |
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646 |
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647 // Attach the auto-computed metadata for the instance level, |
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648 // reflecting these additions into the input metadata map |
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649 db_->SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); |
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650 instanceMetadata[MetadataType_Instance_ReceptionDate] = now; |
202 | 651 |
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652 db_->SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
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653 instanceMetadata[MetadataType_Instance_RemoteAet] = remoteAet; |
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654 |
202 | 655 const DicomValue* value; |
656 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
657 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 658 { |
202 | 659 db_->SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
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660 instanceMetadata[MetadataType_Instance_IndexInSeries] = value->AsString(); |
0 | 661 } |
662 | |
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663 // Check whether the series of this new instance is now completed |
202 | 664 if (isNewSeries) |
665 { | |
433 | 666 ComputeExpectedNumberOfInstances(*db_, series, dicomSummary); |
202 | 667 } |
668 | |
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669 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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670 if (seriesStatus == SeriesStatus_Complete) |
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671 { |
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672 db_->LogChange(ChangeType_CompletedSeries, series, ResourceType_Series, hasher.HashSeries()); |
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673 } |
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674 |
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675 // Mark the parent resources of this instance as unstable |
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676 MarkAsUnstable(series, ResourceType_Series, hasher.HashSeries()); |
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677 MarkAsUnstable(study, ResourceType_Study, hasher.HashStudy()); |
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678 MarkAsUnstable(patient, ResourceType_Patient, hasher.HashPatient()); |
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679 |
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680 t.Commit(instanceSize); |
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681 |
0 | 682 return StoreStatus_Success; |
683 } | |
62 | 684 catch (OrthancException& e) |
0 | 685 { |
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686 LOG(ERROR) << "EXCEPTION [" << e.What() << "]" |
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687 << " (SQLite status: " << db_->GetErrorMessage() << ")"; |
0 | 688 } |
689 | |
690 return StoreStatus_Failure; | |
691 } | |
692 | |
693 | |
238 | 694 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 695 { |
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696 boost::mutex::scoped_lock lock(mutex_); |
238 | 697 target = Json::objectValue; |
0 | 698 |
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699 uint64_t cs = currentStorageSize_; |
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700 assert(cs == db_->GetTotalCompressedSize()); |
238 | 701 uint64_t us = db_->GetTotalUncompressedSize(); |
440
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702 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 703 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
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704 target["TotalDiskSizeMB"] = boost::lexical_cast<unsigned int>(cs / MEGA_BYTES); |
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705 target["TotalUncompressedSizeMB"] = boost::lexical_cast<unsigned int>(us / MEGA_BYTES); |
238 | 706 |
707 target["CountPatients"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Patient)); | |
708 target["CountStudies"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Study)); | |
709 target["CountSeries"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Series)); | |
710 target["CountInstances"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Instance)); | |
711 } | |
712 | |
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713 |
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714 |
585 | 715 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 716 { |
717 // Get the expected number of instances in this series (from the metadata) | |
202 | 718 std::string s = db_->GetMetadata(id, MetadataType_Series_ExpectedNumberOfInstances); |
199 | 719 |
720 size_t expected; | |
721 try | |
722 { | |
723 expected = boost::lexical_cast<size_t>(s); | |
724 } | |
725 catch (boost::bad_lexical_cast&) | |
726 { | |
727 return SeriesStatus_Unknown; | |
728 } | |
729 | |
730 // Loop over the instances of this series | |
731 std::list<int64_t> children; | |
202 | 732 db_->GetChildrenInternalId(children, id); |
199 | 733 |
734 std::set<size_t> instances; | |
735 for (std::list<int64_t>::const_iterator | |
656 | 736 it = children.begin(); it != children.end(); ++it) |
199 | 737 { |
738 // Get the index of this instance in the series | |
202 | 739 s = db_->GetMetadata(*it, MetadataType_Instance_IndexInSeries); |
199 | 740 size_t index; |
741 try | |
742 { | |
743 index = boost::lexical_cast<size_t>(s); | |
744 } | |
745 catch (boost::bad_lexical_cast&) | |
746 { | |
747 return SeriesStatus_Unknown; | |
748 } | |
749 | |
656 | 750 if (!(index > 0 && index <= expected)) |
199 | 751 { |
752 // Out-of-range instance index | |
753 return SeriesStatus_Inconsistent; | |
754 } | |
755 | |
756 if (instances.find(index) != instances.end()) | |
757 { | |
758 // Twice the same instance index | |
759 return SeriesStatus_Inconsistent; | |
760 } | |
761 | |
762 instances.insert(index); | |
763 } | |
764 | |
765 if (instances.size() == expected) | |
766 { | |
767 return SeriesStatus_Complete; | |
768 } | |
769 else | |
770 { | |
771 return SeriesStatus_Missing; | |
772 } | |
773 } | |
774 | |
775 | |
776 | |
202 | 777 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
778 int64_t resourceId) | |
198
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779 { |
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780 DicomMap tags; |
202 | 781 db_->GetMainDicomTags(tags, resourceId); |
198
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782 target["MainDicomTags"] = Json::objectValue; |
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783 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags); |
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784 } |
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785 |
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786 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 787 const std::string& publicId, |
788 ResourceType expectedType) | |
198
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789 { |
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790 result = Json::objectValue; |
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791 |
206
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792 boost::mutex::scoped_lock lock(mutex_); |
199 | 793 |
198
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794 // Lookup for the requested resource |
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795 int64_t id; |
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796 ResourceType type; |
202 | 797 if (!db_->LookupResource(publicId, id, type) || |
199 | 798 type != expectedType) |
198
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799 { |
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800 return false; |
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801 } |
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802 |
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803 // Find the parent resource (if it exists) |
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804 if (type != ResourceType_Patient) |
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805 { |
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806 int64_t parentId; |
202 | 807 if (!db_->LookupParent(parentId, id)) |
198
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808 { |
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809 throw OrthancException(ErrorCode_InternalError); |
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810 } |
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811 |
202 | 812 std::string parent = db_->GetPublicId(parentId); |
198
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813 |
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814 switch (type) |
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815 { |
269
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816 case ResourceType_Study: |
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817 result["ParentPatient"] = parent; |
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818 break; |
198
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819 |
269
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820 case ResourceType_Series: |
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821 result["ParentStudy"] = parent; |
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822 break; |
