Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 1716:2ca7888f8600 db-changes
refactoring DicomIdentifiers
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Sat, 17 Oct 2015 12:16:27 +0200 |
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children | 3926e6317a43 |
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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127 |
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128 void CommitFilesToRemove() |
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129 { |
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130 for (std::list<FileToRemove>::const_iterator |
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131 it = pendingFilesToRemove_.begin(); |
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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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137 |
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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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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 |
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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); |
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); |
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); |
432 | 690 } |
691 | |
692 // Create the patient if needed | |
693 if (isNewPatient) | |
694 { | |
1299 | 695 patient = CreateResource(hasher.HashPatient(), ResourceType_Patient); |
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696 Toolbox::SetMainDicomTags(db_, patient, ResourceType_Patient, dicomSummary); |
432 | 697 } |
202 | 698 |
432 | 699 // Create the parent-to-child links |
1247 | 700 db_.AttachChild(series, instance); |
432 | 701 |
702 if (isNewSeries) | |
703 { | |
1247 | 704 db_.AttachChild(study, series); |
0 | 705 } |
432 | 706 |
707 if (isNewStudy) | |
0 | 708 { |
1247 | 709 db_.AttachChild(patient, study); |
0 | 710 } |
711 | |
432 | 712 // Sanity checks |
713 assert(patient != -1); | |
714 assert(study != -1); | |
715 assert(series != -1); | |
716 assert(instance != -1); | |
717 | |
202 | 718 // Attach the files to the newly created instance |
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719 for (Attachments::const_iterator it = attachments.begin(); |
656 | 720 it != attachments.end(); ++it) |
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721 { |
1247 | 722 db_.AddAttachment(instance, *it); |
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723 } |
202 | 724 |
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725 // Attach the user-specified metadata |
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726 for (MetadataMap::const_iterator |
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727 it = metadata.begin(); it != metadata.end(); ++it) |
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728 { |
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729 switch (it->first.first) |
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730 { |
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731 case ResourceType_Patient: |
1247 | 732 db_.SetMetadata(patient, it->first.second, it->second); |
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733 break; |
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734 |
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735 case ResourceType_Study: |
1247 | 736 db_.SetMetadata(study, it->first.second, it->second); |
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737 break; |
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738 |
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739 case ResourceType_Series: |
1247 | 740 db_.SetMetadata(series, it->first.second, it->second); |
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741 break; |
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742 |
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743 case ResourceType_Instance: |
1247 | 744 db_.SetMetadata(instance, it->first.second, it->second); |
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745 instanceMetadata[it->first.second] = it->second; |
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746 break; |
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747 |
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748 default: |
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749 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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750 } |
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751 } |
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752 |
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753 // Attach the auto-computed metadata for the patient/study/series levels |
432 | 754 std::string now = Toolbox::GetNowIsoString(); |
1247 | 755 db_.SetMetadata(series, MetadataType_LastUpdate, now); |
756 db_.SetMetadata(study, MetadataType_LastUpdate, now); | |
757 db_.SetMetadata(patient, MetadataType_LastUpdate, now); | |
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758 |
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759 // Attach the auto-computed metadata for the instance level, |
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760 // reflecting these additions into the input metadata map |
1247 | 761 db_.SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); |
1006
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762 instanceMetadata[MetadataType_Instance_ReceptionDate] = now; |
202 | 763 |
1247 | 764 db_.SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
1006
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765 instanceMetadata[MetadataType_Instance_RemoteAet] = remoteAet; |
1004
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766 |
202 | 767 const DicomValue* value; |
768 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
769 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 770 { |
1247 | 771 db_.SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
1006
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772 instanceMetadata[MetadataType_Instance_IndexInSeries] = value->AsString(); |
0 | 773 } |
774 | |
1004
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775 // Check whether the series of this new instance is now completed |
202 | 776 if (isNewSeries) |
777 { | |
1247 | 778 ComputeExpectedNumberOfInstances(db_, series, dicomSummary); |
202 | 779 } |
780 | |
205
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781 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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782 if (seriesStatus == SeriesStatus_Complete) |
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783 { |
1237 | 784 LogChange(series, ChangeType_CompletedSeries, ResourceType_Series, hasher.HashSeries()); |
205
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785 } |
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786 |
511
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787 // Mark the parent resources of this instance as unstable |
1177
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788 MarkAsUnstable(series, ResourceType_Series, hasher.HashSeries()); |
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|
789 MarkAsUnstable(study, ResourceType_Study, hasher.HashStudy()); |
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790 MarkAsUnstable(patient, ResourceType_Patient, hasher.HashPatient()); |
511
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791 |
278
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792 t.Commit(instanceSize); |
268
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793 |
0 | 794 return StoreStatus_Success; |
795 } | |
62 | 796 catch (OrthancException& e) |
0 | 797 { |
1247 | 798 LOG(ERROR) << "EXCEPTION [" << e.What() << "]"; |
0 | 799 } |
800 | |
801 return StoreStatus_Failure; | |
802 } | |
803 | |
804 | |
238 | 805 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 806 { |
206
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807 boost::mutex::scoped_lock lock(mutex_); |
238 | 808 target = Json::objectValue; |
0 | 809 |
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810 uint64_t cs = currentStorageSize_; |
1247 | 811 assert(cs == db_.GetTotalCompressedSize()); |
812 uint64_t us = db_.GetTotalUncompressedSize(); | |
440
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813 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 814 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
1310
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815 target["TotalDiskSizeMB"] = static_cast<unsigned int>(cs / MEGA_BYTES); |
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816 target["TotalUncompressedSizeMB"] = static_cast<unsigned int>(us / MEGA_BYTES); |
238 | 817 |
1247 | 818 target["CountPatients"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Patient)); |
819 target["CountStudies"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Study)); | |
820 target["CountSeries"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Series)); | |
821 target["CountInstances"] = static_cast<unsigned int>(db_.GetResourceCount(ResourceType_Instance)); | |
238 | 822 } |
823 | |
187
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824 |
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825 |
585 | 826 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 827 { |
828 // Get the expected number of instances in this series (from the metadata) | |
1238 | 829 int64_t expected; |
830 if (!GetMetadataAsInteger(expected, id, MetadataType_Series_ExpectedNumberOfInstances)) | |
199 | 831 { |
832 return SeriesStatus_Unknown; | |
833 } | |
834 | |
835 // Loop over the instances of this series | |
836 std::list<int64_t> children; | |
1247 | 837 db_.GetChildrenInternalId(children, id); |
199 | 838 |
1238 | 839 std::set<int64_t> instances; |
199 | 840 for (std::list<int64_t>::const_iterator |
656 | 841 it = children.begin(); it != children.end(); ++it) |
199 | 842 { |
843 // Get the index of this instance in the series | |
1238 | 844 int64_t index; |
845 if (!GetMetadataAsInteger(index, *it, MetadataType_Instance_IndexInSeries)) | |
199 | 846 { |
847 return SeriesStatus_Unknown; | |
848 } | |
849 | |
656 | 850 if (!(index > 0 && index <= expected)) |
199 | 851 { |
852 // Out-of-range instance index | |
853 return SeriesStatus_Inconsistent; | |
854 } | |
855 | |
856 if (instances.find(index) != instances.end()) | |
857 { | |
858 // Twice the same instance index | |
859 return SeriesStatus_Inconsistent; | |
860 } | |
861 | |
862 instances.insert(index); | |
863 } | |
864 | |
1238 | 865 if (static_cast<int64_t>(instances.size()) == expected) |
199 | 866 { |
867 return SeriesStatus_Complete; | |
868 } | |
869 else | |
870 { | |
871 return SeriesStatus_Missing; | |
872 } | |
873 } | |
874 | |
875 | |
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876 static std::string GetPatientIdOfStudy(IDatabaseWrapper& db, |
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877 int64_t resourceId) |
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878 { |
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879 int64_t patient; |
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880 if (!db.LookupParent(patient, resourceId)) |
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|
881 { |
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882 throw OrthancException(ErrorCode_InternalError); |
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883 } |
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884 |
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885 DicomMap tags; |
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changeset
|
886 db.GetMainDicomTags(tags, patient); |
