Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 1676:f079f3efe33b db-changes
patient tags reported in studies
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Fri, 02 Oct 2015 17:09:18 +0200 |
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rev | line source |
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0 | 1 /** |
62 | 2 * Orthanc - A Lightweight, RESTful DICOM Store |
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3 * Copyright (C) 2012-2015 Sebastien Jodogne, Medical Physics |
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4 * Department, University Hospital of Liege, Belgium |
0 | 5 * |
6 * This program is free software: you can redistribute it and/or | |
7 * modify it under the terms of the GNU General Public License as | |
8 * published by the Free Software Foundation, either version 3 of the | |
9 * License, or (at your option) any later version. | |
136 | 10 * |
11 * In addition, as a special exception, the copyright holders of this | |
12 * program give permission to link the code of its release with the | |
13 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
14 * that use the same license as the "OpenSSL" library), and distribute | |
15 * the linked executables. You must obey the GNU General Public License | |
16 * in all respects for all of the code used other than "OpenSSL". If you | |
17 * modify file(s) with this exception, you may extend this exception to | |
18 * your version of the file(s), but you are not obligated to do so. If | |
19 * you do not wish to do so, delete this exception statement from your | |
20 * version. If you delete this exception statement from all source files | |
21 * in the program, then also delete it here. | |
0 | 22 * |
23 * This program is distributed in the hope that it will be useful, but | |
24 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
26 * General Public License for more details. | |
27 * | |
28 * You should have received a copy of the GNU General Public License | |
29 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
30 **/ | |
31 | |
32 | |
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33 #include "PrecompiledHeadersServer.h" |
0 | 34 #include "ServerIndex.h" |
35 | |
6 | 36 #ifndef NOMINMAX |
2 | 37 #define NOMINMAX |
6 | 38 #endif |
39 | |
1198 | 40 #include "ServerIndexChange.h" |
8 | 41 #include "EmbeddedResources.h" |
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42 #include "OrthancInitialization.h" |
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43 #include "ServerToolbox.h" |
0 | 44 #include "../Core/Toolbox.h" |
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45 #include "../Core/Logging.h" |
0 | 46 #include "../Core/Uuid.h" |
47 #include "../Core/DicomFormat/DicomArray.h" | |
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48 |
0 | 49 #include "FromDcmtkBridge.h" |
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50 #include "ServerContext.h" |
0 | 51 |
52 #include <boost/lexical_cast.hpp> | |
53 #include <stdio.h> | |
54 | |
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55 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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56 |
62 | 57 namespace Orthanc |
0 | 58 { |
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59 class ServerIndex::Listener : public IDatabaseListener |
0 | 60 { |
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61 private: |
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62 struct FileToRemove |
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63 { |
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64 private: |
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65 std::string uuid_; |
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66 FileContentType type_; |
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67 |
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68 public: |
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69 FileToRemove(const FileInfo& info) : uuid_(info.GetUuid()), |
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70 type_(info.GetContentType()) |
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71 { |
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72 } |
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73 |
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74 const std::string& GetUuid() const |
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75 { |
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76 return uuid_; |
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77 } |
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78 |
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79 FileContentType GetContentType() const |
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80 { |
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81 return type_; |
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82 } |
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83 }; |
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84 |
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85 ServerContext& context_; |
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86 bool hasRemainingLevel_; |
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87 ResourceType remainingType_; |
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88 std::string remainingPublicId_; |
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89 std::list<FileToRemove> pendingFilesToRemove_; |
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90 std::list<ServerIndexChange> pendingChanges_; |
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91 uint64_t sizeOfFilesToRemove_; |
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92 bool insideTransaction_; |
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93 |
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94 void Reset() |
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95 { |
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96 sizeOfFilesToRemove_ = 0; |
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97 hasRemainingLevel_ = false; |
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98 pendingFilesToRemove_.clear(); |
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99 pendingChanges_.clear(); |
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100 } |
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101 |
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102 public: |
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103 Listener(ServerContext& context) : context_(context), |
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104 insideTransaction_(false) |
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105 { |
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106 Reset(); |
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107 assert(ResourceType_Patient < ResourceType_Study && |
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108 ResourceType_Study < ResourceType_Series && |
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109 ResourceType_Series < ResourceType_Instance); |
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110 } |
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111 |
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112 void StartTransaction() |
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113 { |
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114 Reset(); |
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115 insideTransaction_ = true; |
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116 } |
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117 |
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118 void EndTransaction() |
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119 { |
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120 insideTransaction_ = false; |
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121 } |
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122 |
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123 uint64_t GetSizeOfFilesToRemove() |
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124 { |
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125 return sizeOfFilesToRemove_; |
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126 } |
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128 void CommitFilesToRemove() |
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129 { |
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130 for (std::list<FileToRemove>::const_iterator |
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131 it = pendingFilesToRemove_.begin(); |
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132 it != pendingFilesToRemove_.end(); ++it) |
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133 { |
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134 context_.RemoveFile(it->GetUuid(), it->GetContentType()); |
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135 } |
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136 } |
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138 void CommitChanges() |
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139 { |
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140 for (std::list<ServerIndexChange>::const_iterator |
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141 it = pendingChanges_.begin(); |
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142 it != pendingChanges_.end(); ++it) |
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143 { |
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144 context_.SignalChange(*it); |
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145 } |
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146 } |
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147 |
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148 virtual void SignalRemainingAncestor(ResourceType parentType, |
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149 const std::string& publicId) |
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150 { |
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151 VLOG(1) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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152 |
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153 if (hasRemainingLevel_) |
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154 { |
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155 if (parentType < remainingType_) |
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156 { |
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157 remainingType_ = parentType; |
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158 remainingPublicId_ = publicId; |
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159 } |
1158 | 160 } |
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161 else |
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162 { |
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163 hasRemainingLevel_ = true; |
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164 remainingType_ = parentType; |
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165 remainingPublicId_ = publicId; |
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166 } |
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167 } |
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168 |
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169 virtual void SignalFileDeleted(const FileInfo& info) |
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170 { |
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171 assert(Toolbox::IsUuid(info.GetUuid())); |
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172 pendingFilesToRemove_.push_back(FileToRemove(info)); |
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173 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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174 } |
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175 |
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176 virtual void SignalChange(const ServerIndexChange& change) |
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177 { |
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178 VLOG(1) << "Change related to resource " << change.GetPublicId() << " of type " |
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179 << EnumerationToString(change.GetResourceType()) << ": " |
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180 << EnumerationToString(change.GetChangeType()); |
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181 |
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182 if (insideTransaction_) |
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183 { |
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184 pendingChanges_.push_back(change); |
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185 } |
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186 else |
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187 { |
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188 context_.SignalChange(change); |
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189 } |
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190 } |
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191 |
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192 bool HasRemainingLevel() const |
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193 { |
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194 return hasRemainingLevel_; |
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195 } |
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196 |
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197 ResourceType GetRemainingType() const |
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198 { |
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199 assert(HasRemainingLevel()); |
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200 return remainingType_; |
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201 } |
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202 |
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203 const std::string& GetRemainingPublicId() const |
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204 { |
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205 assert(HasRemainingLevel()); |
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206 return remainingPublicId_; |
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207 } |
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208 }; |
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210 | |
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211 class ServerIndex::Transaction |
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212 { |
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213 private: |
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214 ServerIndex& index_; |
1235 | 215 std::auto_ptr<SQLite::ITransaction> transaction_; |
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216 bool isCommitted_; |
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217 |
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218 public: |
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219 Transaction(ServerIndex& index) : |
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220 index_(index), |
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221 isCommitted_(false) |
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222 { |
1247 | 223 transaction_.reset(index_.db_.StartTransaction()); |
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224 transaction_->Begin(); |
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225 |
1270 | 226 assert(index_.currentStorageSize_ == index_.db_.GetTotalCompressedSize()); |
227 | |
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228 index_.listener_->StartTransaction(); |
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229 } |
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230 |
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231 ~Transaction() |
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232 { |
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233 index_.listener_->EndTransaction(); |
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234 |