198
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823 |
269
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824 case ResourceType_Instance: |
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825 result["ParentSeries"] = parent; |
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826 break; |
198
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827 |
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828 default: |
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829 throw OrthancException(ErrorCode_InternalError); |
198
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830 } |
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831 } |
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832 |
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833 // List the children resources |
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834 std::list<std::string> children; |
202 | 835 db_->GetChildrenPublicId(children, id); |
198
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836 |
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837 if (type != ResourceType_Instance) |
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838 { |
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839 Json::Value c = Json::arrayValue; |
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840 |
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841 for (std::list<std::string>::const_iterator |
656 | 842 it = children.begin(); it != children.end(); ++it) |
198
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843 { |
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844 c.append(*it); |
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845 } |
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846 |
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847 switch (type) |
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848 { |
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|
849 case ResourceType_Patient: |
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850 result["Studies"] = c; |
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851 break; |
198
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|
852 |
269
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|
853 case ResourceType_Study: |
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854 result["Series"] = c; |
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855 break; |
198
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|
856 |
269
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857 case ResourceType_Series: |
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858 result["Instances"] = c; |
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859 break; |
198
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860 |
269
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861 default: |
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862 throw OrthancException(ErrorCode_InternalError); |
198
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863 } |
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864 } |
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865 |
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866 // Set the resource type |
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867 switch (type) |
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868 { |
269
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869 case ResourceType_Patient: |
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870 result["Type"] = "Patient"; |
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|
871 break; |
198
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|
872 |
269
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|
873 case ResourceType_Study: |
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874 result["Type"] = "Study"; |
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875 break; |
199 | 876 |
269
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877 case ResourceType_Series: |
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878 { |
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879 result["Type"] = "Series"; |
434
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EnumerationDictionary
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|
880 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
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881 |
269
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|
882 int i; |
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883 if (db_->GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
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884 result["ExpectedNumberOfInstances"] = i; |
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885 else |
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886 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
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|
887 |
269
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changeset
|
888 break; |
200
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|
889 } |
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|
890 |
269
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changeset
|
891 case ResourceType_Instance: |
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892 { |
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893 result["Type"] = "Instance"; |
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|
894 |
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|
895 FileInfo attachment; |
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896 if (!db_->LookupAttachment(attachment, id, FileContentType_Dicom)) |
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897 { |
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898 throw OrthancException(ErrorCode_InternalError); |
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899 } |
200
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900 |
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901 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
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902 result["FileUuid"] = attachment.GetUuid(); |
200
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903 |
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904 int i; |
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905 if (db_->GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
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906 result["IndexInSeries"] = i; |
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907 else |
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908 result["IndexInSeries"] = Json::nullValue; |
198
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909 |
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910 break; |
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911 } |
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912 |
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913 default: |
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914 throw OrthancException(ErrorCode_InternalError); |
198
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915 } |
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916 |
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917 // Record the remaining information |
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918 result["ID"] = publicId; |
202 | 919 MainDicomTagsToJson(result, id); |
198
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920 |
315 | 921 std::string tmp; |
922 | |
923 tmp = db_->GetMetadata(id, MetadataType_AnonymizedFrom); | |
924 if (tmp.size() != 0) | |
925 result["AnonymizedFrom"] = tmp; | |
926 | |
927 tmp = db_->GetMetadata(id, MetadataType_ModifiedFrom); | |
928 if (tmp.size() != 0) | |
929 result["ModifiedFrom"] = tmp; | |
930 | |
511
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931 if (type == ResourceType_Patient || |
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932 type == ResourceType_Study || |
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933 type == ResourceType_Series) |
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934 { |
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935 result["IsStable"] = !unstableResources_.Contains(id); |
1148
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diff
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|
936 |
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diff
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|
937 tmp = db_->GetMetadata(id, MetadataType_LastUpdate); |
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diff
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|
938 if (tmp.size() != 0) |
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diff
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|
939 result["LastUpdate"] = tmp; |
511
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940 } |
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941 |
198
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942 return true; |
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943 } |
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944 |
0 | 945 |
232
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946 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
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947 const std::string& instanceUuid, |
233 | 948 FileContentType contentType) |
0 | 949 { |
206