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887 |
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888 if (tags.HasTag(DICOM_TAG_PATIENT_ID)) |
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889 { |
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|
890 return tags.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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891 } |
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892 else |
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893 { |
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894 return ""; |
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895 } |
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|
896 } |
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|
897 |
199 | 898 |
202 | 899 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
1668
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diff
changeset
|
900 int64_t resourceId, |
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901 ResourceType resourceType) |
198
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902 { |
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903 DicomMap tags; |
1247 | 904 db_.GetMainDicomTags(tags, resourceId); |
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|
905 |
f079f3efe33b
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|
906 if (resourceType == ResourceType_Study) |
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|
907 { |
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|
908 DicomMap t1, t2; |
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909 tags.ExtractStudyInformation(t1); |
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|
910 tags.ExtractPatientInformation(t2); |
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|
911 |
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|
912 target["MainDicomTags"] = Json::objectValue; |
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changeset
|
913 FromDcmtkBridge::ToJson(target["MainDicomTags"], t1, true); |
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914 |
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|
915 target["PatientMainDicomTags"] = Json::objectValue; |
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|
916 FromDcmtkBridge::ToJson(target["PatientMainDicomTags"], t2, true); |
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|
917 |
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918 target["PatientMainDicomTags"]["PatientID"] = GetPatientIdOfStudy(db_, resourceId); |
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|
919 } |
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|
920 else |
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|
921 { |
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|
922 target["MainDicomTags"] = Json::objectValue; |
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|
923 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags, true); |
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924 } |
198
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925 } |
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926 |
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927 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 928 const std::string& publicId, |
929 ResourceType expectedType) | |
198
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930 { |
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931 result = Json::objectValue; |
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932 |
206
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933 boost::mutex::scoped_lock lock(mutex_); |
199 | 934 |
198
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935 // Lookup for the requested resource |
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936 int64_t id; |
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937 ResourceType type; |
1294 | 938 if (!db_.LookupResource(id, type, publicId) || |
199 | 939 type != expectedType) |
198
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940 { |
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941 return false; |
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942 } |
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943 |
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944 // Find the parent resource (if it exists) |
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945 if (type != ResourceType_Patient) |
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946 { |
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947 int64_t parentId; |
1247 | 948 if (!db_.LookupParent(parentId, id)) |
198
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949 { |
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950 throw OrthancException(ErrorCode_InternalError); |
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951 } |
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952 |
1247 | 953 std::string parent = db_.GetPublicId(parentId); |
198
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954 |
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|
955 switch (type) |
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|
956 { |
269
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|
957 case ResourceType_Study: |
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958 result["ParentPatient"] = parent; |
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959 break; |
198
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960 |
269
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|
961 case ResourceType_Series: |
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962 result["ParentStudy"] = parent; |
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963 break; |
198
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|
964 |
269
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965 case ResourceType_Instance: |
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966 result["ParentSeries"] = parent; |
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967 break; |
198
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|
968 |
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|
969 default: |
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|
970 throw OrthancException(ErrorCode_InternalError); |
198
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|
971 } |
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|
972 } |
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|
973 |
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974 // List the children resources |
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|
975 std::list<std::string> children; |
1247 | 976 db_.GetChildrenPublicId(children, id); |
198
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|
977 |
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|
978 if (type != ResourceType_Instance) |
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|
979 { |
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diff
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|
980 Json::Value c = Json::arrayValue; |
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diff
changeset
|
981 |
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diff
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|
982 for (std::list<std::string>::const_iterator |
656 | 983 it = children.begin(); it != children.end(); ++it) |
198
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|
984 { |
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|
985 c.append(*it); |
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|
986 } |
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diff
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|
987 |
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diff
changeset
|
988 switch (type) |
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diff
changeset
|
989 { |
269
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diff
changeset
|
990 case ResourceType_Patient: |
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diff
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|
991 result["Studies"] = c; |
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diff
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|
992 break; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
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diff
changeset
|
993 |
269
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diff
changeset
|
994 case ResourceType_Study: |
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diff
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|
995 result["Series"] = c; |
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diff
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|
996 break; |
198
663cc6c46d0a
before refactoring of ServerIndex::GetXXX
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diff
changeset
|
997 |
269
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diff
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|
998 case ResourceType_Series: |
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diff
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|
999 result["Instances"] = c; |
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diff
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|
1000 break; |
198
663cc6c46d0a
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diff
changeset
|
1001 |
269
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diff
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|
1002 default: |
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|
1003 throw OrthancException(ErrorCode_InternalError); |
198
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|
1004 } |
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|
1005 } |
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|
1006 |
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|
1007 // Set the resource type |
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diff
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|
1008 switch (type) |
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|
1009 { |
269
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diff
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|
1010 case ResourceType_Patient: |
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diff
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|
1011 result["Type"] = "Patient"; |
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diff
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|
1012 break; |
198
663cc6c46d0a
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diff
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|
1013 |
269
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diff
changeset
|
1014 case ResourceType_Study: |
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diff
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|
1015 result["Type"] = "Study"; |
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diff
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|
1016 break; |
199 | 1017 |
269
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diff
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|
1018 case ResourceType_Series: |
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|
1019 { |
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diff
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|
1020 result["Type"] = "Series"; |
434
ccf3a0a43dac
EnumerationDictionary
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
433
diff
changeset
|
1021 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
663cc6c46d0a
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diff
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|
1022 |
1238 | 1023 int64_t i; |