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235 if (!isCommitted_) |
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236 { |
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237 transaction_->Rollback(); |
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238 } |
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239 } |
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240 |
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241 void Commit(uint64_t sizeOfAddedFiles) |
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242 { |
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243 if (!isCommitted_) |
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244 { |
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245 transaction_->Commit(); |
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246 |
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247 // We can remove the files once the SQLite transaction has |
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248 // been successfully committed. Some files might have to be |
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249 // deleted because of recycling. |
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250 index_.listener_->CommitFilesToRemove(); |
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251 |
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252 index_.currentStorageSize_ += sizeOfAddedFiles; |
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253 |
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254 assert(index_.currentStorageSize_ >= index_.listener_->GetSizeOfFilesToRemove()); |
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255 index_.currentStorageSize_ -= index_.listener_->GetSizeOfFilesToRemove(); |
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256 |
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257 // Send all the pending changes to the Orthanc plugins |
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258 index_.listener_->CommitChanges(); |
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259 |
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260 isCommitted_ = true; |
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261 } |
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262 } |
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263 }; |
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264 |
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265 |
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266 class ServerIndex::UnstableResourcePayload |
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267 { |
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268 private: |
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269 ResourceType type_; |
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270 std::string publicId_; |
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271 boost::posix_time::ptime time_; |
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272 |
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273 public: |
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274 UnstableResourcePayload() : type_(ResourceType_Instance) |
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275 { |
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276 } |
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277 |
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278 UnstableResourcePayload(Orthanc::ResourceType type, |
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279 const std::string& publicId) : |
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280 type_(type), |
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281 publicId_(publicId) |
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282 { |
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283 time_ = boost::posix_time::second_clock::local_time(); |
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284 } |
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285 |
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286 unsigned int GetAge() const |
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287 { |
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288 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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289 } |
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290 |
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291 ResourceType GetResourceType() const |
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292 { |
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293 return type_; |
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294 } |
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295 |
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296 const std::string& GetPublicId() const |
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297 { |
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298 return publicId_; |
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299 } |
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300 }; |
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301 |
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302 |
212 | 303 bool ServerIndex::DeleteResource(Json::Value& target, |
0 | 304 const std::string& uuid, |
202 | 305 ResourceType expectedType) |
0 | 306 { |
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307 boost::mutex::scoped_lock lock(mutex_); |
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308 |
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309 Transaction t(*this); |
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310 |
202 | 311 int64_t id; |
312 ResourceType type; | |
1294 | 313 if (!db_.LookupResource(id, type, uuid) || |
202 | 314 expectedType != type) |
0 | 315 { |
316 return false; | |
317 } | |
202 | 318 |
1247 | 319 db_.DeleteResource(id); |
0 | 320 |
202 | 321 if (listener_->HasRemainingLevel()) |
0 | 322 { |
202 | 323 ResourceType type = listener_->GetRemainingType(); |
324 const std::string& uuid = listener_->GetRemainingPublicId(); | |
0 | 325 |
326 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
204 | 327 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
434
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328 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
0 | 329 target["RemainingAncestor"]["ID"] = uuid; |
330 } | |
331 else | |
332 { | |
333 target["RemainingAncestor"] = Json::nullValue; | |
334 } | |
335 | |
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336 t.Commit(0); |
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337 |
0 | 338 return true; |
339 } | |
340 | |
341 | |
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342 void ServerIndex::FlushThread(ServerIndex* that) |
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343 { |
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344 // By default, wait for 10 seconds before flushing |
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345 unsigned int sleep = 10; |
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346 |
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347 try |
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348 { |
744 | 349 boost::mutex::scoped_lock lock(that->mutex_); |
1239 | 350 std::string sleepString; |
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351 |
1247 | 352 if (that->db_.LookupGlobalProperty(sleepString, GlobalProperty_FlushSleep) && |
1239 | 353 Toolbox::IsInteger(sleepString)) |
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354 { |
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355 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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356 } |
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357 } |
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358 catch (boost::bad_lexical_cast&) |
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359 { |
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360 } |
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361 |
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362 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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363 |
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364 unsigned int count = 0; |
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365 |
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366 while (!that->done_) |
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367 { |
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368 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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369 count++; |
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370 if (count < sleep) |
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371 { |
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372 continue; |
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373 } |
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374 |
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375 boost::mutex::scoped_lock lock(that->mutex_); |
1247 | 376 that->db_.FlushToDisk(); |
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377 count = 0; |
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378 } |
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379 |
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380 LOG(INFO) << "Stopping the database flushing thread"; |
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381 } |
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382 |
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383 |
1247 | 384 static void ComputeExpectedNumberOfInstances(IDatabaseWrapper& db, |
433 | 385 int64_t series, |
386 const DicomMap& dicomSummary) | |
387 { | |
388 try | |
389 { | |
656 | 390 const DicomValue* value; |
391 const DicomValue* value2; | |
392 | |
433 | 393 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
394 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
395 { | |
396 // Patch for series with temporal positions thanks to Will Ryder | |
397 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->AsString()); | |
398 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->AsString()); | |
399 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); | |
400 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
401 } | |
402 | |
403 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
404 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
405 { | |
406 // Support of Cardio-PET images | |
407 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->AsString()); | |
408 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->AsString()); | |
409 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); | |
410 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
411 } | |
412 | |
413 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
414 { | |
415 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->AsString()); | |
416 } | |
417 } | |
418 catch (boost::bad_lexical_cast) | |
419 { | |
420 } | |
421 } | |
422 | |
423 | |
1237 | 424 |
425 | |
1238 | 426 bool ServerIndex::GetMetadataAsInteger(int64_t& result, |
1237 | 427 int64_t id, |
428 MetadataType type) | |
429 { | |
1238 | 430 std::string s; |
1247 | 431 if (!db_.LookupMetadata(s, id, type)) |
1237 | 432 { |
433 return false; | |
434 } | |
435 | |
436 try | |
437 { | |
1238 | 438 result = boost::lexical_cast<int64_t>(s); |
1237 | 439 return true; |
440 } | |
441 catch (boost::bad_lexical_cast&) | |
442 { | |
443 return false; | |
444 } | |
445 } | |
446 | |
447 | |
1297 | 448 void ServerIndex::LogChange(int64_t internalId, |
449 ChangeType changeType, | |
450 ResourceType resourceType, | |
451 const std::string& publicId) | |
452 { | |
453 ServerIndexChange change(changeType, resourceType, publicId); | |
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454 |
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455 if (changeType <= ChangeType_INTERNAL_LastLogged) |
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456 { |
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457 db_.LogChange(internalId, change); |
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458 } |
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459 |
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460 assert(listener_.get() != NULL); |
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461 listener_->SignalChange(change); |
1297 | 462 } |
463 | |
1237 | 464 |
465 uint64_t ServerIndex::IncrementGlobalSequenceInternal(GlobalProperty property) | |
466 { | |
467 std::string oldValue; | |
468 | |
1247 | 469 if (db_.LookupGlobalProperty(oldValue, property)) |
1237 | 470 { |
471 uint64_t oldNumber; | |
472 | |
473 try | |
474 { | |
475 oldNumber = boost::lexical_cast<uint64_t>(oldValue); | |
1247 | 476 db_.SetGlobalProperty(property, boost::lexical_cast<std::string>(oldNumber + 1)); |
1237 | 477 return oldNumber + 1; |
478 } | |
479 catch (boost::bad_lexical_cast&) | |
480 { | |
481 throw OrthancException(ErrorCode_InternalError); | |
482 } | |
483 } | |
484 else | |
485 { | |
486 // Initialize the sequence at "1" | |
1247 | 487 db_.SetGlobalProperty(property, "1"); |
1237 | 488 return 1; |
489 } | |
490 } | |
491 | |
492 | |
493 | |
1299 | 494 int64_t ServerIndex::CreateResource(const std::string& publicId, |
495 ResourceType type) | |
496 { | |
497 int64_t id = db_.CreateResource(publicId, type); | |
498 | |
499 ChangeType changeType; | |
500 switch (type) | |
501 { | |
502 case ResourceType_Patient: | |
503 changeType = ChangeType_NewPatient; | |
504 break; | |
505 | |
506 case ResourceType_Study: | |
507 changeType = ChangeType_NewStudy; | |
508 break; | |
509 | |
510 case ResourceType_Series: | |
511 changeType = ChangeType_NewSeries; | |
512 break; | |
513 | |
514 case ResourceType_Instance: | |
515 changeType = ChangeType_NewInstance; | |
516 break; | |
517 | |
518 default: | |
519 throw OrthancException(ErrorCode_InternalError); | |
520 } | |
521 | |
522 ServerIndexChange change(changeType, type, publicId); | |
523 db_.LogChange(id, change); | |
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524 |
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525 assert(listener_.get() != NULL); |
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526 listener_->SignalChange(change); |
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527 |
1299 | 528 return id; |
529 } | |
530 | |
1286 | 531 |
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532 ServerIndex::ServerIndex(ServerContext& context, |
1247 | 533 IDatabaseWrapper& db) : |
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534 done_(false), |
1247 | 535 db_(db), |
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536 maximumStorageSize_(0), |
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537 maximumPatients_(0) |
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538 { |
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539 listener_.reset(new Listener(context)); |
1247 | 540 db_.SetListener(*listener_); |
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541 |
1247 | 542 currentStorageSize_ = db_.GetTotalCompressedSize(); |
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543 |
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544 // Initial recycling if the parameters have changed since the last |
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545 // execution of Orthanc |
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546 StandaloneRecycling(); |
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547 |
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548 if (db.HasFlushToDisk()) |
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549 { |
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550 flushThread_ = boost::thread(FlushThread, this); |
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551 } |
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552 |
511
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553 unstableResourcesMonitorThread_ = boost::thread(UnstableResourcesMonitorThread, this); |
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554 } |
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555 |
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556 |
