Mercurial > hg > orthanc
annotate OrthancServer/ServerIndex.cpp @ 1189:6b9b02a16e99 db-changes
NewChildInstance change type
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Thu, 25 Sep 2014 17:02:28 +0200 |
parents | 5b2d8c280ac2 |
children | d49505e377e3 |
rev | line source |
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0 | 1 /** |
62 | 2 * Orthanc - A Lightweight, RESTful DICOM Store |
689 | 3 * Copyright (C) 2012-2014 Medical Physics Department, CHU of Liege, |
0 | 4 * Belgium |
5 * | |
6 * This program is free software: you can redistribute it and/or | |
7 * modify it under the terms of the GNU General Public License as | |
8 * published by the Free Software Foundation, either version 3 of the | |
9 * License, or (at your option) any later version. | |
136 | 10 * |
11 * In addition, as a special exception, the copyright holders of this | |
12 * program give permission to link the code of its release with the | |
13 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
14 * that use the same license as the "OpenSSL" library), and distribute | |
15 * the linked executables. You must obey the GNU General Public License | |
16 * in all respects for all of the code used other than "OpenSSL". If you | |
17 * modify file(s) with this exception, you may extend this exception to | |
18 * your version of the file(s), but you are not obligated to do so. If | |
19 * you do not wish to do so, delete this exception statement from your | |
20 * version. If you delete this exception statement from all source files | |
21 * in the program, then also delete it here. | |
0 | 22 * |
23 * This program is distributed in the hope that it will be useful, but | |
24 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
26 * General Public License for more details. | |
27 * | |
28 * You should have received a copy of the GNU General Public License | |
29 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
30 **/ | |
31 | |
32 | |
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33 #include "PrecompiledHeadersServer.h" |
0 | 34 #include "ServerIndex.h" |
35 | |
6 | 36 #ifndef NOMINMAX |
2 | 37 #define NOMINMAX |
6 | 38 #endif |
39 | |
8 | 40 #include "EmbeddedResources.h" |
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41 #include "OrthancInitialization.h" |
0 | 42 #include "../Core/Toolbox.h" |
43 #include "../Core/Uuid.h" | |
44 #include "../Core/DicomFormat/DicomArray.h" | |
45 #include "../Core/SQLite/Transaction.h" | |
46 #include "FromDcmtkBridge.h" | |
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47 #include "ServerContext.h" |
0 | 48 |
49 #include <boost/lexical_cast.hpp> | |
50 #include <stdio.h> | |
108 | 51 #include <glog/logging.h> |
0 | 52 |
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53 static const uint64_t MEGA_BYTES = 1024 * 1024; |
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54 |
62 | 55 namespace Orthanc |
0 | 56 { |
57 namespace Internals | |
58 { | |
202 | 59 class ServerIndexListener : public IServerIndexListener |
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60 { |
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61 private: |
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62 struct FileToRemove |
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63 { |
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64 private: |
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65 std::string uuid_; |
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66 FileContentType type_; |
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67 |
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68 public: |
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69 FileToRemove(const FileInfo& info) : uuid_(info.GetUuid()), |
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70 type_(info.GetContentType()) |
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71 { |
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72 } |
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73 |
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74 const std::string& GetUuid() const |
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75 { |
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76 return uuid_; |
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77 } |
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78 |
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79 FileContentType GetContentType() const |
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80 { |
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81 return type_; |
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82 } |
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83 }; |
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84 |
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85 struct Change |
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86 { |
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87 private: |
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88 ChangeType changeType_; |
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89 ResourceType resourceType_; |
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90 std::string publicId_; |
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91 |
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92 public: |
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93 Change(ChangeType changeType, |
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94 ResourceType resourceType, |
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95 const std::string& publicId) : |
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96 changeType_(changeType), |
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97 resourceType_(resourceType), |
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98 publicId_(publicId) |
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99 { |
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100 } |
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101 |
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102 ChangeType GetChangeType() const |
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103 { |
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104 return changeType_; |
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105 } |
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106 |
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107 ResourceType GetResourceType() const |
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108 { |
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109 return resourceType_; |
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110 } |
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111 |
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112 const std::string& GetPublicId() const |
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113 { |
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114 return publicId_; |