1237 | 1024 if (GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
1238 | 1025 result["ExpectedNumberOfInstances"] = static_cast<int>(i); |
269
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diff
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|
1026 else |
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268
diff
changeset
|
1027 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
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199
diff
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|
1028 |
269
f6fdf5abe751
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diff
changeset
|
1029 break; |
200
9c58b2b03cf0
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parents:
199
diff
changeset
|
1030 } |
9c58b2b03cf0
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diff
changeset
|
1031 |
269
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diff
changeset
|
1032 case ResourceType_Instance: |
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diff
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|
1033 { |
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diff
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|
1034 result["Type"] = "Instance"; |
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diff
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|
1035 |
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268
diff
changeset
|
1036 FileInfo attachment; |
1247 | 1037 if (!db_.LookupAttachment(attachment, id, FileContentType_Dicom)) |
269
f6fdf5abe751
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|
1038 { |
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diff
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|
1039 throw OrthancException(ErrorCode_InternalError); |
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diff
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|
1040 } |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
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199
diff
changeset
|
1041 |
269
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268
diff
changeset
|
1042 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
f6fdf5abe751
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268
diff
changeset
|
1043 result["FileUuid"] = attachment.GetUuid(); |
200
9c58b2b03cf0
refactoring of read operations
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
199
diff
changeset
|
1044 |
1238 | 1045 int64_t i; |
1237 | 1046 if (GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
1238 | 1047 result["IndexInSeries"] = static_cast<int>(i); |
269
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diff
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|
1048 else |
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diff
changeset
|
1049 result["IndexInSeries"] = Json::nullValue; |
198
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|
1050 |
269
f6fdf5abe751
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diff
changeset
|
1051 break; |
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|
1052 } |
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diff
changeset
|
1053 |
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diff
changeset
|
1054 default: |
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diff
changeset
|
1055 throw OrthancException(ErrorCode_InternalError); |
198
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|
1056 } |
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|
1057 |
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|
1058 // Record the remaining information |
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diff
changeset
|
1059 result["ID"] = publicId; |
1668
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1060 MainDicomTagsToJson(result, id, type); |
198
663cc6c46d0a
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|
1061 |
315 | 1062 std::string tmp; |
1063 | |
1247 | 1064 if (db_.LookupMetadata(tmp, id, MetadataType_AnonymizedFrom)) |
1236 | 1065 { |
315 | 1066 result["AnonymizedFrom"] = tmp; |
1236 | 1067 } |
315 | 1068 |
1247 | 1069 if (db_.LookupMetadata(tmp, id, MetadataType_ModifiedFrom)) |
1236 | 1070 { |
315 | 1071 result["ModifiedFrom"] = tmp; |
1236 | 1072 } |
315 | 1073 |
511
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1074 if (type == ResourceType_Patient || |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1075 type == ResourceType_Study || |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1076 type == ResourceType_Series) |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1077 { |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1078 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
|
1079 |
1247 | 1080 if (db_.LookupMetadata(tmp, id, MetadataType_LastUpdate)) |
1236 | 1081 { |
1148
ac36589f699e
LastUpdate metadata is now always returned for patients, studies and series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1139
diff
changeset
|
1082 result["LastUpdate"] = tmp; |
1236 | 1083 } |
511
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1084 } |
3b735fdf320b
monitoring of stable patients/studies/series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
440
diff
changeset
|
1085 |
198
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diff
changeset
|
1086 return true; |
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diff
changeset
|
1087 } |
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diff
changeset
|
1088 |
0 | 1089 |
232
5368bbe813cf
refactoring of attachments
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
231
diff
changeset
|
1090 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
5368bbe813cf
refactoring of attachments
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parents:
231
diff
changeset
|
1091 const std::string& instanceUuid, |
233 | 1092 FileContentType contentType) |
0 | 1093 { |
206
4453a010d0db
flush to disk thread
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
205
diff
changeset
|
1094 boost::mutex::scoped_lock lock(mutex_); |
0 | 1095 |
193
a1b9d1e1497b
failed attempt to compile with linux standard base
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
192
diff
changeset
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1096 int64_t id; |
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1097 ResourceType type; |
1294 | 1098 if (!db_.LookupResource(id, type, instanceUuid)) |
192
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1099 { |
1113
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1100 throw OrthancException(ErrorCode_UnknownResource); |
192
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1101 } |
193
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1102 |
1247 | 1103 if (db_.LookupAttachment(attachment, id, contentType)) |
232
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1104 { |
233 | 1105 assert(attachment.GetContentType() == contentType); |
232
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1106 return true; |
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1107 } |
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1108 else |
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1109 { |
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1110 return false; |
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1111 } |
192
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1112 } |
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1113 |
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1114 |
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1115 |
1354 | 1116 void ServerIndex::GetAllUuids(std::list<std::string>& target, |
190 | 1117 ResourceType resourceType) |
0 | 1118 { |
1357 | 1119 boost::mutex::scoped_lock lock(mutex_); |
1120 db_.GetAllPublicIds(target, resourceType); | |
0 | 1121 } |
1122 | |
1123 | |
1509
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1124 void ServerIndex::GetAllUuids(std::list<std::string>& target, |
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1125 ResourceType resourceType, |
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1126 size_t since, |
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1127 size_t limit) |
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1128 { |
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1129 if (limit == 0) |
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1130 { |
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1131 target.clear(); |
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1132 return; |
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1133 } |
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1134 |
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1135 boost::mutex::scoped_lock lock(mutex_); |
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1136 db_.GetAllPublicIds(target, resourceType, since, limit); |
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1137 } |
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1138 |
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1139 |
1244 | 1140 template <typename T> |
1141 static void FormatLog(Json::Value& target, | |
1142 const std::list<T>& log, | |
1143 const std::string& name, | |
1144 bool done, | |
1145 int64_t since) | |
1240 | 1146 { |
1147 Json::Value items = Json::arrayValue; | |
1244 | 1148 for (typename std::list<T>::const_iterator |
1304 | 1149 it = log.begin(); it != log.end(); ++it) |
1240 | 1150 { |
1151 Json::Value item; | |
1152 it->Format(item); | |
1153 items.append(item); | |
1154 } | |
1155 | |
1156 target = Json::objectValue; | |
1244 | 1157 target[name] = items; |
1240 | 1158 target["Done"] = done; |
1159 | |
1305 | 1160 int64_t last = (log.empty() ? since : log.back().GetSeq()); |
1240 | 1161 target["Last"] = static_cast<int>(last); |
1162 } | |
1163 | |
1164 | |
1247 | 1165 void ServerIndex::GetChanges(Json::Value& target, |
204 | 1166 int64_t since, |
0 | 1167 unsigned int maxResults) |
1168 { | |
1240 | 1169 std::list<ServerIndexChange> changes; |
1170 bool done; | |
1171 | |
1172 { | |
1173 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1174 db_.GetChanges(changes, done, since, maxResults); |
1240 | 1175 } |
1176 | |
1244 | 1177 FormatLog(target, changes, "Changes", done, since); |
237
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1178 } |
0 | 1179 |
1240 | 1180 |
1247 | 1181 void ServerIndex::GetLastChange(Json::Value& target) |
237
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1182 { |
1240 | 1183 std::list<ServerIndexChange> changes; |
1184 | |
1185 { | |
1186 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1187 db_.GetLastChange(changes); |
1240 | 1188 } |
1189 | |
1244 | 1190 FormatLog(target, changes, "Changes", true, 0); |
0 | 1191 } |
231 | 1192 |
1240 | 1193 |
231 | 1194 void ServerIndex::LogExportedResource(const std::string& publicId, |
1195 const std::string& remoteModality) | |
1196 { | |
1197 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1198 Transaction transaction(*this); |
231 | 1199 |
1200 int64_t id; | |
1201 ResourceType type; | |
1294 | 1202 if (!db_.LookupResource(id, type, publicId)) |
231 | 1203 { |
1204 throw OrthancException(ErrorCode_InternalError); | |
1205 } | |
1206 | |
1207 std::string patientId; | |
1208 std::string studyInstanceUid; | |
1209 std::string seriesInstanceUid; | |
1210 std::string sopInstanceUid; | |
1211 | |
1212 int64_t currentId = id; | |
1213 ResourceType currentType = type; | |
1214 | |
1215 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1216 bool done = false; | |
1217 while (!done) | |
1218 { | |
1219 DicomMap map; | |
1247 | 1220 db_.GetMainDicomTags(map, currentId); |
231 | 1221 |
1222 switch (currentType) | |
1223 { | |
269
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1224 case ResourceType_Patient: |