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950 boost::mutex::scoped_lock lock(mutex_); |
0 | 951 |
193
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952 int64_t id; |
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953 ResourceType type; |
701 | 954 if (!db_->LookupResource(instanceUuid, id, type)) |
192
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955 { |
1113
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956 throw OrthancException(ErrorCode_UnknownResource); |
192
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957 } |
193
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958 |
232
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959 if (db_->LookupAttachment(attachment, id, contentType)) |
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960 { |
233 | 961 assert(attachment.GetContentType() == contentType); |
232
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962 return true; |
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|
963 } |
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964 else |
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|
965 { |
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966 return false; |
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|
967 } |
192
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|
968 } |
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diff
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|
969 |
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diff
changeset
|
970 |
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|
971 |
0 | 972 void ServerIndex::GetAllUuids(Json::Value& target, |
190 | 973 ResourceType resourceType) |
0 | 974 { |
206
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|
975 boost::mutex::scoped_lock lock(mutex_); |
202 | 976 db_->GetAllPublicIds(target, resourceType); |
0 | 977 } |
978 | |
979 | |
980 bool ServerIndex::GetChanges(Json::Value& target, | |
204 | 981 int64_t since, |
0 | 982 unsigned int maxResults) |
983 { | |
206
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diff
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|
984 boost::mutex::scoped_lock lock(mutex_); |
237
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diff
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|
985 db_->GetChanges(target, since, maxResults); |
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diff
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|
986 return true; |
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|
987 } |
0 | 988 |
237
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989 bool ServerIndex::GetLastChange(Json::Value& target) |
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|
990 { |
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991 boost::mutex::scoped_lock lock(mutex_); |
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diff
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|
992 db_->GetLastChange(target); |
204 | 993 return true; |
0 | 994 } |
231 | 995 |
996 void ServerIndex::LogExportedResource(const std::string& publicId, | |
997 const std::string& remoteModality) | |
998 { | |
999 boost::mutex::scoped_lock lock(mutex_); | |
1000 | |
1001 int64_t id; | |
1002 ResourceType type; | |
1003 if (!db_->LookupResource(publicId, id, type)) | |
1004 { | |
1005 throw OrthancException(ErrorCode_InternalError); | |
1006 } | |
1007 | |
1008 std::string patientId; | |
1009 std::string studyInstanceUid; | |
1010 std::string seriesInstanceUid; | |
1011 std::string sopInstanceUid; | |
1012 | |
1013 int64_t currentId = id; | |
1014 ResourceType currentType = type; | |
1015 | |
1016 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1017 bool done = false; | |
1018 while (!done) | |
1019 { | |
1020 DicomMap map; | |
1021 db_->GetMainDicomTags(map, currentId); | |
1022 | |
1023 switch (currentType) | |
1024 { | |
269
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1025 case ResourceType_Patient: |
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1026 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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1027 done = true; |
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|
1028 break; |
231 | 1029 |
269
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diff
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|
1030 case ResourceType_Study: |
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1031 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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1032 currentType = ResourceType_Patient; |
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1033 break; |
231 | 1034 |
269
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|
1035 case ResourceType_Series: |
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|
1036 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
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1037 currentType = ResourceType_Study; |
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1038 break; |
231 | 1039 |
269
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|
1040 case ResourceType_Instance: |
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1041 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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1042 currentType = ResourceType_Series; |
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1043 break; |
231 | 1044 |
269
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|
1045 default: |
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1046 throw OrthancException(ErrorCode_InternalError); |
231 | 1047 } |
1048 | |
1049 // If we have not reached the Patient level, find the parent of | |
1050 // the current resource | |
1051 if (!done) | |
1052 { | |
375
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|
1053 bool ok = db_->LookupParent(currentId, currentId); |
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|
1054 assert(ok); |
231 | 1055 } |
1056 } | |
1057 | |
1058 // No need for a SQLite::Transaction here, as we only insert 1 record | |
1059 db_->LogExportedResource(type, | |
1060 publicId, | |
1061 remoteModality, | |
1062 patientId, | |
1063 studyInstanceUid, | |
1064 seriesInstanceUid, | |
1065 sopInstanceUid); | |
1066 } | |
1067 | |
1068 | |
1069 bool ServerIndex::GetExportedResources(Json::Value& target, | |
1070 int64_t since, | |
1071 unsigned int maxResults) | |
1072 { | |
1073 boost::mutex::scoped_lock lock(mutex_); | |
1074 db_->GetExportedResources(target, since, maxResults); | |
1075 return true; | |
1076 } | |
237
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|
1077 |
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1078 bool ServerIndex::GetLastExportedResource(Json::Value& target) |
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|
1079 { |
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1080 boost::mutex::scoped_lock lock(mutex_); |
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|
1081 db_->GetLastExportedResource(target); |
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|
1082 return true; |
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1083 } |
268
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|
1084 |
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|
1085 |
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1086 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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|
1087 { |
269
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|
1088 if (maximumStorageSize_ != 0) |
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|
1089 { |
278
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|
1090 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
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|
1091 assert(db_->GetTotalCompressedSize() == currentSize); |
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|
1092 |
269
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|
1093 if (currentSize + instanceSize > maximumStorageSize_) |
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|
1094 { |
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|
1095 return true; |
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1096 } |
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1097 } |
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1098 |
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1099 if (maximumPatients_ != 0) |
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1100 { |
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1101 uint64_t patientCount = db_->GetResourceCount(ResourceType_Patient); |
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1102 if (patientCount > maximumPatients_) |
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1103 { |
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1104 return true; |
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1105 } |
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1106 } |
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1107 |
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1108 return false; |
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1109 } |
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1110 |
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1111 |
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1112 void ServerIndex::Recycle(uint64_t instanceSize, |
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1113 const std::string& newPatientId) |
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1114 { |