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115 } |
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116 }; |
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117 |
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118 ServerContext& context_; |
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119 bool hasRemainingLevel_; |
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120 ResourceType remainingType_; |
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121 std::string remainingPublicId_; |
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122 std::list<FileToRemove> pendingFilesToRemove_; |
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123 std::list<Change> pendingChanges_; |
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124 uint64_t sizeOfFilesToRemove_; |
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125 |
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126 public: |
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127 ServerIndexListener(ServerContext& context) : |
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128 context_(context) |
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129 { |
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130 Reset(); |
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131 assert(ResourceType_Patient < ResourceType_Study && |
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132 ResourceType_Study < ResourceType_Series && |
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133 ResourceType_Series < ResourceType_Instance); |
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134 } |
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135 |
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136 void Reset() |
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137 { |
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138 sizeOfFilesToRemove_ = 0; |
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139 hasRemainingLevel_ = false; |
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140 pendingFilesToRemove_.clear(); |
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141 pendingChanges_.clear(); |
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142 } |
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143 |
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144 uint64_t GetSizeOfFilesToRemove() |
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145 { |
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146 return sizeOfFilesToRemove_; |
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147 } |
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148 |
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149 void CommitFilesToRemove() |
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150 { |
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151 for (std::list<FileToRemove>::const_iterator |
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152 it = pendingFilesToRemove_.begin(); |
656 | 153 it != pendingFilesToRemove_.end(); ++it) |
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154 { |
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155 context_.RemoveFile(it->GetUuid(), it->GetContentType()); |
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156 } |
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157 } |
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158 |
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159 void CommitChanges() |
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160 { |
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161 for (std::list<Change>::const_iterator |
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162 it = pendingChanges_.begin(); |
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163 it != pendingChanges_.end(); it++) |
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164 { |
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165 context_.SignalChange(it->GetChangeType(), it->GetResourceType(), it->GetPublicId()); |
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166 } |
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167 } |
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168 |
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169 virtual void SignalRemainingAncestor(ResourceType parentType, |
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170 const std::string& publicId) |
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171 { |
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172 LOG(INFO) << "Remaining ancestor \"" << publicId << "\" (" << parentType << ")"; |
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173 |
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174 if (hasRemainingLevel_) |
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175 { |
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176 if (parentType < remainingType_) |
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177 { |
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178 remainingType_ = parentType; |
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179 remainingPublicId_ = publicId; |
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180 } |
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181 } |
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182 else |
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183 { |
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184 hasRemainingLevel_ = true; |
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185 remainingType_ = parentType; |
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186 remainingPublicId_ = publicId; |
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187 } |
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188 } |
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189 |
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190 virtual void SignalFileDeleted(const FileInfo& info) |
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191 { |
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192 assert(Toolbox::IsUuid(info.GetUuid())); |
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193 pendingFilesToRemove_.push_back(FileToRemove(info)); |
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194 sizeOfFilesToRemove_ += info.GetCompressedSize(); |
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195 } |
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196 |
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197 virtual void SignalChange(ChangeType changeType, |
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198 ResourceType resourceType, |
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199 const std::string& publicId) |
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201 LOG(INFO) << "Change related to resource " << publicId << " of type " |
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202 << EnumerationToString(resourceType) << ": " << EnumerationToString(changeType); |