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1225 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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1226 done = true; |
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1227 break; |
231 | 1228 |
269
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1229 case ResourceType_Study: |
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1230 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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1231 currentType = ResourceType_Patient; |
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1232 break; |
231 | 1233 |
269
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1234 case ResourceType_Series: |
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1235 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
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1236 currentType = ResourceType_Study; |
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1237 break; |
231 | 1238 |
269
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1239 case ResourceType_Instance: |
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1240 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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1241 currentType = ResourceType_Series; |
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1242 break; |
231 | 1243 |
269
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1244 default: |
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1245 throw OrthancException(ErrorCode_InternalError); |
231 | 1246 } |
1247 | |
1248 // If we have not reached the Patient level, find the parent of | |
1249 // the current resource | |
1250 if (!done) | |
1251 { | |
1247 | 1252 bool ok = db_.LookupParent(currentId, currentId); |
375
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1253 assert(ok); |
231 | 1254 } |
1255 } | |
1256 | |
1246 | 1257 ExportedResource resource(-1, |
1258 type, | |
1259 publicId, | |
1260 remoteModality, | |
1261 Toolbox::GetNowIsoString(), | |
1262 patientId, | |
1263 studyInstanceUid, | |
1264 seriesInstanceUid, | |
1265 sopInstanceUid); | |
1310
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1266 |
1247 | 1267 db_.LogExportedResource(resource); |
1310
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|
1268 transaction.Commit(0); |
231 | 1269 } |
1270 | |
1271 | |
1247 | 1272 void ServerIndex::GetExportedResources(Json::Value& target, |
231 | 1273 int64_t since, |
1274 unsigned int maxResults) | |
1275 { | |
1244 | 1276 std::list<ExportedResource> exported; |
1277 bool done; | |
1278 | |
1279 { | |
1280 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1281 db_.GetExportedResources(exported, done, since, maxResults); |
1244 | 1282 } |
1283 | |
1284 FormatLog(target, exported, "Exports", done, since); | |
231 | 1285 } |
237
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1286 |
1244 | 1287 |
1247 | 1288 void ServerIndex::GetLastExportedResource(Json::Value& target) |
237
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1289 { |
1244 | 1290 std::list<ExportedResource> exported; |
1291 | |
1292 { | |
1293 boost::mutex::scoped_lock lock(mutex_); | |
1247 | 1294 db_.GetLastExportedResource(exported); |
1244 | 1295 } |
1296 | |
1297 FormatLog(target, exported, "Exports", true, 0); | |
237
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1298 } |
268
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1299 |
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1300 |
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1301 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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1302 { |
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1303 if (maximumStorageSize_ != 0) |
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1304 { |
278
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1305 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
1247 | 1306 assert(db_.GetTotalCompressedSize() == currentSize); |
278
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1307 |
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1308 if (currentSize + instanceSize > maximumStorageSize_) |
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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 if (maximumPatients_ != 0) |
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1315 { |
1247 | 1316 uint64_t patientCount = db_.GetResourceCount(ResourceType_Patient); |
269
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1317 if (patientCount > maximumPatients_) |
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1318 { |
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1319 return true; |
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1320 } |
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1321 } |
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1322 |
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1323 return false; |
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1324 } |
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1325 |
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1326 |
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1327 void ServerIndex::Recycle(uint64_t instanceSize, |
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1328 const std::string& newPatientId) |
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1329 { |
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1330 if (!IsRecyclingNeeded(instanceSize)) |
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1331 { |
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1332 return; |
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1333 } |
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1334 |
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1335 // Check whether other DICOM instances from this patient are |
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1336 // already stored |
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1337 int64_t patientToAvoid; |
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1338 ResourceType type; |
1294 | 1339 bool hasPatientToAvoid = db_.LookupResource(patientToAvoid, type, newPatientId); |
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1340 |
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1341 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1342 { |
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1343 throw OrthancException(ErrorCode_InternalError); |
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1344 } |
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1345 |
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1346 // Iteratively select patient to remove until there is enough |
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1347 // space in the DICOM store |
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1348 int64_t patientToRecycle; |
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1349 while (true) |
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1350 { |
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1351 // If other instances of this patient are already in the store, |
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1352 // we must avoid to recycle them |
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1353 bool ok = hasPatientToAvoid ? |
1247 | 1354 db_.SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
1355 db_.SelectPatientToRecycle(patientToRecycle); | |
269
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1356 |
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1357 if (!ok) |
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1358 { |
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1359 throw OrthancException(ErrorCode_FullStorage); |
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1360 } |
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1361 |
1331
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1362 VLOG(1) << "Recycling one patient"; |
1247 | 1363 db_.DeleteResource(patientToRecycle); |
269
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1364 |
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1365 if (!IsRecyclingNeeded(instanceSize)) |
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1366 { |
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1367 // OK, we're done |
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1368 break; |
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1369 } |
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1370 } |
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1371 } |
269
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1372 |
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1373 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1374 { |
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1375 boost::mutex::scoped_lock lock(mutex_); |
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1376 maximumPatients_ = count; |
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1377 |
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1378 if (count == 0) |
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1379 { |
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1380 LOG(WARNING) << "No limit on the number of stored patients"; |
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1381 } |
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1382 else |
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1383 { |
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1384 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1385 } |
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1386 |
269
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1387 StandaloneRecycling(); |
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1388 } |
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1389 |
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1390 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1391 { |
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1392 boost::mutex::scoped_lock lock(mutex_); |
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1393 maximumStorageSize_ = size; |
270
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1394 |
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1395 if (size == 0) |
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1396 { |
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1397 LOG(WARNING) << "No limit on the size of the storage area"; |
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1398 } |
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1399 else |
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1400 { |
440
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1401 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
270
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1402 } |
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1403 |
269
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1404 StandaloneRecycling(); |
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1405 } |
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1406 |
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1407 void ServerIndex::StandaloneRecycling() |
269
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1408 { |
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1409 // WARNING: No mutex here, do not include this as a public method |
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1410 Transaction t(*this); |
269
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1411 Recycle(0, ""); |
278
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1412 t.Commit(0); |
269
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1413 } |
272