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1115 if (!IsRecyclingNeeded(instanceSize)) |
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1116 { |
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1117 return; |
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1118 } |
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1119 |
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1120 // Check whether other DICOM instances from this patient are |
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1121 // already stored |
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1122 int64_t patientToAvoid; |
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1123 ResourceType type; |
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1124 bool hasPatientToAvoid = db_->LookupResource(newPatientId, patientToAvoid, type); |
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1125 |
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1126 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1127 { |
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1128 throw OrthancException(ErrorCode_InternalError); |
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1129 } |
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1130 |
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1131 // Iteratively select patient to remove until there is enough |
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1132 // space in the DICOM store |
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1133 int64_t patientToRecycle; |
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1134 while (true) |
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1135 { |
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1136 // If other instances of this patient are already in the store, |
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1137 // we must avoid to recycle them |
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1138 bool ok = hasPatientToAvoid ? |
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1139 db_->SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
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1140 db_->SelectPatientToRecycle(patientToRecycle); |
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1141 |
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1142 if (!ok) |
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1143 { |
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1144 throw OrthancException(ErrorCode_FullStorage); |
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1145 } |
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1146 |
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1147 LOG(INFO) << "Recycling one patient"; |
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1148 db_->DeleteResource(patientToRecycle); |
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1149 |
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1150 if (!IsRecyclingNeeded(instanceSize)) |
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1151 { |
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1152 // OK, we're done |
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1153 break; |
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1154 } |
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1155 } |
268
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1156 } |
269
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1157 |
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1158 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1159 { |
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1160 boost::mutex::scoped_lock lock(mutex_); |
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1161 maximumPatients_ = count; |
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1162 |
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1163 if (count == 0) |
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1164 { |
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1165 LOG(WARNING) << "No limit on the number of stored patients"; |
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1166 } |
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1167 else |
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1168 { |
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1169 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1170 } |
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1171 |
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1172 StandaloneRecycling(); |
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1173 } |
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1174 |
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1175 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1176 { |
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1177 boost::mutex::scoped_lock lock(mutex_); |
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1178 maximumStorageSize_ = size; |
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1179 |
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1180 if (size == 0) |
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1181 { |
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1182 LOG(WARNING) << "No limit on the size of the storage area"; |
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1183 } |
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1184 else |
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1185 { |
440
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1186 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
270
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1187 } |
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1188 |
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1189 StandaloneRecycling(); |
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1190 } |
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1191 |
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1192 void ServerIndex::StandaloneRecycling() |
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1193 { |
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1194 // WARNING: No mutex here, do not include this as a public method |
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1195 Transaction t(*this); |
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1196 Recycle(0, ""); |
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1197 t.Commit(0); |
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1198 } |
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1199 |
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1200 |
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1201 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1202 { |
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1203 boost::mutex::scoped_lock lock(mutex_); |
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1204 |
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1205 // Lookup for the requested resource |
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1206 int64_t id; |
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1207 ResourceType type; |
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1208 if (!db_->LookupResource(publicId, id, type) || |
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1209 type != ResourceType_Patient) |
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1210 { |
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1211 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1212 } |
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1213 |
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1214 return db_->IsProtectedPatient(id); |
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1215 } |
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1216 |
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1217 |
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1218 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1219 bool isProtected) |
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1220 { |
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1221 boost::mutex::scoped_lock lock(mutex_); |
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1222 |
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1223 // Lookup for the requested resource |
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1224 int64_t id; |
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1225 ResourceType type; |
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1226 if (!db_->LookupResource(publicId, id, type) || |
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1227 type != ResourceType_Patient) |
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1228 { |
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1229 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1230 } |
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1231 |
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1232 // No need for a SQLite::Transaction here, as we only make 1 write to the DB |
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1233 db_->SetProtectedPatient(id, isProtected); |
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1234 |
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1235 if (isProtected) |
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1236 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1237 else |
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1238 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1239 } |