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557 |
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558 ServerIndex::~ServerIndex() |
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559 { |
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560 if (!done_) |
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561 { |
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562 LOG(ERROR) << "INTERNAL ERROR: ServerIndex::Stop() should be invoked manually to avoid mess in the destruction order!"; |
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563 Stop(); |
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564 } |
0 | 565 } |
566 | |
567 | |
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568 |
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569 void ServerIndex::Stop() |
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570 { |
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571 if (!done_) |
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572 { |
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573 done_ = true; |
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574 |
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575 if (db_.HasFlushToDisk() && |
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576 flushThread_.joinable()) |
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577 { |
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578 flushThread_.join(); |
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579 } |
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580 |
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581 if (unstableResourcesMonitorThread_.joinable()) |
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582 { |
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583 unstableResourcesMonitorThread_.join(); |
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584 } |
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585 } |
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586 } |
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587 |
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588 |
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589 |
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590 StoreStatus ServerIndex::Store(std::map<MetadataType, std::string>& instanceMetadata, |
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591 const DicomMap& dicomSummary, |
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592 const Attachments& attachments, |
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593 const std::string& remoteAet, |
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594 const MetadataMap& metadata) |
0 | 595 { |
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596 boost::mutex::scoped_lock lock(mutex_); |
0 | 597 |
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598 instanceMetadata.clear(); |
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599 |
178 | 600 DicomInstanceHasher hasher(dicomSummary); |
0 | 601 |
602 try | |
603 { | |
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604 Transaction t(*this); |
0 | 605 |
202 | 606 // Do nothing if the instance already exists |
0 | 607 { |
432 | 608 ResourceType type; |
609 int64_t tmp; | |
1294 | 610 if (db_.LookupResource(tmp, type, hasher.HashInstance())) |
432 | 611 { |
612 assert(type == ResourceType_Instance); | |
1247 | 613 db_.GetAllMetadata(instanceMetadata, tmp); |
432 | 614 return StoreStatus_AlreadyStored; |
615 } | |
0 | 616 } |
617 | |
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618 // Ensure there is enough room in the storage for the new instance |
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619 uint64_t instanceSize = 0; |
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620 for (Attachments::const_iterator it = attachments.begin(); |
656 | 621 it != attachments.end(); ++it) |
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622 { |
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623 instanceSize += it->GetCompressedSize(); |
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624 } |
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625 |
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626 Recycle(instanceSize, hasher.HashPatient()); |
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627 |
202 | 628 // Create the instance |
1299 | 629 int64_t instance = CreateResource(hasher.HashInstance(), ResourceType_Instance); |
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630 Toolbox::SetMainDicomTags(db_, instance, ResourceType_Instance, dicomSummary, true); |
202 | 631 |
432 | 632 // Detect up to which level the patient/study/series/instance |
633 // hierarchy must be created | |
634 int64_t patient = -1, study = -1, series = -1; | |
635 bool isNewPatient = false; | |
636 bool isNewStudy = false; | |
637 bool isNewSeries = false; | |
638 | |
0 | 639 { |
432 | 640 ResourceType dummy; |
641 | |
1294 | 642 if (db_.LookupResource(series, dummy, hasher.HashSeries())) |
432 | 643 { |
644 assert(dummy == ResourceType_Series); | |
645 // The patient, the study and the series already exist | |
646 | |
1294 | 647 bool ok = (db_.LookupResource(patient, dummy, hasher.HashPatient()) && |
648 db_.LookupResource(study, dummy, hasher.HashStudy())); | |
432 | 649 assert(ok); |
650 } | |
1294 | 651 else if (db_.LookupResource(study, dummy, hasher.HashStudy())) |
432 | 652 { |
653 assert(dummy == ResourceType_Study); | |
654 | |
655 // New series: The patient and the study already exist | |
656 isNewSeries = true; | |
657 | |
1294 | 658 bool ok = db_.LookupResource(patient, dummy, hasher.HashPatient()); |
432 | 659 assert(ok); |
660 } | |
1294 | 661 else if (db_.LookupResource(patient, dummy, hasher.HashPatient())) |
432 | 662 { |
663 assert(dummy == ResourceType_Patient); | |
664 | |
665 // New study and series: The patient already exist | |
666 isNewStudy = true; | |
667 isNewSeries = true; | |
668 } | |
669 else | |
670 { | |
671 // New patient, study and series: Nothing exists | |
672 isNewPatient = true; | |
673 isNewStudy = true; | |
674 isNewSeries = true; | |
675 } | |
676 } | |
677 | |
678 // Create the series if needed | |
679 if (isNewSeries) | |
680 { | |
1299 | 681 series = CreateResource(hasher.HashSeries(), ResourceType_Series); |
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682 Toolbox::SetMainDicomTags(db_, series, ResourceType_Series, dicomSummary, true); |
432 | 683 } |
202 | 684 |
432 | 685 // Create the study if needed |
686 if (isNewStudy) | |
687 { | |
1299 | 688 study = CreateResource(hasher.HashStudy(), ResourceType_Study); |
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689 Toolbox::SetMainDicomTags(db_, study, ResourceType_Study, dicomSummary, true); |
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690 Toolbox::SetMainDicomTags(db_, study, ResourceType_Patient, dicomSummary, false); // New in version 0.9.5 (db v6) |
432 | 691 } |
692 | |
693 // Create the patient if needed | |
694 if (isNewPatient) | |
695 { | |
1299 | 696 patient = CreateResource(hasher.HashPatient(), ResourceType_Patient); |
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697 Toolbox::SetMainDicomTags(db_, patient, ResourceType_Patient, dicomSummary, true); |
432 | 698 } |
202 | 699 |
432 | 700 // Create the parent-to-child links |
1247 | 701 db_.AttachChild(series, instance); |
432 | 702 |
703 if (isNewSeries) | |
704 { | |
1247 | 705 db_.AttachChild(study, series); |
0 | 706 } |
432 | 707 |
708 if (isNewStudy) | |
0 | 709 { |
1247 | 710 db_.AttachChild(patient, study); |
0 | 711 } |
712 | |
432 | 713 // Sanity checks |
714 assert(patient != -1); | |
715 assert(study != -1); | |
716 assert(series != -1); | |
717 assert(instance != -1); | |
718 | |
202 | 719 // Attach the files to the newly created instance |
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720 for (Attachments::const_iterator it = attachments.begin(); |
656 | 721 it != attachments.end(); ++it) |
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722 { |
1247 | 723 db_.AddAttachment(instance, *it); |
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724 } |
202 | 725 |
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726 // Attach the user-specified metadata |
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727 for (MetadataMap::const_iterator |
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728 it = metadata.begin(); it != metadata.end(); ++it) |
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729 { |
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730 switch (it->first.first) |
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731 { |
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732 case ResourceType_Patient: |
1247 | 733 db_.SetMetadata(patient, it->first.second, it->second); |
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734 break; |
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735 |
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736 case ResourceType_Study: |
1247 | 737 db_.SetMetadata(study, it->first.second, it->second); |
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738 break; |
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739 |
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740 case ResourceType_Series: |
1247 | 741 db_.SetMetadata(series, it->first.second, it->second); |
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742 break; |
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743 |
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744 case ResourceType_Instance: |
1247 | 745 db_.SetMetadata(instance, it->first.second, it->second); |
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746 instanceMetadata[it->first.second] = it->second; |
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747 break; |
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748 |
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749 default: |
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750 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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751 } |
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752 } |
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753 |
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754 // Attach the auto-computed metadata for the patient/study/series levels |
432 | 755 std::string now = Toolbox::GetNowIsoString(); |
1247 | 756 db_.SetMetadata(series, MetadataType_LastUpdate, now); |
757 db_.SetMetadata(study, MetadataType_LastUpdate, now); | |
758 db_.SetMetadata(patient, MetadataType_LastUpdate, now); | |
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759 |
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760 // Attach the auto-computed metadata for the instance level, |
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761 // reflecting these additions into the input metadata map |
1247 | 762 db_.SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); |
1006
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763 instanceMetadata[MetadataType_Instance_ReceptionDate] = now; |
202 | 764 |
1247 | 765 db_.SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
1006
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766 instanceMetadata[MetadataType_Instance_RemoteAet] = remoteAet; |
1004
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767 |
202 | 768 const DicomValue* value; |
769 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
770 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 771 { |
1247 | 772 db_.SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
1006
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773 instanceMetadata[MetadataType_Instance_IndexInSeries] = value->AsString(); |
0 | 774 } |
775 | |
1004
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776 // Check whether the series of this new instance is now completed |
202 | 777 if (isNewSeries) |
778 { | |
1247 | 779 ComputeExpectedNumberOfInstances(db_, series, dicomSummary); |
202 | 780 } |
781 | |
205
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782 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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783 if (seriesStatus == SeriesStatus_Complete) |
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784 { |
1237 | 785 LogChange(series, ChangeType_CompletedSeries, ResourceType_Series, hasher.HashSeries()); |
205
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786 } |
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787 |
511
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788 // Mark the parent resources of this instance as unstable |
1177
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789 MarkAsUnstable(series, ResourceType_Series, hasher.HashSeries()); |
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790 MarkAsUnstable(study, ResourceType_Study, hasher.HashStudy()); |
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791 MarkAsUnstable(patient, ResourceType_Patient, hasher.HashPatient()); |
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792 |
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793 t.Commit(instanceSize); |
268
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794 |
0 | 795 return StoreStatus_Success; |
796 } | |
62 | 797 catch (OrthancException& e) |
0 | 798 { |
1247 | 799 LOG(ERROR) << "EXCEPTION [" << e.What() << "]"; |
0 | 800 } |
801 | |
802 return StoreStatus_Failure; | |
803 } | |
804 | |
805 | |
238 | 806 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 807 { |
206
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808 boost::mutex::scoped_lock lock(mutex_); |
238 | 809 target = Json::objectValue; |
0 | 810 |
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811 uint64_t cs = currentStorageSize_; |
1247 | 812 assert(cs == db_.GetTotalCompressedSize()); |
813 uint64_t us = db_.GetTotalUncompressedSize(); | |
440
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814 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 815 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
1310
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816 target["TotalDiskSizeMB"] = static_cast<unsigned int>(cs / MEGA_BYTES); |
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817 target["TotalUncompressedSizeMB"] = static_cast<unsigned int>(us / MEGA_BYTES); |
238 | 818 |
1247 | 819 target["CountPatients"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Patient)); |
820 target["CountStudies"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Study)); | |
821 target["CountSeries"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Series)); | |
822 target["CountInstances"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Instance)); | |
238 | 823 } |
824 | |
187
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825 |
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826 |
585 | 827 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 828 { |
829 // Get the expected number of instances in this series (from the metadata) | |
1238 | 830 int64_t expected; |
831 if (!GetMetadataAsInteger(expected, id, MetadataType_Series_ExpectedNumberOfInstances)) | |
199 | 832 { |
833 return SeriesStatus_Unknown; | |
834 } | |
835 | |
836 // Loop over the instances of this series | |
837 std::list<int64_t> children; | |
1247 | 838 db_.GetChildrenInternalId(children, id); |
199 | 839 |
1238 | 840 std::set<int64_t> instances; |
199 | 841 for (std::list<int64_t>::const_iterator |
656 | 842 it = children.begin(); it != children.end(); ++it) |
199 | 843 { |
844 // Get the index of this instance in the series | |
1238 | 845 int64_t index; |
846 if (!GetMetadataAsInteger(index, *it, MetadataType_Instance_IndexInSeries)) | |
199 | 847 { |
848 return SeriesStatus_Unknown; | |
849 } | |
850 | |
656 | 851 if (!(index > 0 && index <= expected)) |
199 | 852 { |
853 // Out-of-range instance index | |
854 return SeriesStatus_Inconsistent; | |
855 } | |
856 | |
857 if (instances.find(index) != instances.end()) | |
858 { | |
859 // Twice the same instance index | |
860 return SeriesStatus_Inconsistent; | |
861 } | |
862 | |
863 instances.insert(index); | |
864 } | |
865 | |
1238 | 866 if (static_cast<int64_t>(instances.size()) == expected) |
199 | 867 { |