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1414 |
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1415 |
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1416 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1417 { |
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1418 boost::mutex::scoped_lock lock(mutex_); |
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1419 |
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1420 // Lookup for the requested resource |
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1421 int64_t id; |
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1422 ResourceType type; |
1294 | 1423 if (!db_.LookupResource(id, type, publicId) || |
272
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1424 type != ResourceType_Patient) |
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1425 { |
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1426 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1427 } |
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1428 |
1247 | 1429 return db_.IsProtectedPatient(id); |
272
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1430 } |
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1431 |
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1432 |
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1433 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1434 bool isProtected) |
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1435 { |
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1436 boost::mutex::scoped_lock lock(mutex_); |
1310
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1437 Transaction transaction(*this); |
272
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1438 |
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1439 // Lookup for the requested resource |
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1440 int64_t id; |
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1441 ResourceType type; |
1294 | 1442 if (!db_.LookupResource(id, type, publicId) || |
272
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1443 type != ResourceType_Patient) |
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1444 { |
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1445 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1446 } |
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1447 |
1247 | 1448 db_.SetProtectedPatient(id, isProtected); |
1310
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1449 transaction.Commit(0); |
272
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1450 |
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1451 if (isProtected) |
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1452 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1453 else |
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1454 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1455 } |
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1456 |
304 | 1457 |
714
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1458 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1459 const std::string& publicId) |
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1460 { |
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1461 result.clear(); |
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1462 |
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|
1463 boost::mutex::scoped_lock lock(mutex_); |
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1464 |
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1465 ResourceType type; |
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1466 int64_t resource; |
1294 | 1467 if (!db_.LookupResource(resource, type, publicId)) |
714
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1468 { |
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1469 throw OrthancException(ErrorCode_UnknownResource); |
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1470 } |
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1471 |
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1472 if (type == ResourceType_Instance) |
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1473 { |
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1474 // An instance cannot have a child |
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1475 throw OrthancException(ErrorCode_BadParameterType); |
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1476 } |
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1477 |
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1478 std::list<int64_t> tmp; |
1247 | 1479 db_.GetChildrenInternalId(tmp, resource); |
714
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1480 |
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1481 for (std::list<int64_t>::const_iterator |
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1482 it = tmp.begin(); it != tmp.end(); ++it) |
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1483 { |
1247 | 1484 result.push_back(db_.GetPublicId(*it)); |
714
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1485 } |
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1486 } |
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1487 |
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1488 |
304 | 1489 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1490 const std::string& publicId) | |
1491 { | |
1492 result.clear(); | |
1493 | |
1494 boost::mutex::scoped_lock lock(mutex_); | |
1495 | |
1496 ResourceType type; | |
1497 int64_t top; | |
1294 | 1498 if (!db_.LookupResource(top, type, publicId)) |
304 | 1499 { |
1500 throw OrthancException(ErrorCode_UnknownResource); | |
1501 } | |
1502 | |
1503 if (type == ResourceType_Instance) | |
1504 { | |
1505 // The resource is already an instance: Do not go down the hierarchy | |
1506 result.push_back(publicId); | |
1507 return; | |
1508 } | |
1509 | |
1510 std::stack<int64_t> toExplore; | |
1511 toExplore.push(top); | |
1512 | |
1513 std::list<int64_t> tmp; | |
1514 | |
1515 while (!toExplore.empty()) | |
1516 { | |
1517 // Get the internal ID of the current resource | |
1518 int64_t resource = toExplore.top(); | |
1519 toExplore.pop(); | |
1520 | |
1247 | 1521 if (db_.GetResourceType(resource) == ResourceType_Instance) |
304 | 1522 { |
1247 | 1523 result.push_back(db_.GetPublicId(resource)); |
304 | 1524 } |
1525 else | |
1526 { | |
1527 // Tag all the children of this resource as to be explored | |
1247 | 1528 db_.GetChildrenInternalId(tmp, resource); |
304 | 1529 for (std::list<int64_t>::const_iterator |
656 | 1530 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1531 { |
1532 toExplore.push(*it); | |
1533 } | |
1534 } | |
1535 } | |
1536 } | |
1537 | |
306
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1538 |
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1539 void ServerIndex::SetMetadata(const std::string& publicId, |
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1540 MetadataType type, |
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1541 const std::string& value) |
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1542 { |
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1543 boost::mutex::scoped_lock lock(mutex_); |
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1544 |
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1545 ResourceType rtype; |
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1546 int64_t id; |
1294 | 1547 if (!db_.LookupResource(id, rtype, publicId)) |
306
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1548 { |
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1549 throw OrthancException(ErrorCode_UnknownResource); |
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1550 } |
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1551 |
1247 | 1552 db_.SetMetadata(id, type, value); |
306
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1553 } |
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1554 |
438 | 1555 |
1556 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1557 MetadataType type) | |
1558 { | |
1559 boost::mutex::scoped_lock lock(mutex_); | |
1560 | |
1561 ResourceType rtype; | |
1562 int64_t id; | |
1294 | 1563 if (!db_.LookupResource(id, rtype, publicId)) |
438 | 1564 { |
1565 throw OrthancException(ErrorCode_UnknownResource); | |
1566 } | |
1567 | |
1247 | 1568 db_.DeleteMetadata(id, type); |
438 | 1569 } |
1570 | |
1571 | |
306
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1572 bool ServerIndex::LookupMetadata(std::string& target, |
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1573 const std::string& publicId, |
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1574 MetadataType type) |
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1575 { |
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1576 boost::mutex::scoped_lock lock(mutex_); |
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1577 |
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1578 ResourceType rtype; |
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1579 int64_t id; |
1294 | 1580 if (!db_.LookupResource(id, rtype, publicId)) |
306
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1581 { |
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1582 throw OrthancException(ErrorCode_UnknownResource); |
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1583 } |
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1584 |
1247 | 1585 return db_.LookupMetadata(target, id, type); |
306
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1586 } |
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1587 |
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1588 |
739 | 1589 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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1590 const std::string& publicId) |
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|
1591 { |
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1592 boost::mutex::scoped_lock lock(mutex_); |
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1593 |
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1594 ResourceType rtype; |
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|
1595 int64_t id; |
1294 | 1596 if (!db_.LookupResource(id, rtype, publicId)) |
436
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1597 { |
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1598 throw OrthancException(ErrorCode_UnknownResource); |
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|
1599 } |
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1600 |
1247 | 1601 db_.ListAvailableMetadata(target, id); |
436
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1602 } |
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1603 |
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1604 |
697
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1605 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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1606 const std::string& publicId, |
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1607 ResourceType expectedType) |
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1608 { |
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|
1609 boost::mutex::scoped_lock lock(mutex_); |
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1610 |
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1611 ResourceType type; |
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1612 int64_t id; |
1294 | 1613 if (!db_.LookupResource(id, type, publicId) || |
697
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1614 expectedType != type) |
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1615 { |
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1616 throw OrthancException(ErrorCode_UnknownResource); |