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1240 |
304 | 1241 |
714
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1242 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1243 const std::string& publicId) |
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1244 { |
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1245 result.clear(); |
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1246 |
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1247 boost::mutex::scoped_lock lock(mutex_); |
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1248 |
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1249 ResourceType type; |
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1250 int64_t resource; |
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1251 if (!db_->LookupResource(publicId, resource, type)) |
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1252 { |
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1253 throw OrthancException(ErrorCode_UnknownResource); |
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1254 } |
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1255 |
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1256 if (type == ResourceType_Instance) |
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1257 { |
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1258 // An instance cannot have a child |
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1259 throw OrthancException(ErrorCode_BadParameterType); |
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1260 } |
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1261 |
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1262 std::list<int64_t> tmp; |
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1263 db_->GetChildrenInternalId(tmp, resource); |
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1264 |
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1265 for (std::list<int64_t>::const_iterator |
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1266 it = tmp.begin(); it != tmp.end(); ++it) |
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1267 { |
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1268 result.push_back(db_->GetPublicId(*it)); |
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1269 } |
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1270 } |
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1271 |
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1272 |
304 | 1273 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1274 const std::string& publicId) | |
1275 { | |
1276 result.clear(); | |
1277 | |
1278 boost::mutex::scoped_lock lock(mutex_); | |
1279 | |
1280 ResourceType type; | |
1281 int64_t top; | |
1282 if (!db_->LookupResource(publicId, top, type)) | |
1283 { | |
1284 throw OrthancException(ErrorCode_UnknownResource); | |
1285 } | |
1286 | |
1287 if (type == ResourceType_Instance) | |
1288 { | |
1289 // The resource is already an instance: Do not go down the hierarchy | |
1290 result.push_back(publicId); | |
1291 return; | |
1292 } | |
1293 | |
1294 std::stack<int64_t> toExplore; | |
1295 toExplore.push(top); | |
1296 | |
1297 std::list<int64_t> tmp; | |
1298 | |
1299 while (!toExplore.empty()) | |
1300 { | |
1301 // Get the internal ID of the current resource | |
1302 int64_t resource = toExplore.top(); | |
1303 toExplore.pop(); | |
1304 | |
1305 if (db_->GetResourceType(resource) == ResourceType_Instance) | |
1306 { | |
1307 result.push_back(db_->GetPublicId(resource)); | |
1308 } | |
1309 else | |
1310 { | |
1311 // Tag all the children of this resource as to be explored | |
1312 db_->GetChildrenInternalId(tmp, resource); | |
1313 for (std::list<int64_t>::const_iterator | |
656 | 1314 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1315 { |
1316 toExplore.push(*it); | |
1317 } | |
1318 } | |
1319 } | |
1320 } | |
1321 | |
306
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1322 |
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1323 void ServerIndex::SetMetadata(const std::string& publicId, |
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1324 MetadataType type, |
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1325 const std::string& value) |
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1326 { |
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1327 boost::mutex::scoped_lock lock(mutex_); |
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1328 |
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1329 ResourceType rtype; |
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1330 int64_t id; |
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1331 if (!db_->LookupResource(publicId, id, rtype)) |
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1332 { |
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1333 throw OrthancException(ErrorCode_UnknownResource); |
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1334 } |
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1335 |
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1336 db_->SetMetadata(id, type, value); |
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1337 } |
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1338 |
438 | 1339 |
1340 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1341 MetadataType type) | |
1342 { | |
1343 boost::mutex::scoped_lock lock(mutex_); | |
1344 | |
1345 ResourceType rtype; | |
1346 int64_t id; | |
1347 if (!db_->LookupResource(publicId, id, rtype)) | |
1348 { | |
1349 throw OrthancException(ErrorCode_UnknownResource); | |
1350 } | |
1351 | |
1352 db_->DeleteMetadata(id, type); | |
1353 } | |
1354 | |
1355 | |
306
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1356 bool ServerIndex::LookupMetadata(std::string& target, |
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1357 const std::string& publicId, |
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1358 MetadataType type) |
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1359 { |
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1360 boost::mutex::scoped_lock lock(mutex_); |
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1361 |
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1362 ResourceType rtype; |
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1363 int64_t id; |
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1364 if (!db_->LookupResource(publicId, id, rtype)) |
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1365 { |
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1366 throw OrthancException(ErrorCode_UnknownResource); |
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1367 } |
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1368 |
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1369 return db_->LookupMetadata(target, id, type); |
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1370 } |
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1371 |
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1372 |
739 | 1373 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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1374 const std::string& publicId) |
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1375 { |
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1376 boost::mutex::scoped_lock lock(mutex_); |
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1377 |
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1378 ResourceType rtype; |
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1379 int64_t id; |
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1380 if (!db_->LookupResource(publicId, id, rtype)) |
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1381 { |
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1382 throw OrthancException(ErrorCode_UnknownResource); |
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1383 } |
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1384 |
739 | 1385 db_->ListAvailableMetadata(target, id); |
436
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1386 } |
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1387 |
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1388 |
697
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1389 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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1390 const std::string& publicId, |
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1391 ResourceType expectedType) |
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1392 { |
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1393 boost::mutex::scoped_lock lock(mutex_); |
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1394 |
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1395 ResourceType type; |
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1396 int64_t id; |
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1397 if (!db_->LookupResource(publicId, id, type) || |
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1398 expectedType != type) |
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1399 { |
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1400 throw OrthancException(ErrorCode_UnknownResource); |
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1401 } |
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1402 |
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1403 db_->ListAvailableAttachments(target, id); |
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1404 } |