868 return SeriesStatus_Complete; | |
869 } | |
870 else | |
871 { | |
872 return SeriesStatus_Missing; | |
873 } | |
874 } | |
875 | |
876 | |
877 | |
202 | 878 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
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879 int64_t resourceId, |
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880 ResourceType resourceType) |
198
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881 { |
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882 DicomMap tags; |
1247 | 883 db_.GetMainDicomTags(tags, resourceId); |
1676
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|
884 |
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885 if (resourceType == ResourceType_Study) |
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886 { |
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887 DicomMap t1, t2; |
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888 tags.ExtractStudyInformation(t1); |
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889 tags.ExtractPatientInformation(t2); |
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|
890 |
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891 target["MainDicomTags"] = Json::objectValue; |
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|
892 FromDcmtkBridge::ToJson(target["MainDicomTags"], t1, true); |
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|
893 |
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diff
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|
894 target["PatientMainDicomTags"] = Json::objectValue; |
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|
895 FromDcmtkBridge::ToJson(target["PatientMainDicomTags"], t2, true); |
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diff
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|
896 |
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diff
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|
897 int64_t patient; |
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diff
changeset
|
898 if (!db_.LookupParent(patient, resourceId)) |
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|
899 { |
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diff
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|
900 throw OrthancException(ErrorCode_InternalError); |
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diff
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|
901 } |
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diff
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|
902 |
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diff
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|
903 tags.Clear(); |
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|
904 db_.GetMainDicomTags(tags, patient); |
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diff
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|
905 |
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diff
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|
906 if (tags.HasTag(DICOM_TAG_PATIENT_ID)) |
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|
907 { |
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diff
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|
908 target["PatientMainDicomTags"]["PatientID"] = tags.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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diff
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|
909 } |
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diff
changeset
|
910 } |
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diff
changeset
|
911 else |
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diff
changeset
|
912 { |
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diff
changeset
|
913 target["MainDicomTags"] = Json::objectValue; |
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diff
changeset
|
914 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags, true); |
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915 } |
198
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916 } |
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917 |
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|
918 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 919 const std::string& publicId, |
920 ResourceType expectedType) | |
198
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921 { |
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922 result = Json::objectValue; |
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923 |
206
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924 boost::mutex::scoped_lock lock(mutex_); |
199 | 925 |
198
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926 // Lookup for the requested resource |
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927 int64_t id; |
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928 ResourceType type; |
1294 | 929 if (!db_.LookupResource(id, type, publicId) || |
199 | 930 type != expectedType) |
198
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931 { |
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932 return false; |
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933 } |
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934 |
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935 // Find the parent resource (if it exists) |
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936 if (type != ResourceType_Patient) |
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937 { |
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938 int64_t parentId; |
1247 | 939 if (!db_.LookupParent(parentId, id)) |
198
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940 { |
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941 throw OrthancException(ErrorCode_InternalError); |
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942 } |
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943 |
1247 | 944 std::string parent = db_.GetPublicId(parentId); |
198
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945 |
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946 switch (type) |
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947 { |
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948 case ResourceType_Study: |
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949 result["ParentPatient"] = parent; |
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950 break; |
198
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951 |
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952 case ResourceType_Series: |
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953 result["ParentStudy"] = parent; |
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954 break; |
198
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955 |
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956 case ResourceType_Instance: |
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|
957 result["ParentSeries"] = parent; |
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diff
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|
958 break; |
198
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diff
changeset
|
959 |
269
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diff
changeset
|
960 default: |
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|
961 throw OrthancException(ErrorCode_InternalError); |
198
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diff
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|
962 } |
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diff
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|
963 } |
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diff
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|
964 |
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|
965 // List the children resources |
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diff
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|
966 std::list<std::string> children; |
1247 | 967 db_.GetChildrenPublicId(children, id); |
198
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diff
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|
968 |
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diff
changeset
|
969 if (type != ResourceType_Instance) |
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diff
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|
970 { |
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197
diff
changeset
|
971 Json::Value c = Json::arrayValue; |
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diff
changeset
|
972 |
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197
diff
changeset
|
973 for (std::list<std::string>::const_iterator |
656 | 974 it = children.begin(); it != children.end(); ++it) |
198
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diff
changeset
|
975 { |
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diff
changeset
|
976 c.append(*it); |
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before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
977 } |
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diff
changeset
|
978 |
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diff
changeset
|
979 switch (type) |
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diff
changeset
|
980 { |
269
f6fdf5abe751
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diff
changeset
|
981 case ResourceType_Patient: |
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diff
changeset
|
982 result["Studies"] = c; |
f6fdf5abe751
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268
diff
changeset
|
983 break; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
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diff
changeset
|
984 |
269
f6fdf5abe751
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268
diff
changeset
|
985 case ResourceType_Study: |
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diff
changeset
|
986 result["Series"] = c; |
f6fdf5abe751
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parents:
268
diff
changeset
|
987 break; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
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197
diff
changeset
|
988 |
269
f6fdf5abe751
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diff
changeset
|
989 case ResourceType_Series: |
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diff
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|
990 result["Instances"] = c; |
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
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268
diff
changeset
|
991 break; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
992 |
269
f6fdf5abe751
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268
diff
changeset
|
993 default: |
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268
diff
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|
994 throw OrthancException(ErrorCode_InternalError); |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
995 } |
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before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
996 } |
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before refactoring of ServerIndex::GetXXX
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197
diff
changeset
|
997 |
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197
diff
changeset
|
998 // Set the resource type |
663cc6c46d0a
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197
diff
changeset
|
999 switch (type) |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1000 { |
269
f6fdf5abe751
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268
diff
changeset
|
1001 case ResourceType_Patient: |
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268
diff
changeset
|
1002 result["Type"] = "Patient"; |
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1003 break; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
1004 |
269
f6fdf5abe751
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parents:
268
diff
changeset
|
1005 case ResourceType_Study: |
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parents:
268
diff
changeset
|
1006 result["Type"] = "Study"; |
f6fdf5abe751
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parents:
268
diff
changeset
|
1007 break; |
199 | 1008 |
269
f6fdf5abe751
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268
diff
changeset
|
1009 case ResourceType_Series: |
f6fdf5abe751
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268
diff
changeset
|
1010 { |
f6fdf5abe751
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268
diff
changeset
|
1011 result["Type"] = "Series"; |
434
ccf3a0a43dac
EnumerationDictionary
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
433
diff
changeset
|
1012 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
1013 |
1238 | 1014 int64_t i; |
1237 | 1015 if (GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
1238 | 1016 result["ExpectedNumberOfInstances"] = static_cast<int>(i); |
269
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1017 else |
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1018 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1019 |
269
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1020 break; |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1021 } |
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1022 |
269
f6fdf5abe751
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268
diff
changeset
|
1023 case ResourceType_Instance: |
f6fdf5abe751
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268
diff
changeset
|
1024 { |
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268
diff
changeset
|
1025 result["Type"] = "Instance"; |
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diff
changeset
|
1026 |
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268
diff
changeset
|
1027 FileInfo attachment; |
1247 | 1028 if (!db_.LookupAttachment(attachment, id, FileContentType_Dicom)) |
269
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
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268
diff
changeset
|
1029 { |
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268
diff
changeset
|
1030 throw OrthancException(ErrorCode_InternalError); |
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1031 } |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1032 |
269
f6fdf5abe751
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268
diff
changeset
|
1033 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1034 result["FileUuid"] = attachment.GetUuid(); |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1035 |
1238 | 1036 int64_t i; |
1237 | 1037 if (GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
1238 | 1038 result["IndexInSeries"] = static_cast<int>(i); |
269
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
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268
diff
changeset
|
1039 else |
f6fdf5abe751
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
268
diff
changeset
|
1040 result["IndexInSeries"] = Json::nullValue; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
1041 |
269
f6fdf5abe751
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parents:
268
diff
changeset
|
1042 break; |
f6fdf5abe751
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parents:
268
diff
changeset
|
1043 } |
f6fdf5abe751
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268
diff
changeset
|
1044 |
f6fdf5abe751
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parents:
268
diff
changeset
|
1045 default: |
f6fdf5abe751
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268
diff
changeset
|
1046 throw OrthancException(ErrorCode_InternalError); |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
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197
diff
changeset
|
1047 } |
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diff
changeset
|
1048 |
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197
diff
changeset
|
1049 // Record the remaining information |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
1050 result["ID"] = publicId; |
1668
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1051 MainDicomTagsToJson(result, id, type); |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
197
diff
changeset
|
1052 |
315 | 1053 std::string tmp; |
1054 | |