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1617 } |
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1618 |
1247 | 1619 db_.ListAvailableAttachments(target, id); |
697
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1620 } |
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1621 |
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1622 |
306
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1623 bool ServerIndex::LookupParent(std::string& target, |
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1624 const std::string& publicId) |
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1625 { |
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1626 boost::mutex::scoped_lock lock(mutex_); |
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1627 |
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1628 ResourceType type; |
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1629 int64_t id; |
1294 | 1630 if (!db_.LookupResource(id, type, publicId)) |
306
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1631 { |
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1632 throw OrthancException(ErrorCode_UnknownResource); |
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1633 } |
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1634 |
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1635 int64_t parentId; |
1247 | 1636 if (db_.LookupParent(parentId, id)) |
306
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1637 { |
1247 | 1638 target = db_.GetPublicId(parentId); |
306
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1639 return true; |
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1640 } |
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1641 else |
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1642 { |
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1643 return false; |
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1644 } |
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1645 } |
310 | 1646 |
1647 | |
1648 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1649 { | |
1650 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1651 Transaction transaction(*this); |
311 | 1652 |
1237 | 1653 uint64_t seq = IncrementGlobalSequenceInternal(sequence); |
1310
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1654 transaction.Commit(0); |
311 | 1655 |
1656 return seq; | |
310 | 1657 } |
315 | 1658 |
1659 | |
1660 | |
1661 void ServerIndex::LogChange(ChangeType changeType, | |
1662 const std::string& publicId) | |
1663 { | |
1664 boost::mutex::scoped_lock lock(mutex_); | |
1310
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1665 Transaction transaction(*this); |
315 | 1666 |
1667 int64_t id; | |
1668 ResourceType type; | |
1294 | 1669 if (!db_.LookupResource(id, type, publicId)) |
315 | 1670 { |
1671 throw OrthancException(ErrorCode_UnknownResource); | |
1672 } | |
1673 | |
1237 | 1674 LogChange(id, changeType, type, publicId); |
1310
61ce8147f30d
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|
1675 transaction.Commit(0); |
315 | 1676 } |
413
47d63c941902
clearing /exports and /changes
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diff
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|
1677 |
47d63c941902
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diff
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|
1678 |
47d63c941902
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diff
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|
1679 void ServerIndex::DeleteChanges() |
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diff
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|
1680 { |
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diff
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|
1681 boost::mutex::scoped_lock lock(mutex_); |
1286 | 1682 db_.ClearChanges(); |
413
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|
1683 } |
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diff
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|
1684 |
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|
1685 void ServerIndex::DeleteExportedResources() |
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|
1686 { |
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diff
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|
1687 boost::mutex::scoped_lock lock(mutex_); |
1286 | 1688 db_.ClearExportedResources(); |
413
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diff
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|
1689 } |
440
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diff
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|
1690 |
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|
1691 |
646 | 1692 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
1693 /* out */ uint64_t& uncompressedSize, | |
1694 /* out */ unsigned int& countStudies, | |
1695 /* out */ unsigned int& countSeries, | |
1696 /* out */ unsigned int& countInstances, | |
1697 /* in */ int64_t id, | |
1698 /* in */ ResourceType type) | |
440
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diff
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|
1699 { |
646 | 1700 std::stack<int64_t> toExplore; |
1701 toExplore.push(id); | |
440
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diff
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|
1702 |
646 | 1703 countInstances = 0; |
1704 countSeries = 0; | |
1705 countStudies = 0; | |
1706 compressedSize = 0; | |
1707 uncompressedSize = 0; | |
440
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|
1708 |
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|
1709 while (!toExplore.empty()) |
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|
1710 { |
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|
1711 // Get the internal ID of the current resource |
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1712 int64_t resource = toExplore.top(); |
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|
1713 toExplore.pop(); |
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|
1714 |
1247 | 1715 ResourceType thisType = db_.GetResourceType(resource); |
440
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|
1716 |
702
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|
1717 std::list<FileContentType> f; |
1247 | 1718 db_.ListAvailableAttachments(f, resource); |
702
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|
1719 |
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|
1720 for (std::list<FileContentType>::const_iterator |
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|
1721 it = f.begin(); it != f.end(); ++it) |
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diff
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|
1722 { |
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|
1723 FileInfo attachment; |
1247 | 1724 if (db_.LookupAttachment(attachment, resource, *it)) |
702
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|
1725 { |
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|
1726 compressedSize += attachment.GetCompressedSize(); |
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|
1727 uncompressedSize += attachment.GetUncompressedSize(); |
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|
1728 } |
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|
1729 } |
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|
1730 |
440
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|
1731 if (thisType == ResourceType_Instance) |
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|
1732 { |
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|
1733 countInstances++; |
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1734 } |
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|
1735 else |
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|
1736 { |
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diff
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|
1737 switch (thisType) |
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|
1738 { |
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|
1739 case ResourceType_Study: |
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1740 countStudies++; |
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1741 break; |
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|
1742 |
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|
1743 case ResourceType_Series: |
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1744 countSeries++; |
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diff
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|
1745 break; |
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diff
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|
1746 |
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diff
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|
1747 default: |
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diff
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|
1748 break; |
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diff
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|
1749 } |
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diff
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|
1750 |
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|
1751 // Tag all the children of this resource as to be explored |
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diff
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|
1752 std::list<int64_t> tmp; |
1247 | 1753 db_.GetChildrenInternalId(tmp, resource); |
440
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diff
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|
1754 for (std::list<int64_t>::const_iterator |
656 | 1755 it = tmp.begin(); it != tmp.end(); ++it) |
440
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diff
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|
1756 { |
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diff
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|
1757 toExplore.push(*it); |
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|
1758 } |
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diff
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|
1759 } |
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|
1760 } |
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|
1761 |
646 | 1762 if (countStudies == 0) |
1763 { | |
1764 countStudies = 1; | |
1765 } | |
1766 | |
1767 if (countSeries == 0) | |
1768 { | |
1769 countSeries = 1; | |
1770 } | |
1771 } | |
1772 | |
1773 | |
1774 | |
1775 void ServerIndex::GetStatistics(Json::Value& target, | |
1776 const std::string& publicId) | |
1777 { | |
1778 boost::mutex::scoped_lock lock(mutex_); | |
1779 | |
1780 ResourceType type; | |
1781 int64_t top; | |
1294 | 1782 if (!db_.LookupResource(top, type, publicId)) |
646 | 1783 { |
1784 throw OrthancException(ErrorCode_UnknownResource); | |
1785 } | |
1786 | |
1787 uint64_t uncompressedSize; | |
1788 uint64_t compressedSize; | |
1789 unsigned int countStudies; | |
1790 unsigned int countSeries; | |
1791 unsigned int countInstances; | |
1792 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1793 countSeries, countInstances, top, type); | |
1794 | |
440
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1795 target = Json::objectValue; |
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1796 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
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|
1797 target["DiskSizeMB"] = static_cast<unsigned int>(compressedSize / MEGA_BYTES); |
440
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1798 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
1310
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1799 target["UncompressedSizeMB"] = static_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