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1405 |
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1406 |
306
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1407 bool ServerIndex::LookupParent(std::string& target, |
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1408 const std::string& publicId) |
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1409 { |
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1410 boost::mutex::scoped_lock lock(mutex_); |
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1411 |
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1412 ResourceType type; |
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1413 int64_t id; |
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1414 if (!db_->LookupResource(publicId, id, type)) |
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1415 { |
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1416 throw OrthancException(ErrorCode_UnknownResource); |
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1417 } |
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1418 |
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1419 int64_t parentId; |
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1420 if (db_->LookupParent(parentId, id)) |
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1421 { |
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1422 target = db_->GetPublicId(parentId); |
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1423 return true; |
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1424 } |
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1425 else |
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1426 { |
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1427 return false; |
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1428 } |
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1429 } |
310 | 1430 |
1431 | |
1432 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1433 { | |
1434 boost::mutex::scoped_lock lock(mutex_); | |
311 | 1435 |
1436 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
1437 | |
1438 transaction->Begin(); | |
1439 uint64_t seq = db_->IncrementGlobalSequence(sequence); | |
1440 transaction->Commit(); | |
1441 | |
1442 return seq; | |
310 | 1443 } |
315 | 1444 |
1445 | |
1446 | |
1447 void ServerIndex::LogChange(ChangeType changeType, | |
1448 const std::string& publicId) | |
1449 { | |
1450 boost::mutex::scoped_lock lock(mutex_); | |
1451 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
1452 transaction->Begin(); | |
1453 | |
1454 int64_t id; | |
1455 ResourceType type; | |
1456 if (!db_->LookupResource(publicId, id, type)) | |
1457 { | |
1458 throw OrthancException(ErrorCode_UnknownResource); | |
1459 } | |
1460 | |
1177
5b2d8c280ac2
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diff
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1461 db_->LogChange(changeType, id, type, publicId); |
315 | 1462 |
1463 transaction->Commit(); | |
1464 } | |
413
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1465 |
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|
1466 |
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1467 void ServerIndex::DeleteChanges() |
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|
1468 { |
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|
1469 boost::mutex::scoped_lock lock(mutex_); |
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|
1470 db_->ClearTable("Changes"); |
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|
1471 } |
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|
1472 |
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|
1473 void ServerIndex::DeleteExportedResources() |
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|
1474 { |
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|
1475 boost::mutex::scoped_lock lock(mutex_); |
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|
1476 db_->ClearTable("ExportedResources"); |
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1477 } |
440
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1478 |
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1479 |
646 | 1480 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
1481 /* out */ uint64_t& uncompressedSize, | |
1482 /* out */ unsigned int& countStudies, | |
1483 /* out */ unsigned int& countSeries, | |
1484 /* out */ unsigned int& countInstances, | |
1485 /* in */ int64_t id, | |
1486 /* in */ ResourceType type) | |
440
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|
1487 { |
646 | 1488 std::stack<int64_t> toExplore; |
1489 toExplore.push(id); | |
440
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|
1490 |
646 | 1491 countInstances = 0; |
1492 countSeries = 0; | |
1493 countStudies = 0; | |
1494 compressedSize = 0; | |
1495 uncompressedSize = 0; | |
440
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1496 |
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1497 while (!toExplore.empty()) |
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1498 { |
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1499 // Get the internal ID of the current resource |
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1500 int64_t resource = toExplore.top(); |
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|
1501 toExplore.pop(); |
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1502 |
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1503 ResourceType thisType = db_->GetResourceType(resource); |
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1504 |
702
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|
1505 std::list<FileContentType> f; |
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|
1506 db_->ListAvailableAttachments(f, resource); |
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diff
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|
1507 |
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1508 for (std::list<FileContentType>::const_iterator |
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diff
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|
1509 it = f.begin(); it != f.end(); ++it) |
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diff
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|
1510 { |
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diff
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|
1511 FileInfo attachment; |
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diff
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|
1512 if (db_->LookupAttachment(attachment, resource, *it)) |
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diff
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|
1513 { |
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diff
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|
1514 compressedSize += attachment.GetCompressedSize(); |
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|
1515 uncompressedSize += attachment.GetUncompressedSize(); |
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diff
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|
1516 } |
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|
1517 } |
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|
1518 |
440
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|
1519 if (thisType == ResourceType_Instance) |
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1520 { |
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1521 countInstances++; |
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1522 } |
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1523 else |
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|
1524 { |
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|
1525 switch (thisType) |
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1526 { |
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1527 case ResourceType_Study: |
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1528 countStudies++; |
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1529 break; |
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1530 |
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|
1531 case ResourceType_Series: |
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1532 countSeries++; |
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1533 break; |
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1534 |
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1535 default: |
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1536 break; |
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1537 } |
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1538 |
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1539 // Tag all the children of this resource as to be explored |
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1540 std::list<int64_t> tmp; |
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1541 db_->GetChildrenInternalId(tmp, resource); |
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1542 for (std::list<int64_t>::const_iterator |
656 | 1543 it = tmp.begin(); it != tmp.end(); ++it) |
440
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1544 { |
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changeset
|
1545 toExplore.push(*it); |
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1546 } |
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1547 } |
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1548 } |
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|
1549 |