1247 | 1055 if (db_.LookupMetadata(tmp, id, MetadataType_AnonymizedFrom)) |
1236 | 1056 { |
315 | 1057 result["AnonymizedFrom"] = tmp; |
1236 | 1058 } |
315 | 1059 |
1247 | 1060 if (db_.LookupMetadata(tmp, id, MetadataType_ModifiedFrom)) |
1236 | 1061 { |
315 | 1062 result["ModifiedFrom"] = tmp; |
1236 | 1063 } |
315 | 1064 |
511
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1065 if (type == ResourceType_Patient || |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1066 type == ResourceType_Study || |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1067 type == ResourceType_Series) |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1068 { |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1069 result["IsStable"] = !unstableResources_.Contains(id); |
1148
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1139
diff
changeset
|
1070 |
1247 | 1071 if (db_.LookupMetadata(tmp, id, MetadataType_LastUpdate)) |
1236 | 1072 { |
1148
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1139
diff
changeset
|
1073 result["LastUpdate"] = tmp; |
1236 | 1074 } |
511
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1075 } |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1076 |
198
663cc6c46d0a
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197
diff
changeset
|
1077 return true; |
663cc6c46d0a
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197
diff
changeset
|
1078 } |
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197
diff
changeset
|
1079 |
0 | 1080 |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1081 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1082 const std::string& instanceUuid, |
233 | 1083 FileContentType contentType) |
0 | 1084 { |
206
4453a010d0db
flush to disk thread
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
205
diff
changeset
|
1085 boost::mutex::scoped_lock lock(mutex_); |
0 | 1086 |
193
a1b9d1e1497b
failed attempt to compile with linux standard base
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
192
diff
changeset
|
1087 int64_t id; |
a1b9d1e1497b
failed attempt to compile with linux standard base
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
192
diff
changeset
|
1088 ResourceType type; |
1294 | 1089 if (!db_.LookupResource(id, type, instanceUuid)) |
192
c56dc32266e0
refactoring getfile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
191
diff
changeset
|
1090 { |
1113
ba5c0908600c
Refactoring of HttpOutput ("Content-Length" header is now always sent)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1102
diff
changeset
|
1091 throw OrthancException(ErrorCode_UnknownResource); |
192
c56dc32266e0
refactoring getfile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
191
diff
changeset
|
1092 } |
193
a1b9d1e1497b
failed attempt to compile with linux standard base
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
192
diff
changeset
|
1093 |
1247 | 1094 if (db_.LookupAttachment(attachment, id, contentType)) |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1095 { |
233 | 1096 assert(attachment.GetContentType() == contentType); |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1097 return true; |
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1098 } |
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1099 else |
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1100 { |
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1101 return false; |
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1102 } |
192
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1103 } |
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1104 |
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1105 |
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1106 |
1354 | 1107 void ServerIndex::GetAllUuids(std::list<std::string>& target, |
190 | 1108 ResourceType resourceType) |
0 | 1109 { |
1357 | 1110 boost::mutex::scoped_lock lock(mutex_); |
1111 db_.GetAllPublicIds(target, resourceType); | |
0 | 1112 } |
1113 | |
1114 | |
1509
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1115 void ServerIndex::GetAllUuids(std::list<std::string>& target, |
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1116 ResourceType resourceType, |
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1117 size_t since, |
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1118 size_t limit) |
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1119 { |
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1120 if (limit == 0) |
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1121 { |
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1122 target.clear(); |
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1123 return; |
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1124 } |
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1125 |
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1126 boost::mutex::scoped_lock lock(mutex_); |
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1127 db_.GetAllPublicIds(target, resourceType, since, limit); |
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1128 } |
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1129 |
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1130 |
1244 | 1131 template <typename T> |
1132 static void FormatLog(Json::Value& target, | |
1133 const std::list<T>& log, | |
1134 const std::string& name, | |
1135 bool done, | |
1136 int64_t since) | |
1240 | 1137 { |
1138 Json::Value items = Json::arrayValue; | |
1244 | 1139 for (typename std::list<T>::const_iterator |
1304 | 1140 it = log.begin(); it != log.end(); ++it) |
1240 | 1141 { |
1142 Json::Value item; | |
1143 it->Format(item); | |
1144 items.append(item); | |
1145 } | |
1146 | |
1147 target = Json::objectValue; | |
1244 | 1148 target[name] = items; |
1240 | 1149 target["Done"] = done; |
1150 | |
1305 | 1151 int64_t last = (log.empty() ? since : log.back().GetSeq()); |
1240 | 1152 target["Last"] = static_cast<int>(last); |
1153 } | |
1154 | |
1155 | |
1247 | 1156 void ServerIndex::GetChanges(Json::Value& target, |
204 | 1157 int64_t since, |
0 | 1158 unsigned int maxResults) |
1159 { | |
1240 | 1160 std::list<ServerIndexChange> changes; |
1161 bool done; | |
1162 | |
1163 { | |
1164 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1165 db_.GetChanges(changes, done, since, maxResults); |
1240 | 1166 } |
1167 | |
1244 | 1168 FormatLog(target, changes, "Changes", done, since); |
237
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1169 } |
0 | 1170 |
1240 | 1171 |
1247 | 1172 void ServerIndex::GetLastChange(Json::Value& target) |
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1173 { |
1240 | 1174 std::list<ServerIndexChange> changes; |
1175 | |
1176 { | |
1177 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1178 db_.GetLastChange(changes); |
1240 | 1179 } |
1180 | |
1244 | 1181 FormatLog(target, changes, "Changes", true, 0); |
0 | 1182 } |
231 | 1183 |
1240 | 1184 |
231 | 1185 void ServerIndex::LogExportedResource(const std::string& publicId, |
1186 const std::string& remoteModality) | |
1187 { | |
1188 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1189 Transaction transaction(*this); |
231 | 1190 |
1191 int64_t id; | |
1192 ResourceType type; | |
1294 | 1193 if (!db_.LookupResource(id, type, publicId)) |
231 | 1194 { |
1195 throw OrthancException(ErrorCode_InternalError); | |
1196 } | |
1197 | |
1198 std::string patientId; | |
1199 std::string studyInstanceUid; | |
1200 std::string seriesInstanceUid; | |
1201 std::string sopInstanceUid; | |
1202 | |
1203 int64_t currentId = id; | |
1204 ResourceType currentType = type; | |
1205 | |
1206 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1207 bool done = false; | |
1208 while (!done) | |
1209 { | |
1210 DicomMap map; | |
1247 | 1211 db_.GetMainDicomTags(map, currentId); |
231 | 1212 |
1213 switch (currentType) | |
1214 { | |
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1215 case ResourceType_Patient: |
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1216 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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1217 done = true; |
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1218 break; |
231 | 1219 |
269
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1220 case ResourceType_Study: |
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1221 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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1222 currentType = ResourceType_Patient; |
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1223 break; |
231 | 1224 |
269
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1225 case ResourceType_Series: |
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1226 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
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1227 currentType = ResourceType_Study; |
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1228 break; |
231 | 1229 |
269
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1230 case ResourceType_Instance: |
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1231 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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1232 currentType = ResourceType_Series; |
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1233 break; |
231 | 1234 |
269
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1235 default: |
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1236 throw OrthancException(ErrorCode_InternalError); |
231 | 1237 } |
1238 | |
1239 // If we have not reached the Patient level, find the parent of | |
1240 // the current resource | |
1241 if (!done) | |
1242 { | |
1247 | 1243 bool ok = db_.LookupParent(currentId, currentId); |
375
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1244 assert(ok); |
231 | 1245 } |
1246 } | |
1247 | |
1246 | 1248 ExportedResource resource(-1, |
1249 type, | |
1250 publicId, | |
1251 remoteModality, | |
1252 Toolbox::GetNowIsoString(), | |
1253 patientId, | |
1254 studyInstanceUid, | |
1255 seriesInstanceUid, | |
1256 sopInstanceUid); | |
1310
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1257 |
1247 | 1258 db_.LogExportedResource(resource); |
1310
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|
1259 transaction.Commit(0); |
231 | 1260 } |
1261 | |
1262 | |
1247 | 1263 void ServerIndex::GetExportedResources(Json::Value& target, |
231 | 1264 int64_t since, |
1265 unsigned int maxResults) | |
1266 { | |
1244 | 1267 std::list<ExportedResource> exported; |
1268 bool done; | |
1269 | |
1270 { | |
1271 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1272 db_.GetExportedResources(exported, done, since, maxResults); |
1244 | 1273 } |
1274 | |
1275 FormatLog(target, exported, "Exports", done, since); | |
231 | 1276 } |
237
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1277 |
1244 | 1278 |
1247 | 1279 void ServerIndex::GetLastExportedResource(Json::Value& target) |
237
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1280 { |
1244 | 1281 std::list<ExportedResource> exported; |
1282 | |
1283 { | |
1284 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1285 db_.GetLastExportedResource(exported); |
1244 | 1286 } |
1287 | |
1288 FormatLog(target, exported, "Exports", true, 0); | |
237
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1289 } |
268
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1290 |
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1291 |
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1292 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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1293 { |
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1294 if (maximumStorageSize_ != 0) |
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1295 { |
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1296 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
1247 | 1297 assert(db_.GetTotalCompressedSize() == currentSize); |
278
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1298 |
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1299 if (currentSize + instanceSize > maximumStorageSize_) |
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1300 { |
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1301 return true; |
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1302 } |
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1303 } |
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1304 |
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1305 if (maximumPatients_ != 0) |
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1306 { |
1247 | 1307 uint64_t patientCount = db_.GetResourceCount(ResourceType_Patient); |
269
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1308 if (patientCount > maximumPatients_) |
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1309 { |
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1310 return true; |
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1311 } |
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1312 } |
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1313 |
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1314 return false; |
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1315 } |
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1316 |
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1317 |
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1318 void ServerIndex::Recycle(uint64_t instanceSize, |
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1319 const std::string& newPatientId) |
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1320 { |
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1321 if (!IsRecyclingNeeded(instanceSize)) |
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1322 { |
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1323 return; |
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1324 } |
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1325 |
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1326 // Check whether other DICOM instances from this patient are |
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1327 // already stored |
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1328 int64_t patientToAvoid; |
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1329 ResourceType type; |
1294 | 1330 bool hasPatientToAvoid = db_.LookupResource(patientToAvoid, type, newPatientId); |
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1331 |
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1332 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1333 { |
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1334 throw OrthancException(ErrorCode_InternalError); |
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1335 } |
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1336 |
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1337 // Iteratively select patient to remove until there is enough |
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1338 // space in the DICOM store |
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1339 int64_t patientToRecycle; |
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1340 while (true) |
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1341 { |
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1342 // If other instances of this patient are already in the store, |
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1343 // we must avoid to recycle them |
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1344 bool ok = hasPatientToAvoid ? |
1247 | 1345 db_.SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
1346 db_.SelectPatientToRecycle(patientToRecycle); | |
269
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1347 |
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1348 if (!ok) |
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1349 { |
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1350 throw OrthancException(ErrorCode_FullStorage); |
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1351 } |
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1352 |
1331
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1353 VLOG(1) << "Recycling one patient"; |
1247 | 1354 db_.DeleteResource(patientToRecycle); |
269