440
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|
1800 |
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|
1801 switch (type) |
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1802 { |
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1803 // Do NOT add "break" below this point! |
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1804 case ResourceType_Patient: |
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1805 target["CountStudies"] = countStudies; |
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1806 |
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1807 case ResourceType_Study: |
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1808 target["CountSeries"] = countSeries; |
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1809 |
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1810 case ResourceType_Series: |
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1811 target["CountInstances"] = countInstances; |
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1812 |
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1813 case ResourceType_Instance: |
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1814 default: |
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1815 break; |
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1816 } |
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1817 } |
511
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1818 |
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1819 |
646 | 1820 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
1821 /* out */ uint64_t& uncompressedSize, | |
1822 /* out */ unsigned int& countStudies, | |
1823 /* out */ unsigned int& countSeries, | |
1824 /* out */ unsigned int& countInstances, | |
1825 const std::string& publicId) | |
1826 { | |
1827 boost::mutex::scoped_lock lock(mutex_); | |
1828 | |
1829 ResourceType type; | |
1830 int64_t top; | |
1294 | 1831 if (!db_.LookupResource(top, type, publicId)) |
646 | 1832 { |
1833 throw OrthancException(ErrorCode_UnknownResource); | |
1834 } | |
1835 | |
1836 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1837 countSeries, countInstances, top, type); | |
1838 } | |
1839 | |
1840 | |
511
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1841 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
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1842 { |
810
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1843 int stableAge = Configuration::GetGlobalIntegerParameter("StableAge", 60); |
511
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1844 if (stableAge <= 0) |
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1845 { |
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1846 stableAge = 60; |
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1847 } |
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1848 |
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1849 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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1850 |
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1851 while (!that->done_) |
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1852 { |
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1853 // Check for stable resources each second |
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1854 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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1855 |
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1856 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 1857 |
511
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1858 while (!that->unstableResources_.IsEmpty() && |
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1859 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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1860 { |
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1861 // This DICOM resource has not received any new instance for |
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1862 // some time. It can be considered as stable. |
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1863 |
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1864 UnstableResourcePayload payload; |
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1865 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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1866 |
513 | 1867 // Ensure that the resource is still existing before logging the change |
1247 | 1868 if (that->db_.IsExistingResource(id)) |
511
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1869 { |
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1870 switch (payload.GetResourceType()) |
513 | 1871 { |
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1872 case ResourceType_Patient: |
1237 | 1873 that->LogChange(id, ChangeType_StablePatient, ResourceType_Patient, payload.GetPublicId()); |
513 | 1874 break; |
511
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1875 |
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1876 case ResourceType_Study: |
1237 | 1877 that->LogChange(id, ChangeType_StableStudy, ResourceType_Study, payload.GetPublicId()); |
513 | 1878 break; |
511
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1879 |
1177
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1880 case ResourceType_Series: |
1237 | 1881 that->LogChange(id, ChangeType_StableSeries, ResourceType_Series, payload.GetPublicId()); |
513 | 1882 break; |
1883 | |
1884 default: | |
1885 throw OrthancException(ErrorCode_InternalError); | |
1886 } | |
1887 | |
1888 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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1889 } |
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1890 } |
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1891 } |
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1892 |
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1893 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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1894 } |
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1895 |
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1896 |
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1897 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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1898 Orthanc::ResourceType type, |
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1899 const std::string& publicId) |
511
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1900 { |
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1901 // WARNING: Before calling this method, "mutex_" must be locked. |
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1902 |
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1903 assert(type == Orthanc::ResourceType_Patient || |
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1904 type == Orthanc::ResourceType_Study || |
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1905 type == Orthanc::ResourceType_Series); |
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1906 |
1177
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1907 UnstableResourcePayload payload(type, publicId); |
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1908 unstableResources_.AddOrMakeMostRecent(id, payload); |
511
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1909 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
1189
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1910 |
1237 | 1911 LogChange(id, ChangeType_NewChildInstance, type, publicId); |
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1912 } |
521 | 1913 |
1914 | |
1915 | |
1162 | 1916 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1917 const DicomTag& tag, | |
1918 const std::string& value, | |
1919 ResourceType type) | |
615 | 1920 { |
1921 result.clear(); | |
1922 | |
1923 boost::mutex::scoped_lock lock(mutex_); | |
1924 | |
1925 std::list<int64_t> id; | |
1247 | 1926 db_.LookupIdentifier(id, tag, value); |
615 | 1927 |
1928 for (std::list<int64_t>::const_iterator | |
656 | 1929 it = id.begin(); it != id.end(); ++it) |
615 | 1930 { |
1247 | 1931 if (db_.GetResourceType(*it) == type) |
615 | 1932 { |
1247 | 1933 result.push_back(db_.GetPublicId(*it)); |
615 | 1934 } |
1935 } | |
1936 } | |
1937 | |
1938 | |
1162 | 1939 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1940 const DicomTag& tag, | |
1941 const std::string& value) | |
521 | 1942 { |
1943 result.clear(); | |
1944 | |
1945 boost::mutex::scoped_lock lock(mutex_); | |
1946 | |
1947 std::list<int64_t> id; | |
1247 | 1948 db_.LookupIdentifier(id, tag, value); |
521 | 1949 |
1950 for (std::list<int64_t>::const_iterator | |
656 | 1951 it = id.begin(); it != id.end(); ++it) |
521 | 1952 { |
1247 | 1953 result.push_back(db_.GetPublicId(*it)); |
521 | 1954 } |
1955 } | |
1956 | |
1957 | |
1162 | 1958 void ServerIndex::LookupIdentifier(std::list< std::pair<ResourceType, std::string> >& result, |
1959 const std::string& value) | |
521 | 1960 { |
1961 result.clear(); | |
1962 | |
1963 boost::mutex::scoped_lock lock(mutex_); | |
1964 | |
1965 std::list<int64_t> id; | |
1247 | 1966 db_.LookupIdentifier(id, value); |
521 | 1967 |
1968 for (std::list<int64_t>::const_iterator | |
656 | 1969 it = id.begin(); it != id.end(); ++it) |
521 | 1970 { |
1247 | 1971 result.push_back(std::make_pair(db_.GetResourceType(*it), |
1972 db_.GetPublicId(*it))); | |
521 | 1973 } |
1974 } | |
699
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1975 |
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1976 |
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1977 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1978 const std::string& publicId) |
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1979 { |
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1980 boost::mutex::scoped_lock lock(mutex_); |
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1981 |
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1982 Transaction t(*this); |
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1983 |
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1984 ResourceType resourceType; |
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1985 int64_t resourceId; |
1294 | 1986 if (!db_.LookupResource(resourceId, resourceType, publicId)) |
699
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1987 { |
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1988 return StoreStatus_Failure; // Inexistent resource |
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1989 } |
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1990 |
704
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1991 // Remove possible previous attachment |
1247 | 1992 db_.DeleteAttachment(resourceId, attachment.GetContentType()); |
699
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1993 |
704
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1994 // Locate the patient of the target resource |
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1995 int64_t patientId = resourceId; |
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1996 for (;;) |
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1997 { |
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1998 int64_t parent; |
1247 | 1999 if (db_.LookupParent(parent, patientId)) |
704
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2000 { |
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2001 // We have not reached the patient level yet |
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2002 patientId = parent; |
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2003 } |
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2004 else |