646 | 1550 if (countStudies == 0) |
1551 { | |
1552 countStudies = 1; | |
1553 } | |
1554 | |
1555 if (countSeries == 0) | |
1556 { | |
1557 countSeries = 1; | |
1558 } | |
1559 } | |
1560 | |
1561 | |
1562 | |
1563 void ServerIndex::GetStatistics(Json::Value& target, | |
1564 const std::string& publicId) | |
1565 { | |
1566 boost::mutex::scoped_lock lock(mutex_); | |
1567 | |
1568 ResourceType type; | |
1569 int64_t top; | |
1570 if (!db_->LookupResource(publicId, top, type)) | |
1571 { | |
1572 throw OrthancException(ErrorCode_UnknownResource); | |
1573 } | |
1574 | |
1575 uint64_t uncompressedSize; | |
1576 uint64_t compressedSize; | |
1577 unsigned int countStudies; | |
1578 unsigned int countSeries; | |
1579 unsigned int countInstances; | |
1580 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1581 countSeries, countInstances, top, type); | |
1582 | |
440
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changeset
|
1583 target = Json::objectValue; |
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1584 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
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1585 target["DiskSizeMB"] = boost::lexical_cast<unsigned int>(compressedSize / MEGA_BYTES); |
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1586 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
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1587 target["UncompressedSizeMB"] = boost::lexical_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
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|
1588 |
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1589 switch (type) |
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1590 { |
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|
1591 // Do NOT add "break" below this point! |
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|
1592 case ResourceType_Patient: |
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1593 target["CountStudies"] = countStudies; |
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|
1594 |
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|
1595 case ResourceType_Study: |
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1596 target["CountSeries"] = countSeries; |
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|
1597 |
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1598 case ResourceType_Series: |
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1599 target["CountInstances"] = countInstances; |
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1600 |
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1601 case ResourceType_Instance: |
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1602 default: |
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1603 break; |
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1604 } |
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1605 } |
511
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1606 |
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1607 |
646 | 1608 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
1609 /* out */ uint64_t& uncompressedSize, | |
1610 /* out */ unsigned int& countStudies, | |
1611 /* out */ unsigned int& countSeries, | |
1612 /* out */ unsigned int& countInstances, | |
1613 const std::string& publicId) | |
1614 { | |
1615 boost::mutex::scoped_lock lock(mutex_); | |
1616 | |
1617 ResourceType type; | |
1618 int64_t top; | |
1619 if (!db_->LookupResource(publicId, top, type)) | |
1620 { | |
1621 throw OrthancException(ErrorCode_UnknownResource); | |
1622 } | |
1623 | |
1624 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1625 countSeries, countInstances, top, type); | |
1626 } | |
1627 | |
1628 | |
511
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1629 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
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1630 { |
810
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1631 int stableAge = Configuration::GetGlobalIntegerParameter("StableAge", 60); |
511
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1632 if (stableAge <= 0) |
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1633 { |
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1634 stableAge = 60; |
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1635 } |
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1636 |
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|
1637 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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1638 |
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1639 while (!that->done_) |
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1640 { |
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1641 // Check for stable resources each second |
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1642 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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1643 |
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1644 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 1645 |
511
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1646 while (!that->unstableResources_.IsEmpty() && |
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1647 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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1648 { |
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1649 // This DICOM resource has not received any new instance for |
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1650 // some time. It can be considered as stable. |
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1651 |
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1652 UnstableResourcePayload payload; |
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1653 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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1654 |
513 | 1655 // Ensure that the resource is still existing before logging the change |
1656 if (that->db_->IsExistingResource(id)) | |
511
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|
1657 { |
1177
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diff
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|
1658 switch (payload.GetResourceType()) |
513 | 1659 { |
1177
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diff
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|
1660 case ResourceType_Patient: |
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diff
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|
1661 that->db_->LogChange(ChangeType_StablePatient, id, ResourceType_Patient, payload.GetPublicId()); |
513 | 1662 break; |
511
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1663 |
1177
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|
1664 case ResourceType_Study: |
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diff
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|
1665 that->db_->LogChange(ChangeType_StableStudy, id, ResourceType_Study, payload.GetPublicId()); |
513 | 1666 break; |
511
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|
1667 |
1177
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|
1668 case ResourceType_Series: |
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diff
changeset
|
1669 that->db_->LogChange(ChangeType_StableSeries, id, ResourceType_Series, payload.GetPublicId()); |
513 | 1670 break; |
1671 | |
1672 default: | |
1673 throw OrthancException(ErrorCode_InternalError); | |
1674 } | |
1675 | |
1676 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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|
1677 } |
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|
1678 } |
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|
1679 } |
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|
1680 |
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|
1681 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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1682 } |
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|
1683 |
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1684 |
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|
1685 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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|
1686 Orthanc::ResourceType type, |
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diff
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|
1687 const std::string& publicId) |
511
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|
1688 { |
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1689 // WARNING: Before calling this method, "mutex_" must be locked. |
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1690 |
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|
1691 assert(type == Orthanc::ResourceType_Patient || |
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1692 type == Orthanc::ResourceType_Study || |
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1693 type == Orthanc::ResourceType_Series); |
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1694 |
1177
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|
1695 UnstableResourcePayload payload(type, publicId); |
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|
1696 unstableResources_.AddOrMakeMostRecent(id, payload); |
511
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1697 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
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1698 } |
521 | 1699 |
1700 | |