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1355 |
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1356 if (!IsRecyclingNeeded(instanceSize)) |
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1357 { |
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1358 // OK, we're done |
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1359 break; |
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1360 } |
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1361 } |
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1362 } |
269
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1363 |
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1364 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1365 { |
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1366 boost::mutex::scoped_lock lock(mutex_); |
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1367 maximumPatients_ = count; |
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1368 |
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1369 if (count == 0) |
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1370 { |
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1371 LOG(WARNING) << "No limit on the number of stored patients"; |
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1372 } |
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1373 else |
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1374 { |
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1375 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1376 } |
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1377 |
269
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1378 StandaloneRecycling(); |
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1379 } |
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1380 |
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1381 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1382 { |
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1383 boost::mutex::scoped_lock lock(mutex_); |
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1384 maximumStorageSize_ = size; |
270
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1385 |
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1386 if (size == 0) |
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1387 { |
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1388 LOG(WARNING) << "No limit on the size of the storage area"; |
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1389 } |
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1390 else |
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1391 { |
440
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diff
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|
1392 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
270
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1393 } |
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1394 |
269
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1395 StandaloneRecycling(); |
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1396 } |
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1397 |
272
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1398 void ServerIndex::StandaloneRecycling() |
269
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1399 { |
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1400 // WARNING: No mutex here, do not include this as a public method |
278
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1401 Transaction t(*this); |
269
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1402 Recycle(0, ""); |
278
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1403 t.Commit(0); |
269
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1404 } |
272
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1405 |
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1406 |
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1407 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1408 { |
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1409 boost::mutex::scoped_lock lock(mutex_); |
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1410 |
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1411 // Lookup for the requested resource |
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1412 int64_t id; |
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1413 ResourceType type; |
1294 | 1414 if (!db_.LookupResource(id, type, publicId) || |
272
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1415 type != ResourceType_Patient) |
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1416 { |
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1417 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1418 } |
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1419 |
1247 | 1420 return db_.IsProtectedPatient(id); |
272
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1421 } |
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1422 |
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1423 |
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1424 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1425 bool isProtected) |
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1426 { |
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1427 boost::mutex::scoped_lock lock(mutex_); |
1310
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|
1428 Transaction transaction(*this); |
272
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1429 |
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1430 // Lookup for the requested resource |
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1431 int64_t id; |
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1432 ResourceType type; |
1294 | 1433 if (!db_.LookupResource(id, type, publicId) || |
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1434 type != ResourceType_Patient) |
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1435 { |
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1436 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1437 } |
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1438 |
1247 | 1439 db_.SetProtectedPatient(id, isProtected); |
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1440 transaction.Commit(0); |
272
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1441 |
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1442 if (isProtected) |
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1443 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1444 else |
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1445 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1446 } |
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1447 |
304 | 1448 |
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1449 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1450 const std::string& publicId) |
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1451 { |
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1452 result.clear(); |
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1453 |
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1454 boost::mutex::scoped_lock lock(mutex_); |
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1455 |
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1456 ResourceType type; |
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1457 int64_t resource; |
1294 | 1458 if (!db_.LookupResource(resource, type, publicId)) |
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1459 { |
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1460 throw OrthancException(ErrorCode_UnknownResource); |
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1461 } |
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1462 |
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1463 if (type == ResourceType_Instance) |
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1464 { |
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1465 // An instance cannot have a child |
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1466 throw OrthancException(ErrorCode_BadParameterType); |
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1467 } |
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1468 |
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1469 std::list<int64_t> tmp; |
1247 | 1470 db_.GetChildrenInternalId(tmp, resource); |
714
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1471 |
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1472 for (std::list<int64_t>::const_iterator |
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1473 it = tmp.begin(); it != tmp.end(); ++it) |
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1474 { |
1247 | 1475 result.push_back(db_.GetPublicId(*it)); |
714
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1476 } |
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1477 } |
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1478 |
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1479 |
304 | 1480 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1481 const std::string& publicId) | |
1482 { | |
1483 result.clear(); | |
1484 | |
1485 boost::mutex::scoped_lock lock(mutex_); | |
1486 | |
1487 ResourceType type; | |
1488 int64_t top; | |
1294 | 1489 if (!db_.LookupResource(top, type, publicId)) |
304 | 1490 { |
1491 throw OrthancException(ErrorCode_UnknownResource); | |
1492 } | |
1493 | |
1494 if (type == ResourceType_Instance) | |
1495 { | |
1496 // The resource is already an instance: Do not go down the hierarchy | |
1497 result.push_back(publicId); | |
1498 return; | |
1499 } | |
1500 | |
1501 std::stack<int64_t> toExplore; | |
1502 toExplore.push(top); | |
1503 | |
1504 std::list<int64_t> tmp; | |
1505 | |
1506 while (!toExplore.empty()) | |
1507 { | |
1508 // Get the internal ID of the current resource | |
1509 int64_t resource = toExplore.top(); | |
1510 toExplore.pop(); | |
1511 | |
1247 | 1512 if (db_.GetResourceType(resource) == ResourceType_Instance) |
304 | 1513 { |
1247 | 1514 result.push_back(db_.GetPublicId(resource)); |
304 | 1515 } |
1516 else | |
1517 { | |
1518 // Tag all the children of this resource as to be explored | |
1247 | 1519 db_.GetChildrenInternalId(tmp, resource); |
304 | 1520 for (std::list<int64_t>::const_iterator |
656 | 1521 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1522 { |
1523 toExplore.push(*it); | |
1524 } | |
1525 } | |
1526 } | |
1527 } | |
1528 | |
306
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1529 |
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1530 void ServerIndex::SetMetadata(const std::string& publicId, |
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1531 MetadataType type, |
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1532 const std::string& value) |
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1533 { |
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1534 boost::mutex::scoped_lock lock(mutex_); |
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1535 |
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1536 ResourceType rtype; |
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1537 int64_t id; |
1294 | 1538 if (!db_.LookupResource(id, rtype, publicId)) |
306
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1539 { |
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1540 throw OrthancException(ErrorCode_UnknownResource); |
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1541 } |
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1542 |
1247 | 1543 db_.SetMetadata(id, type, value); |
306
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1544 } |
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1545 |
438 | 1546 |
1547 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1548 MetadataType type) | |
1549 { | |
1550 boost::mutex::scoped_lock lock(mutex_); | |
1551 | |
1552 ResourceType rtype; | |
1553 int64_t id; | |
1294 | 1554 if (!db_.LookupResource(id, rtype, publicId)) |
438 | 1555 { |
1556 throw OrthancException(ErrorCode_UnknownResource); | |
1557 } | |
1558 | |
1247 | 1559 db_.DeleteMetadata(id, type); |
438 | 1560 } |
1561 | |
1562 | |
306
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1563 bool ServerIndex::LookupMetadata(std::string& target, |
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1564 const std::string& publicId, |
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1565 MetadataType type) |
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1566 { |
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|
1567 boost::mutex::scoped_lock lock(mutex_); |
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1568 |
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1569 ResourceType rtype; |
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|
1570 int64_t id; |
1294 | 1571 if (!db_.LookupResource(id, rtype, publicId)) |
306
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1572 { |
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1573 throw OrthancException(ErrorCode_UnknownResource); |
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1574 } |
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1575 |
1247 | 1576 return db_.LookupMetadata(target, id, type); |
306
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1577 } |
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1578 |
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1579 |
739 | 1580 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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|
1581 const std::string& publicId) |
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|
1582 { |
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1583 boost::mutex::scoped_lock lock(mutex_); |
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|
1584 |
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|
1585 ResourceType rtype; |
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|
1586 int64_t id; |
1294 | 1587 if (!db_.LookupResource(id, rtype, publicId)) |
436
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|
1588 { |
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|
1589 throw OrthancException(ErrorCode_UnknownResource); |
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|
1590 } |
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|
1591 |
1247 | 1592 db_.ListAvailableMetadata(target, id); |
436
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|
1593 } |
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|
1594 |
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|
1595 |
697
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|
1596 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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|
1597 const std::string& publicId, |
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|
1598 ResourceType expectedType) |
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|
1599 { |
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|
1600 boost::mutex::scoped_lock lock(mutex_); |
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|
1601 |
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|
1602 ResourceType type; |
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|
1603 int64_t id; |
1294 | 1604 if (!db_.LookupResource(id, type, publicId) || |
697
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|
1605 expectedType != type) |
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|
1606 { |
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|
1607 throw OrthancException(ErrorCode_UnknownResource); |
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|
1608 } |
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|
1609 |
1247 | 1610 db_.ListAvailableAttachments(target, id); |
697
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|
1611 } |
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|
1612 |
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1613 |
306
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1614 bool ServerIndex::LookupParent(std::string& target, |
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1615 const std::string& publicId) |
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1616 { |
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1617 boost::mutex::scoped_lock lock(mutex_); |
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1618 |