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203 |
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204 pendingChanges_.push_back(Change(changeType, resourceType, publicId)); |
1158 | 205 } |
206 | |
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207 bool HasRemainingLevel() const |
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208 { |
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209 return hasRemainingLevel_; |
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210 } |
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211 |
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212 ResourceType GetRemainingType() const |
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213 { |
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214 assert(HasRemainingLevel()); |
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215 return remainingType_; |
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216 } |
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217 |
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218 const std::string& GetRemainingPublicId() const |
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219 { |
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220 assert(HasRemainingLevel()); |
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221 return remainingPublicId_; |
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222 } |
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223 }; |
0 | 224 } |
225 | |
226 | |
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227 class ServerIndex::Transaction |
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228 { |
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229 private: |
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230 ServerIndex& index_; |
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231 std::auto_ptr<SQLite::Transaction> transaction_; |
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232 bool isCommitted_; |
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233 |
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234 public: |
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235 Transaction(ServerIndex& index) : |
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236 index_(index), |
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237 isCommitted_(false) |
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238 { |
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239 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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240 |
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241 index_.listener_->Reset(); |
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242 transaction_.reset(index_.db_->StartTransaction()); |
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243 transaction_->Begin(); |
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244 } |
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245 |
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246 void Commit(uint64_t sizeOfAddedFiles) |
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247 { |
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248 if (!isCommitted_) |
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249 { |
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250 transaction_->Commit(); |
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251 |
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252 // We can remove the files once the SQLite transaction has |
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253 // been successfully committed. Some files might have to be |
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254 // deleted because of recycling. |
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255 index_.listener_->CommitFilesToRemove(); |
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256 |
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257 index_.currentStorageSize_ += sizeOfAddedFiles; |
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258 |
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259 assert(index_.currentStorageSize_ >= index_.listener_->GetSizeOfFilesToRemove()); |
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260 index_.currentStorageSize_ -= index_.listener_->GetSizeOfFilesToRemove(); |
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261 |
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262 assert(index_.currentStorageSize_ == index_.db_->GetTotalCompressedSize()); |
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263 |
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264 // Send all the pending changes to the Orthanc plugins |
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265 index_.listener_->CommitChanges(); |
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266 |
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267 isCommitted_ = true; |
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268 } |
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269 } |
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270 }; |
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271 |
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272 |
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273 class ServerIndex::UnstableResourcePayload |
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274 { |
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275 private: |
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276 ResourceType type_; |
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277 std::string publicId_; |
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278 boost::posix_time::ptime time_; |
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279 |
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280 public: |
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281 UnstableResourcePayload() : type_(ResourceType_Instance) |
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282 { |
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283 } |
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284 |
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285 UnstableResourcePayload(Orthanc::ResourceType type, |
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286 const std::string& publicId) : |
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287 type_(type), |
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288 publicId_(publicId) |
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289 { |
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290 time_ = boost::posix_time::second_clock::local_time(); |
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291 } |
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292 |
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293 unsigned int GetAge() const |
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294 { |