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2005 { |
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2006 // We have reached the patient level |
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2007 break; |
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2008 } |
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2009 } |
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2010 |
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2011 // Possibly apply the recycling mechanism while preserving this patient |
1247 | 2012 assert(db_.GetResourceType(patientId) == ResourceType_Patient); |
2013 Recycle(attachment.GetCompressedSize(), db_.GetPublicId(patientId)); | |
704
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2014 |
1247 | 2015 db_.AddAttachment(resourceId, attachment); |
699
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2016 |
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2017 t.Commit(attachment.GetCompressedSize()); |
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2018 |
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2019 return StoreStatus_Success; |
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2020 } |
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2021 |
702
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2022 |
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2023 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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2024 FileContentType type) |
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2025 { |
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2026 boost::mutex::scoped_lock lock(mutex_); |
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2027 Transaction t(*this); |
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2028 |
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2029 ResourceType rtype; |
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2030 int64_t id; |
1294 | 2031 if (!db_.LookupResource(id, rtype, publicId)) |
702
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2032 { |
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2033 throw OrthancException(ErrorCode_UnknownResource); |
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2034 } |
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2035 |
1247 | 2036 db_.DeleteAttachment(id, type); |
702
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2037 |
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|
2038 t.Commit(0); |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2039 } |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2040 |
7592a48e97e4
delete custom attachment
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
701
diff
changeset
|
2041 |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2042 bool ServerIndex::GetMetadata(Json::Value& target, |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2043 const std::string& publicId) |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2044 { |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2045 boost::mutex::scoped_lock lock(mutex_); |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2046 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2047 target = Json::objectValue; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2048 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2049 ResourceType type; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2050 int64_t id; |
1294 | 2051 if (!db_.LookupResource(id, type, publicId)) |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2052 { |
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anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2053 return false; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2054 } |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2055 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2056 std::list<MetadataType> metadata; |
1247 | 2057 db_.ListAvailableMetadata(metadata, id); |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2058 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2059 for (std::list<MetadataType>::const_iterator |
1304 | 2060 it = metadata.begin(); it != metadata.end(); ++it) |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2061 { |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2062 std::string key = EnumerationToString(*it); |
1238 | 2063 |
2064 std::string value; | |
1247 | 2065 if (!db_.LookupMetadata(value, id, *it)) |
1238 | 2066 { |
2067 value.clear(); | |
2068 } | |
2069 | |
1002
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2070 target[key] = value; |
b067017a8a5b
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2071 } |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2072 |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2073 return true; |
b067017a8a5b
anonymization refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
831
diff
changeset
|
2074 } |
1218
efece308018e
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2075 |
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2076 |
1249
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2077 void ServerIndex::SetGlobalProperty(GlobalProperty property, |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2078 const std::string& value) |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2079 { |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2080 boost::mutex::scoped_lock lock(mutex_); |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2081 db_.SetGlobalProperty(property, value); |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2082 } |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2083 |
40725595aaf0
Plugins can get/set global properties to save their configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1247
diff
changeset
|
2084 |
1218
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2085 std::string ServerIndex::GetGlobalProperty(GlobalProperty property, |
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2086 const std::string& defaultValue) |
efece308018e
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2087 { |
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2088 boost::mutex::scoped_lock lock(mutex_); |
1239 | 2089 |
2090 std::string value; | |
1247 | 2091 if (db_.LookupGlobalProperty(value, property)) |
1239 | 2092 { |
2093 return value; | |
2094 } | |
2095 else | |
2096 { | |
2097 return defaultValue; | |
2098 } | |
1218
efece308018e
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2099 } |
efece308018e
report database version in /system
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1198
diff
changeset
|
2100 |
1352 | 2101 |
2102 bool ServerIndex::GetMainDicomTags(DicomMap& result, | |
2103 const std::string& publicId, | |
1677
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2104 ResourceType expectedType, |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2105 ResourceType levelOfInterest) |
1352 | 2106 { |
1677
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2107 // Yes, the following test could be shortened, but we wish to make it as clear as possible |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2108 if (!(expectedType == ResourceType_Patient && levelOfInterest == ResourceType_Patient) && |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2109 !(expectedType == ResourceType_Study && levelOfInterest == ResourceType_Patient) && |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2110 !(expectedType == ResourceType_Study && levelOfInterest == ResourceType_Study) && |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2111 !(expectedType == ResourceType_Series && levelOfInterest == ResourceType_Series) && |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2112 !(expectedType == ResourceType_Instance && levelOfInterest == ResourceType_Instance)) |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2113 { |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2114 throw OrthancException(ErrorCode_ParameterOutOfRange); |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2115 } |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2116 |
1352 | 2117 result.Clear(); |
2118 | |
2119 boost::mutex::scoped_lock lock(mutex_); | |
2120 | |
2121 // Lookup for the requested resource | |
2122 int64_t id; | |
2123 ResourceType type; | |
2124 if (!db_.LookupResource(id, type, publicId) || | |
2125 type != expectedType) | |
2126 { | |
2127 return false; | |
2128 } | |
1677
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2129 |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2130 if (type == ResourceType_Study) |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2131 { |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2132 DicomMap tmp; |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2133 db_.GetMainDicomTags(tmp, id); |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2134 |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2135 switch (levelOfInterest) |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2136 { |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2137 case ResourceType_Patient: |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2138 tmp.ExtractPatientInformation(result); |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2139 result.SetValue(DICOM_TAG_PATIENT_ID, GetPatientIdOfStudy(db_, id)); |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2140 return true; |
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adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2141 |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2142 case ResourceType_Study: |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2143 tmp.ExtractStudyInformation(result); |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2144 return true; |
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adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2145 |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2146 default: |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1676
diff
changeset
|
2147 throw OrthancException(ErrorCode_InternalError); |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2148 } |
a903d57d9f0c
adaptation of search with patient tags at study level
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2149 } |
1352 | 2150 else |
2151 { | |
2152 db_.GetMainDicomTags(result, id); | |
2153 return true; | |
2154 } | |
2155 } | |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2156 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
2157 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2158 bool ServerIndex::LookupResourceType(ResourceType& type, |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2159 const std::string& publicId) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2160 { |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2161 boost::mutex::scoped_lock lock(mutex_); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2162 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2163 int64_t id; |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2164 return db_.LookupResource(id, type, publicId); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2165 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1509
diff
changeset
|
2166 |
1668
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2167 |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2168 unsigned int ServerIndex::GetDatabaseVersion() |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2169 { |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2170 boost::mutex::scoped_lock lock(mutex_); |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2171 return db_.GetDatabaseVersion(); |
de1413733c97
reconstructing main dicom tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
2172 } |
0 | 2173 } |