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1619 ResourceType type; |
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1620 int64_t id; |
1294 | 1621 if (!db_.LookupResource(id, type, publicId)) |
306
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1622 { |
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1623 throw OrthancException(ErrorCode_UnknownResource); |
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1624 } |
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1625 |
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1626 int64_t parentId; |
1247 | 1627 if (db_.LookupParent(parentId, id)) |
306
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1628 { |
1247 | 1629 target = db_.GetPublicId(parentId); |
306
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1630 return true; |
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1631 } |
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1632 else |
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1633 { |
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1634 return false; |
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1635 } |
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1636 } |
310 | 1637 |
1638 | |
1639 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1640 { | |
1641 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1642 Transaction transaction(*this); |
311 | 1643 |
1237 | 1644 uint64_t seq = IncrementGlobalSequenceInternal(sequence); |
1310
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1645 transaction.Commit(0); |
311 | 1646 |
1647 return seq; | |
310 | 1648 } |
315 | 1649 |
1650 | |
1651 | |
1652 void ServerIndex::LogChange(ChangeType changeType, | |
1653 const std::string& publicId) | |
1654 { | |
1655 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1656 Transaction transaction(*this); |
315 | 1657 |
1658 int64_t id; | |
1659 ResourceType type; | |
1294 | 1660 if (!db_.LookupResource(id, type, publicId)) |
315 | 1661 { |
1662 throw OrthancException(ErrorCode_UnknownResource); | |
1663 } | |
1664 | |
1237 | 1665 LogChange(id, changeType, type, publicId); |
1310
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1666 transaction.Commit(0); |
315 | 1667 } |
413
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1668 |
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1669 |
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1670 void ServerIndex::DeleteChanges() |
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1671 { |
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1672 boost::mutex::scoped_lock lock(mutex_); |
1286 | 1673 db_.ClearChanges(); |
413
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1674 } |
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1675 |
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1676 void ServerIndex::DeleteExportedResources() |
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399
diff
changeset
|
1677 { |
47d63c941902
clearing /exports and /changes
Sebastien Jodogne <s.jodogne@gmail.com>
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399
diff
changeset
|
1678 boost::mutex::scoped_lock lock(mutex_); |
1286 | 1679 db_.ClearExportedResources(); |
413
47d63c941902
clearing /exports and /changes
Sebastien Jodogne <s.jodogne@gmail.com>
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399
diff
changeset
|
1680 } |
440
23e5b35e3c5c
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diff
changeset
|
1681 |
23e5b35e3c5c
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diff
changeset
|
1682 |
646 | 1683 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
1684 /* out */ uint64_t& uncompressedSize, | |
1685 /* out */ unsigned int& countStudies, | |
1686 /* out */ unsigned int& countSeries, | |
1687 /* out */ unsigned int& countInstances, | |
1688 /* in */ int64_t id, | |
1689 /* in */ ResourceType type) | |
440
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diff
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|
1690 { |
646 | 1691 std::stack<int64_t> toExplore; |
1692 toExplore.push(id); | |
440
23e5b35e3c5c
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diff
changeset
|
1693 |
646 | 1694 countInstances = 0; |
1695 countSeries = 0; | |
1696 countStudies = 0; | |
1697 compressedSize = 0; | |
1698 uncompressedSize = 0; | |
440
23e5b35e3c5c
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1699 |
23e5b35e3c5c
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diff
changeset
|
1700 while (!toExplore.empty()) |
23e5b35e3c5c
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diff
changeset
|
1701 { |
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diff
changeset
|
1702 // Get the internal ID of the current resource |
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diff
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|
1703 int64_t resource = toExplore.top(); |
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diff
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|
1704 toExplore.pop(); |
23e5b35e3c5c
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diff
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|
1705 |
1247 | 1706 ResourceType thisType = db_.GetResourceType(resource); |
440
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diff
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|
1707 |
702
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
1708 std::list<FileContentType> f; |
1247 | 1709 db_.ListAvailableAttachments(f, resource); |
702
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
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701
diff
changeset
|
1710 |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1711 for (std::list<FileContentType>::const_iterator |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1712 it = f.begin(); it != f.end(); ++it) |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1713 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1714 FileInfo attachment; |
1247 | 1715 if (db_.LookupAttachment(attachment, resource, *it)) |
702
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
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701
diff
changeset
|
1716 { |
7592a48e97e4
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diff
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|
1717 compressedSize += attachment.GetCompressedSize(); |
7592a48e97e4
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1718 uncompressedSize += attachment.GetUncompressedSize(); |
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diff
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|
1719 } |
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diff
changeset
|
1720 } |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1721 |
440
23e5b35e3c5c
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diff
changeset
|
1722 if (thisType == ResourceType_Instance) |
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diff
changeset
|
1723 { |
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diff
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|
1724 countInstances++; |
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diff
changeset
|
1725 } |
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diff
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|
1726 else |
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diff
changeset
|
1727 { |
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diff
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|
1728 switch (thisType) |
23e5b35e3c5c
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diff
changeset
|
1729 { |
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diff
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|
1730 case ResourceType_Study: |
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diff
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|
1731 countStudies++; |
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diff
changeset
|
1732 break; |
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diff
changeset
|
1733 |
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diff
changeset
|
1734 case ResourceType_Series: |
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diff
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|
1735 countSeries++; |
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diff
changeset
|
1736 break; |
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diff
changeset
|
1737 |
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diff
changeset
|
1738 default: |
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diff
changeset
|
1739 break; |
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diff
changeset
|
1740 } |
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diff
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|
1741 |
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diff
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|
1742 // Tag all the children of this resource as to be explored |
23e5b35e3c5c
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diff
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|
1743 std::list<int64_t> tmp; |
1247 | 1744 db_.GetChildrenInternalId(tmp, resource); |
440
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diff
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|
1745 for (std::list<int64_t>::const_iterator |
656 | 1746 it = tmp.begin(); it != tmp.end(); ++it) |
440
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diff
changeset
|
1747 { |
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diff
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|
1748 toExplore.push(*it); |
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diff
changeset
|
1749 } |
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diff
changeset
|
1750 } |
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diff
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|
1751 } |
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diff
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|
1752 |
646 | 1753 if (countStudies == 0) |
1754 { | |
1755 countStudies = 1; | |
1756 } | |
1757 | |
1758 if (countSeries == 0) | |
1759 { | |
1760 countSeries = 1; | |
1761 } | |
1762 } | |
1763 | |
1764 | |
1765 | |
1766 void ServerIndex::GetStatistics(Json::Value& target, | |
1767 const std::string& publicId) | |
1768 { | |
1769 boost::mutex::scoped_lock lock(mutex_); | |
1770 | |
1771 ResourceType type; | |
1772 int64_t top; | |
1294 | 1773 if (!db_.LookupResource(top, type, publicId)) |
646 | 1774 { |
1775 throw OrthancException(ErrorCode_UnknownResource); | |
1776 } | |
1777 | |
1778 uint64_t uncompressedSize; | |
1779 uint64_t compressedSize; | |
1780 unsigned int countStudies; | |
1781 unsigned int countSeries; | |
1782 unsigned int countInstances; | |
1783 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1784 countSeries, countInstances, top, type); | |
1785 | |
440
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diff
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|
1786 target = Json::objectValue; |
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diff
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|
1787 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
1310
61ce8147f30d
custom database back-end
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1306
diff
changeset
|
1788 target["DiskSizeMB"] = static_cast<unsigned int>(compressedSize / MEGA_BYTES); |
440
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diff
changeset
|
1789 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
1310
61ce8147f30d
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1306
diff
changeset
|
1790 target["UncompressedSizeMB"] = static_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
440
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diff
changeset
|
1791 |
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diff
changeset
|
1792 switch (type) |
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diff
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|
1793 { |
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diff
changeset
|
1794 // Do NOT add "break" below this point! |
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diff
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|
1795 case ResourceType_Patient: |
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|
1796 target["CountStudies"] = countStudies; |
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diff
changeset
|
1797 |
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diff
changeset
|
1798 case ResourceType_Study: |
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diff
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|
1799 target["CountSeries"] = countSeries; |
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diff
changeset
|
1800 |
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diff
changeset
|
1801 case ResourceType_Series: |
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diff
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|
1802 target["CountInstances"] = countInstances; |
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diff
changeset
|
1803 |
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diff
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|
1804 case ResourceType_Instance: |
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diff
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1805 default: |
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diff
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|
1806 break; |
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diff
changeset
|
1807 } |
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diff
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|
1808 } |
511
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diff
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|
1809 |
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|
1810 |
646 | 1811 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
1812 /* out */ uint64_t& uncompressedSize, | |
1813 /* out */ unsigned int& countStudies, | |
1814 /* out */ unsigned int& countSeries, | |
1815 /* out */ unsigned int& countInstances, | |
1816 const std::string& publicId) | |
1817 { | |
1818 boost::mutex::scoped_lock lock(mutex_); | |
1819 | |
1820 ResourceType type; | |
1821 int64_t top; | |
1294 | 1822 if (!db_.LookupResource(top, type, publicId)) |
646 | 1823 { |
1824 throw OrthancException(ErrorCode_UnknownResource); | |
1825 } | |
1826 | |
1827 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1828 countSeries, countInstances, top, type); | |
1829 } | |
1830 | |
1831 | |
511
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|
1832 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
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|
1833 { |
810
401a9633e492
configuration into a namespace
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diff
changeset
|
1834 int stableAge = Configuration::GetGlobalIntegerParameter("StableAge", 60); |
511
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changeset
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1835 if (stableAge <= 0) |
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1836 { |
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changeset
|
1837 stableAge = 60; |
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1838 } |
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changeset
|
1839 |
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changeset
|
1840 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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1841 |
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changeset
|
1842 while (!that->done_) |
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changeset
|
1843 { |
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changeset
|
1844 // Check for stable resources each second |
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|
1845 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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1846 |
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changeset
|
1847 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 1848 |
511