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295 return (boost::posix_time::second_clock::local_time() - time_).total_seconds(); |
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296 } |
1177
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297 |
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298 ResourceType GetResourceType() const |
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299 { |
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300 return type_; |
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301 } |
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302 |
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303 const std::string& GetPublicId() const |
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304 { |
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305 return publicId_; |
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306 } |
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307 }; |
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308 |
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309 |
212 | 310 bool ServerIndex::DeleteResource(Json::Value& target, |
0 | 311 const std::string& uuid, |
202 | 312 ResourceType expectedType) |
0 | 313 { |
206
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314 boost::mutex::scoped_lock lock(mutex_); |
202 | 315 listener_->Reset(); |
201
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316 |
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317 Transaction t(*this); |
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318 |
202 | 319 int64_t id; |
320 ResourceType type; | |
321 if (!db_->LookupResource(uuid, id, type) || | |
322 expectedType != type) | |
0 | 323 { |
324 return false; | |
325 } | |
202 | 326 |
327 db_->DeleteResource(id); | |
0 | 328 |
202 | 329 if (listener_->HasRemainingLevel()) |
0 | 330 { |
202 | 331 ResourceType type = listener_->GetRemainingType(); |
332 const std::string& uuid = listener_->GetRemainingPublicId(); | |
0 | 333 |
334 target["RemainingAncestor"] = Json::Value(Json::objectValue); | |
204 | 335 target["RemainingAncestor"]["Path"] = GetBasePath(type, uuid); |
434
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336 target["RemainingAncestor"]["Type"] = EnumerationToString(type); |
0 | 337 target["RemainingAncestor"]["ID"] = uuid; |
338 } | |
339 else | |
340 { | |
341 target["RemainingAncestor"] = Json::nullValue; | |
342 } | |
343 | |
278
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344 t.Commit(0); |
264
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345 |
0 | 346 return true; |
347 } | |
348 | |
349 | |
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350 void ServerIndex::FlushThread(ServerIndex* that) |
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351 { |
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352 // By default, wait for 10 seconds before flushing |
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353 unsigned int sleep = 10; |
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354 |
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355 try |
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356 { |
744 | 357 boost::mutex::scoped_lock lock(that->mutex_); |
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358 std::string sleepString = that->db_->GetGlobalProperty(GlobalProperty_FlushSleep); |
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359 |
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360 if (Toolbox::IsInteger(sleepString)) |
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361 { |
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362 sleep = boost::lexical_cast<unsigned int>(sleepString); |
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363 } |
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364 } |
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365 catch (boost::bad_lexical_cast&) |
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366 { |
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367 } |
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368 |
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369 LOG(INFO) << "Starting the database flushing thread (sleep = " << sleep << ")"; |
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370 |
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371 unsigned int count = 0; |
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372 |
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373 while (!that->done_) |
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374 { |
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375 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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376 count++; |
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377 if (count < sleep) |
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378 { |
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379 continue; |
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380 } |
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381 |
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382 boost::mutex::scoped_lock lock(that->mutex_); |
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383 that->db_->FlushToDisk(); |
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384 count = 0; |
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385 } |
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386 |
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387 LOG(INFO) << "Stopping the database flushing thread"; |
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388 } |
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389 |
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390 |
433 | 391 static void ComputeExpectedNumberOfInstances(DatabaseWrapper& db, |
392 int64_t series, | |
393 const DicomMap& dicomSummary) | |
394 { | |
395 try | |
396 { | |
656 | 397 const DicomValue* value; |
398 const DicomValue* value2; | |
399 | |
433 | 400 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL && |
401 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TEMPORAL_POSITIONS)) != NULL) | |
402 { | |
403 // Patch for series with temporal positions thanks to Will Ryder | |
404 int64_t imagesInAcquisition = boost::lexical_cast<int64_t>(value->AsString()); | |
405 int64_t countTemporalPositions = boost::lexical_cast<int64_t>(value2->AsString()); | |
406 std::string expected = boost::lexical_cast<std::string>(imagesInAcquisition * countTemporalPositions); | |
407 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
408 } | |
409 | |
410 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL && | |
411 (value2 = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_TIME_SLICES)) != NULL) | |
412 { | |
413 // Support of Cardio-PET images | |
414 int64_t numberOfSlices = boost::lexical_cast<int64_t>(value->AsString()); | |
415 int64_t numberOfTimeSlices = boost::lexical_cast<int64_t>(value2->AsString()); | |