1701 | |
1162 | 1702 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1703 const DicomTag& tag, | |
1704 const std::string& value, | |
1705 ResourceType type) | |
615 | 1706 { |
1707 result.clear(); | |
1708 | |
1709 boost::mutex::scoped_lock lock(mutex_); | |
1710 | |
1711 std::list<int64_t> id; | |
1162 | 1712 db_->LookupIdentifier(id, tag, value); |
615 | 1713 |
1714 for (std::list<int64_t>::const_iterator | |
656 | 1715 it = id.begin(); it != id.end(); ++it) |
615 | 1716 { |
1717 if (db_->GetResourceType(*it) == type) | |
1718 { | |
1719 result.push_back(db_->GetPublicId(*it)); | |
1720 } | |
1721 } | |
1722 } | |
1723 | |
1724 | |
1162 | 1725 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1726 const DicomTag& tag, | |
1727 const std::string& value) | |
521 | 1728 { |
1729 result.clear(); | |
1730 | |
1731 boost::mutex::scoped_lock lock(mutex_); | |
1732 | |
1733 std::list<int64_t> id; | |
1162 | 1734 db_->LookupIdentifier(id, tag, value); |
521 | 1735 |
1736 for (std::list<int64_t>::const_iterator | |
656 | 1737 it = id.begin(); it != id.end(); ++it) |
521 | 1738 { |
1739 result.push_back(db_->GetPublicId(*it)); | |
1740 } | |
1741 } | |
1742 | |
1743 | |
1162 | 1744 void ServerIndex::LookupIdentifier(std::list< std::pair<ResourceType, std::string> >& result, |
1745 const std::string& value) | |
521 | 1746 { |
1747 result.clear(); | |
1748 | |
1749 boost::mutex::scoped_lock lock(mutex_); | |
1750 | |
1751 std::list<int64_t> id; | |
1162 | 1752 db_->LookupIdentifier(id, value); |
521 | 1753 |
1754 for (std::list<int64_t>::const_iterator | |
656 | 1755 it = id.begin(); it != id.end(); ++it) |
521 | 1756 { |
1139
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|
1757 result.push_back(std::make_pair(db_->GetResourceType(*it), |
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|
1758 db_->GetPublicId(*it))); |
521 | 1759 } |
1760 } | |
699
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1761 |
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1762 |
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|
1763 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1764 const std::string& publicId) |
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|
1765 { |
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|
1766 boost::mutex::scoped_lock lock(mutex_); |
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1767 |
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|
1768 Transaction t(*this); |
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1769 |
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|
1770 ResourceType resourceType; |
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1771 int64_t resourceId; |
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1772 if (!db_->LookupResource(publicId, resourceId, resourceType)) |
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1773 { |
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1774 return StoreStatus_Failure; // Inexistent resource |
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1775 } |
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1776 |
704
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1777 // Remove possible previous attachment |
699
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1778 db_->DeleteAttachment(resourceId, attachment.GetContentType()); |
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1779 |
704
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1780 // Locate the patient of the target resource |
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1781 int64_t patientId = resourceId; |
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1782 for (;;) |
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1783 { |
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1784 int64_t parent; |
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1785 if (db_->LookupParent(parent, patientId)) |
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1786 { |
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1787 // We have not reached the patient level yet |
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1788 patientId = parent; |
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1789 } |
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1790 else |
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1791 { |
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1792 // We have reached the patient level |
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1793 break; |
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1794 } |
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1795 } |
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1796 |
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1797 // Possibly apply the recycling mechanism while preserving this patient |
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1798 assert(db_->GetResourceType(patientId) == ResourceType_Patient); |
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1799 Recycle(attachment.GetCompressedSize(), db_->GetPublicId(patientId)); |
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1800 |
699
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1801 db_->AddAttachment(resourceId, attachment); |
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1802 |
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1803 t.Commit(attachment.GetCompressedSize()); |
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1804 |
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1805 return StoreStatus_Success; |
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1806 } |
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1807 |
702
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1808 |
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1809 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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1810 FileContentType type) |
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1811 { |
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1812 boost::mutex::scoped_lock lock(mutex_); |
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1813 listener_->Reset(); |
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1814 |
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1815 Transaction t(*this); |
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1816 |
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1817 ResourceType rtype; |
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1818 int64_t id; |
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1819 if (!db_->LookupResource(publicId, id, rtype)) |
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1820 { |
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1821 throw OrthancException(ErrorCode_UnknownResource); |
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1822 } |
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1823 |
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1824 db_->DeleteAttachment(id, type); |
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1825 |
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1826 t.Commit(0); |
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1827 } |
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1828 |
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1829 |
1002
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1830 bool ServerIndex::GetMetadata(Json::Value& target, |
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1831 const std::string& publicId) |
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1832 { |
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1833 boost::mutex::scoped_lock lock(mutex_); |
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1834 |
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1835 target = Json::objectValue; |
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1836 |
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1837 ResourceType type; |
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1838 int64_t id; |
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1839 if (!db_->LookupResource(publicId, id, type)) |
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1840 { |
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1841 return false; |
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1842 } |
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1843 |
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1844 std::list<MetadataType> metadata; |
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1845 db_->ListAvailableMetadata(metadata, id); |
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1846 |
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1847 for (std::list<MetadataType>::const_iterator |
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1848 it = metadata.begin(); it != metadata.end(); it++) |
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1849 { |
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1850 std::string key = EnumerationToString(*it); |
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1851 std::string value = db_->GetMetadata(id, *it); |
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1852 target[key] = value; |
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1853 } |
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1854 |
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1855 return true; |
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1856 } |
0 | 1857 } |