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diff
changeset
|
1849 while (!that->unstableResources_.IsEmpty() && |
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1850 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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1851 { |
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1852 // This DICOM resource has not received any new instance for |
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1853 // some time. It can be considered as stable. |
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1854 |
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1855 UnstableResourcePayload payload; |
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1856 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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1857 |
513 | 1858 // Ensure that the resource is still existing before logging the change |
1247 | 1859 if (that->db_.IsExistingResource(id)) |
511
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1860 { |
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1861 switch (payload.GetResourceType()) |
513 | 1862 { |
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1863 case ResourceType_Patient: |
1237 | 1864 that->LogChange(id, ChangeType_StablePatient, ResourceType_Patient, payload.GetPublicId()); |
513 | 1865 break; |
511
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1866 |
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1867 case ResourceType_Study: |
1237 | 1868 that->LogChange(id, ChangeType_StableStudy, ResourceType_Study, payload.GetPublicId()); |
513 | 1869 break; |
511
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1870 |
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1871 case ResourceType_Series: |
1237 | 1872 that->LogChange(id, ChangeType_StableSeries, ResourceType_Series, payload.GetPublicId()); |
513 | 1873 break; |
1874 | |
1875 default: | |
1876 throw OrthancException(ErrorCode_InternalError); | |
1877 } | |
1878 | |
1879 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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1880 } |
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1881 } |
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1882 } |
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1883 |
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1884 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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1885 } |
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1886 |
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1887 |
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1888 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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1889 Orthanc::ResourceType type, |
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1890 const std::string& publicId) |
511
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1891 { |
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1892 // WARNING: Before calling this method, "mutex_" must be locked. |
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1893 |
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1894 assert(type == Orthanc::ResourceType_Patient || |
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1895 type == Orthanc::ResourceType_Study || |
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1896 type == Orthanc::ResourceType_Series); |
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1897 |
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1898 UnstableResourcePayload payload(type, publicId); |
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1899 unstableResources_.AddOrMakeMostRecent(id, payload); |
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1900 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
1189
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1901 |
1237 | 1902 LogChange(id, ChangeType_NewChildInstance, type, publicId); |
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1903 } |
521 | 1904 |
1905 | |
1906 | |
1162 | 1907 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1908 const DicomTag& tag, | |
1909 const std::string& value, | |
1910 ResourceType type) | |
615 | 1911 { |
1912 result.clear(); | |
1913 | |
1914 boost::mutex::scoped_lock lock(mutex_); | |
1915 | |
1916 std::list<int64_t> id; | |
1247 | 1917 db_.LookupIdentifier(id, tag, value); |
615 | 1918 |
1919 for (std::list<int64_t>::const_iterator | |
656 | 1920 it = id.begin(); it != id.end(); ++it) |
615 | 1921 { |
1247 | 1922 if (db_.GetResourceType(*it) == type) |
615 | 1923 { |
1247 | 1924 result.push_back(db_.GetPublicId(*it)); |
615 | 1925 } |
1926 } | |
1927 } | |
1928 | |
1929 | |
1162 | 1930 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1931 const DicomTag& tag, | |
1932 const std::string& value) | |
521 | 1933 { |
1934 result.clear(); | |
1935 | |
1936 boost::mutex::scoped_lock lock(mutex_); | |
1937 | |
1938 std::list<int64_t> id; | |
1247 | 1939 db_.LookupIdentifier(id, tag, value); |
521 | 1940 |
1941 for (std::list<int64_t>::const_iterator | |
656 | 1942 it = id.begin(); it != id.end(); ++it) |
521 | 1943 { |
1247 | 1944 result.push_back(db_.GetPublicId(*it)); |
521 | 1945 } |
1946 } | |
1947 | |
1948 | |
1162 | 1949 void ServerIndex::LookupIdentifier(std::list< std::pair<ResourceType, std::string> >& result, |
1950 const std::string& value) | |
521 | 1951 { |
1952 result.clear(); | |
1953 | |
1954 boost::mutex::scoped_lock lock(mutex_); | |
1955 | |
1956 std::list<int64_t> id; | |
1247 | 1957 db_.LookupIdentifier(id, value); |
521 | 1958 |
1959 for (std::list<int64_t>::const_iterator | |
656 | 1960 it = id.begin(); it != id.end(); ++it) |
521 | 1961 { |
1247 | 1962 result.push_back(std::make_pair(db_.GetResourceType(*it), |
1963 db_.GetPublicId(*it))); | |
521 | 1964 } |
1965 } | |
699
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1966 |
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1967 |
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1968 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1969 const std::string& publicId) |
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1970 { |
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1971 boost::mutex::scoped_lock lock(mutex_); |
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1972 |
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1973 Transaction t(*this); |
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1974 |
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1975 ResourceType resourceType; |
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1976 int64_t resourceId; |
1294 | 1977 if (!db_.LookupResource(resourceId, resourceType, publicId)) |
699
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1978 { |
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1979 return StoreStatus_Failure; // Inexistent resource |
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1980 } |
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1981 |
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1982 // Remove possible previous attachment |
1247 | 1983 db_.DeleteAttachment(resourceId, attachment.GetContentType()); |
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1984 |
704
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1985 // Locate the patient of the target resource |
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1986 int64_t patientId = resourceId; |
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1987 for (;;) |
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1988 { |
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1989 int64_t parent; |
1247 | 1990 if (db_.LookupParent(parent, patientId)) |
704
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1991 { |
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1992 // We have not reached the patient level yet |
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1993 patientId = parent; |
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1994 } |
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1995 else |
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1996 { |
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1997 // We have reached the patient level |
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1998 break; |
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1999 } |
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2000 } |
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2001 |
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2002 // Possibly apply the recycling mechanism while preserving this patient |
1247 | 2003 assert(db_.GetResourceType(patientId) == ResourceType_Patient); |
2004 Recycle(attachment.GetCompressedSize(), db_.GetPublicId(patientId)); | |
704
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2005 |
1247 | 2006 db_.AddAttachment(resourceId, attachment); |
699
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2007 |
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2008 t.Commit(attachment.GetCompressedSize()); |
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2009 |
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2010 return StoreStatus_Success; |
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2011 } |
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2012 |
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2013 |
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2014 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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2015 FileContentType type) |
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2016 { |
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2017 boost::mutex::scoped_lock lock(mutex_); |
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2018 Transaction t(*this); |
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2019 |
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2020 ResourceType rtype; |
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2021 int64_t id; |
1294 | 2022 if (!db_.LookupResource(id, rtype, publicId)) |
702
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2023 { |
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2024 throw OrthancException(ErrorCode_UnknownResource); |
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2025 } |
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2026 |
1247 | 2027 db_.DeleteAttachment(id, type); |
702
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2028 |
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2029 t.Commit(0); |
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2030 } |
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2031 |
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2032 |
1002
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2033 bool ServerIndex::GetMetadata(Json::Value& target, |
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2034 const std::string& publicId) |
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2035 { |
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2036 boost::mutex::scoped_lock lock(mutex_); |
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2037 |
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2038 target = Json::objectValue; |
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2039 |
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2040 ResourceType type; |
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2041 int64_t id; |
1294 | 2042 if (!db_.LookupResource(id, type, publicId)) |
1002
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2043 { |
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2044 return false; |
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2045 } |
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2046 |
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2047 std::list<MetadataType> metadata; |
1247 | 2048 db_.ListAvailableMetadata(metadata, id); |
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2049 |
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2050 for (std::list<MetadataType>::const_iterator |
1304 | 2051 it = metadata.begin(); it != metadata.end(); ++it) |
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2052 { |
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2053 std::string key = EnumerationToString(*it); |
1238 | 2054 |
2055 std::string value; | |
1247 | 2056 if (!db_.LookupMetadata(value, id, *it)) |
1238 | 2057 { |
2058 value.clear(); | |
2059 } | |
2060 | |
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2061 target[key] = value; |
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2062 } |
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2063 |
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2064 return true; |
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2065 } |
1218
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2066 |
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2067 |
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2068 void ServerIndex::SetGlobalProperty(GlobalProperty property, |
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2069 const std::string& value) |
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2070 { |
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2071 boost::mutex::scoped_lock lock(mutex_); |
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2072 db_.SetGlobalProperty(property, value); |
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2073 } |
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2074 |
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2075 |
1218
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2076 std::string ServerIndex::GetGlobalProperty(GlobalProperty property, |
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2077 const std::string& defaultValue) |
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2078 { |
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2079 boost::mutex::scoped_lock lock(mutex_); |
1239 | 2080 |
2081 std::string value; | |
1247 | 2082 if (db_.LookupGlobalProperty(value, property)) |
1239 | 2083 { |
2084 return value; | |
2085 } | |
2086 else | |
2087 { | |
2088 return defaultValue; | |
2089 } | |
1218
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2090 } |
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2091 |
1352 | 2092 |
2093 bool ServerIndex::GetMainDicomTags(DicomMap& result, | |
2094 const std::string& publicId, | |
2095 ResourceType expectedType) | |
2096 { | |
2097 result.Clear(); | |
2098 | |
2099 boost::mutex::scoped_lock lock(mutex_); | |
2100 | |
2101 // Lookup for the requested resource | |
2102 int64_t id; | |
2103 ResourceType type; | |
2104 if (!db_.LookupResource(id, type, publicId) || | |
2105 type != expectedType) | |
2106 { | |
2107 return false; | |
2108 } | |
2109 else | |
2110 { | |
2111 db_.GetMainDicomTags(result, id); | |
2112 return true; | |
2113 } | |
2114 } | |
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2115 |
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2116 |
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2117 bool ServerIndex::LookupResourceType(ResourceType& type, |
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2118 const std::string& publicId) |
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2119 { |
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2120 boost::mutex::scoped_lock lock(mutex_); |
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2121 |
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2122 int64_t id; |
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2123 return db_.LookupResource(id, type, publicId); |
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2124 } |
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2125 |
1668
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2126 |
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2127 unsigned int ServerIndex::GetDatabaseVersion() |
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2128 { |
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2129 boost::mutex::scoped_lock lock(mutex_); |
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2130 return db_.GetDatabaseVersion(); |
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2131 } |
0 | 2132 } |