416 std::string expected = boost::lexical_cast<std::string>(numberOfSlices * numberOfTimeSlices); | |
417 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, expected); | |
418 } | |
419 | |
420 else if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL) | |
421 { | |
422 db.SetMetadata(series, MetadataType_Series_ExpectedNumberOfInstances, value->AsString()); | |
423 } | |
424 } | |
425 catch (boost::bad_lexical_cast) | |
426 { | |
427 } | |
428 } | |
429 | |
430 | |
226
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431 ServerIndex::ServerIndex(ServerContext& context, |
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432 const std::string& dbPath) : |
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433 done_(false), |
269
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434 maximumStorageSize_(0), |
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435 maximumPatients_(0) |
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436 { |
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437 listener_.reset(new Internals::ServerIndexListener(context)); |
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438 |
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439 if (dbPath == ":memory:") |
180
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440 { |
202 | 441 db_.reset(new DatabaseWrapper(*listener_)); |
180
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442 } |
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443 else |
0 | 444 { |
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445 boost::filesystem::path p = dbPath; |
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446 |
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447 try |
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448 { |
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449 boost::filesystem::create_directories(p); |
180
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450 } |
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451 catch (boost::filesystem::filesystem_error) |
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452 { |
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453 } |
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454 |
202 | 455 db_.reset(new DatabaseWrapper(p.string() + "/index", *listener_)); |
0 | 456 } |
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457 |
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458 currentStorageSize_ = db_->GetTotalCompressedSize(); |
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459 |
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460 // Initial recycling if the parameters have changed since the last |
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461 // execution of Orthanc |
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462 StandaloneRecycling(); |
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463 |
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464 flushThread_ = boost::thread(FlushThread, this); |
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465 unstableResourcesMonitorThread_ = boost::thread(UnstableResourcesMonitorThread, this); |
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466 } |
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467 |
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468 |
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469 ServerIndex::~ServerIndex() |
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470 { |
511
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471 done_ = true; |
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472 |
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473 if (flushThread_.joinable()) |
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474 { |
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475 flushThread_.join(); |
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476 } |
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477 |
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478 if (unstableResourcesMonitorThread_.joinable()) |
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479 { |
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480 unstableResourcesMonitorThread_.join(); |
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481 } |
0 | 482 } |
483 | |
484 | |
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485 StoreStatus ServerIndex::Store(std::map<MetadataType, std::string>& instanceMetadata, |
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486 const DicomMap& dicomSummary, |
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487 const Attachments& attachments, |
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488 const std::string& remoteAet, |
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489 const MetadataMap& metadata) |
0 | 490 { |
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491 boost::mutex::scoped_lock lock(mutex_); |
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492 listener_->Reset(); |
0 | 493 |
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494 instanceMetadata.clear(); |
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495 |
178 | 496 DicomInstanceHasher hasher(dicomSummary); |
0 | 497 |
498 try | |
499 { | |
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500 Transaction t(*this); |
0 | 501 |
202 | 502 // Do nothing if the instance already exists |
0 | 503 { |
432 | 504 ResourceType type; |
505 int64_t tmp; | |
506 if (db_->LookupResource(hasher.HashInstance(), tmp, type)) | |
507 { | |
508 assert(type == ResourceType_Instance); | |
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509 db_->GetAllMetadata(instanceMetadata, tmp); |
432 | 510 return StoreStatus_AlreadyStored; |
511 } | |
0 | 512 } |
513 | |
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514 // Ensure there is enough room in the storage for the new instance |
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515 uint64_t instanceSize = 0; |
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516 for (Attachments::const_iterator it = attachments.begin(); |
656 | 517 it != attachments.end(); ++it) |
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518 { |
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519 instanceSize += it->GetCompressedSize(); |
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520 } |
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521 |
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522 Recycle(instanceSize, hasher.HashPatient()); |
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523 |
202 | 524 // Create the instance |
432 | 525 int64_t instance = db_->CreateResource(hasher.HashInstance(), ResourceType_Instance); |
202 | 526 |
527 DicomMap dicom; | |
528 dicomSummary.ExtractInstanceInformation(dicom); | |
529 db_->SetMainDicomTags(instance, dicom); | |
530 | |
432 | 531 // Detect up to which level the patient/study/series/instance |
532 // hierarchy must be created | |
533 int64_t patient = -1, study = -1, series = -1; | |
534 bool isNewPatient = false; | |
535 bool isNewStudy = false; | |
536 bool isNewSeries = false; | |
537 | |
0 | 538 { |
432 | 539 ResourceType dummy; |
540 | |
541 if (db_->LookupResource(hasher.HashSeries(), series, dummy)) | |
542 { | |
543 assert(dummy == ResourceType_Series); | |
544 // The patient, the study and the series already exist | |
545 | |
546 bool ok = (db_->LookupResource(hasher.HashPatient(), patient, dummy) && | |
547 db_->LookupResource(hasher.HashStudy(), study, dummy)); | |
548 assert(ok); | |
549 } | |
550 else if (db_->LookupResource(hasher.HashStudy(), study, dummy)) | |
551 { | |
552 assert(dummy == ResourceType_Study); | |
553 | |
554 // New series: The patient and the study already exist | |
555 isNewSeries = true; | |
556 | |
557 bool ok = db_->LookupResource(hasher.HashPatient(), patient, dummy); | |
558 assert(ok); | |
559 } | |
560 else if (db_->LookupResource(hasher.HashPatient(), patient, dummy)) | |
561 { | |
562 assert(dummy == ResourceType_Patient); | |
563 | |
564 // New study and series: The patient already exist | |
565 isNewStudy = true; | |
566 isNewSeries = true; | |
567 } | |
568 else | |
569 { | |
570 // New patient, study and series: Nothing exists | |
571 isNewPatient = true; | |
572 isNewStudy = true; | |
573 isNewSeries = true; | |
574 } | |
575 } | |
576 | |
577 // Create the series if needed | |
578 if (isNewSeries) | |
579 { | |
202 | 580 series = db_->CreateResource(hasher.HashSeries(), ResourceType_Series); |
581 dicomSummary.ExtractSeriesInformation(dicom); | |
582 db_->SetMainDicomTags(series, dicom); | |
432 | 583 } |
202 | 584 |
432 | 585 // Create the study if needed |
586 if (isNewStudy) | |
587 { | |
588 study = db_->CreateResource(hasher.HashStudy(), ResourceType_Study); | |
589 dicomSummary.ExtractStudyInformation(dicom); | |
590 db_->SetMainDicomTags(study, dicom); | |
591 } | |
592 | |
593 // Create the patient if needed | |
594 if (isNewPatient) | |
595 { | |
596 patient = db_->CreateResource(hasher.HashPatient(), ResourceType_Patient); | |
597 dicomSummary.ExtractPatientInformation(dicom); | |
598 db_->SetMainDicomTags(patient, dicom); | |
599 } | |
202 | 600 |
432 | 601 // Create the parent-to-child links |
602 db_->AttachChild(series, instance); | |
603 | |
604 if (isNewSeries) | |
605 { | |
606 db_->AttachChild(study, series); | |
0 | 607 } |
432 | 608 |
609 if (isNewStudy) | |
0 | 610 { |
432 | 611 db_->AttachChild(patient, study); |
0 | 612 } |
613 | |
432 | 614 // Sanity checks |
615 assert(patient != -1); | |
616 assert(study != -1); | |
617 assert(series != -1); | |
618 assert(instance != -1); | |
619 | |
202 | 620 // Attach the files to the newly created instance |
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621 for (Attachments::const_iterator it = attachments.begin(); |
656 | 622 it != attachments.end(); ++it) |
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623 { |
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624 db_->AddAttachment(instance, *it); |
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625 } |
202 | 626 |
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627 // Attach the user-specified metadata |
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628 for (MetadataMap::const_iterator |
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629 it = metadata.begin(); it != metadata.end(); ++it) |
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630 { |
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631 switch (it->first.first) |
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632 { |
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633 case ResourceType_Patient: |
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634 db_->SetMetadata(patient, it->first.second, it->second); |
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635 break; |
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636 |
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637 case ResourceType_Study: |
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638 db_->SetMetadata(study, it->first.second, it->second); |
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639 break; |
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640 |
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641 case ResourceType_Series: |
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642 db_->SetMetadata(series, it->first.second, it->second); |
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643 break; |
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644 |
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645 case ResourceType_Instance: |
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646 db_->SetMetadata(instance, it->first.second, it->second); |
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647 instanceMetadata[it->first.second] = it->second; |
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648 break; |
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649 |
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650 default: |
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651 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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652 } |
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653 } |
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654 |
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655 // Attach the auto-computed metadata for the patient/study/series levels |
432 | 656 std::string now = Toolbox::GetNowIsoString(); |
657 db_->SetMetadata(series, MetadataType_LastUpdate, now); | |
658 db_->SetMetadata(study, MetadataType_LastUpdate, now); | |
659 db_->SetMetadata(patient, MetadataType_LastUpdate, now); | |
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660 |
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661 // Attach the auto-computed metadata for the instance level, |
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662 // reflecting these additions into the input metadata map |
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663 db_->SetMetadata(instance, MetadataType_Instance_ReceptionDate, now); |
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664 instanceMetadata[MetadataType_Instance_ReceptionDate] = now; |
202 | 665 |
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666 db_->SetMetadata(instance, MetadataType_Instance_RemoteAet, remoteAet); |
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667 instanceMetadata[MetadataType_Instance_RemoteAet] = remoteAet; |
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668 |
202 | 669 const DicomValue* value; |
670 if ((value = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL || | |
671 (value = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL) | |
0 | 672 { |
202 | 673 db_->SetMetadata(instance, MetadataType_Instance_IndexInSeries, value->AsString()); |
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674 instanceMetadata[MetadataType_Instance_IndexInSeries] = value->AsString(); |
0 | 675 } |
676 | |
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677 // Check whether the series of this new instance is now completed |
202 | 678 if (isNewSeries) |
679 { | |
433 | 680 ComputeExpectedNumberOfInstances(*db_, series, dicomSummary); |
202 | 681 } |
682 | |
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683 SeriesStatus seriesStatus = GetSeriesStatus(series); |
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684 if (seriesStatus == SeriesStatus_Complete) |
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685 { |
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686 db_->LogChange(ChangeType_CompletedSeries, series, ResourceType_Series, hasher.HashSeries()); |
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687 } |
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688 |
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689 // Mark the parent resources of this instance as unstable |
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690 MarkAsUnstable(series, ResourceType_Series, hasher.HashSeries()); |
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691 MarkAsUnstable(study, ResourceType_Study, hasher.HashStudy()); |
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692 MarkAsUnstable(patient, ResourceType_Patient, hasher.HashPatient()); |
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693 |
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694 t.Commit(instanceSize); |
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695 |
0 | 696 return StoreStatus_Success; |
697 } | |
62 | 698 catch (OrthancException& e) |
0 | 699 { |
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700 LOG(ERROR) << "EXCEPTION [" << e.What() << "]" |
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701 << " (SQLite status: " << db_->GetErrorMessage() << ")"; |
0 | 702 } |
703 | |
704 return StoreStatus_Failure; | |
705 } | |
706 | |
707 | |
238 | 708 void ServerIndex::ComputeStatistics(Json::Value& target) |
0 | 709 { |
206
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710 boost::mutex::scoped_lock lock(mutex_); |
238 | 711 target = Json::objectValue; |
0 | 712 |
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713 uint64_t cs = currentStorageSize_; |
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714 assert(cs == db_->GetTotalCompressedSize()); |
238 | 715 uint64_t us = db_->GetTotalUncompressedSize(); |
440
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716 target["TotalDiskSize"] = boost::lexical_cast<std::string>(cs); |
238 | 717 target["TotalUncompressedSize"] = boost::lexical_cast<std::string>(us); |
440
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718 target["TotalDiskSizeMB"] = boost::lexical_cast<unsigned int>(cs / MEGA_BYTES); |
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719 target["TotalUncompressedSizeMB"] = boost::lexical_cast<unsigned int>(us / MEGA_BYTES); |
238 | 720 |
721 target["CountPatients"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Patient)); | |
722 target["CountStudies"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Study)); | |
723 target["CountSeries"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Series)); | |
724 target["CountInstances"] = static_cast<unsigned int>(db_->GetResourceCount(ResourceType_Instance)); | |
725 } | |
726 | |
187
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727 |
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728 |
585 | 729 SeriesStatus ServerIndex::GetSeriesStatus(int64_t id) |
199 | 730 { |
731 // Get the expected number of instances in this series (from the metadata) | |
202 | 732 std::string s = db_->GetMetadata(id, MetadataType_Series_ExpectedNumberOfInstances); |
199 | 733 |
734 size_t expected; | |
735 try | |
736 { | |
737 expected = boost::lexical_cast<size_t>(s); | |
738 } | |
739 catch (boost::bad_lexical_cast&) | |
740 { | |
741 return SeriesStatus_Unknown; | |
742 } | |
743 | |
744 // Loop over the instances of this series | |
745 std::list<int64_t> children; | |
202 | 746 db_->GetChildrenInternalId(children, id); |
199 | 747 |
748 std::set<size_t> instances; | |
749 for (std::list<int64_t>::const_iterator | |
656 | 750 it = children.begin(); it != children.end(); ++it) |
199 | 751 { |
752 // Get the index of this instance in the series | |
202 | 753 s = db_->GetMetadata(*it, MetadataType_Instance_IndexInSeries); |
199 | 754 size_t index; |
755 try | |
756 { | |
757 index = boost::lexical_cast<size_t>(s); | |
758 } | |
759 catch (boost::bad_lexical_cast&) | |
760 { | |
761 return SeriesStatus_Unknown; | |
762 } | |
763 | |
656 | 764 if (!(index > 0 && index <= expected)) |
199 | 765 { |
766 // Out-of-range instance index | |
767 return SeriesStatus_Inconsistent; | |
768 } | |
769 | |
770 if (instances.find(index) != instances.end()) | |
771 { | |
772 // Twice the same instance index | |
773 return SeriesStatus_Inconsistent; | |
774 } | |
775 | |
776 instances.insert(index); | |
777 } | |
778 | |
779 if (instances.size() == expected) | |
780 { | |
781 return SeriesStatus_Complete; | |
782 } | |
783 else | |
784 { | |
785 return SeriesStatus_Missing; | |
786 } | |
787 } | |
788 | |
789 | |
790 | |
202 | 791 void ServerIndex::MainDicomTagsToJson(Json::Value& target, |
792 int64_t resourceId) | |
198
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793 { |
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794 DicomMap tags; |
202 | 795 db_->GetMainDicomTags(tags, resourceId); |
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796 target["MainDicomTags"] = Json::objectValue; |
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797 FromDcmtkBridge::ToJson(target["MainDicomTags"], tags); |
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798 } |
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799 |
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800 bool ServerIndex::LookupResource(Json::Value& result, |
199 | 801 const std::string& publicId, |
802 ResourceType expectedType) | |
198
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803 { |
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804 result = Json::objectValue; |
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805 |
206
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806 boost::mutex::scoped_lock lock(mutex_); |
199 | 807 |
198
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808 // Lookup for the requested resource |
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809 int64_t id; |
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810 ResourceType type; |
202 | 811 if (!db_->LookupResource(publicId, id, type) || |
199 | 812 type != expectedType) |
198
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813 { |
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814 return false; |
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815 } |
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816 |
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817 // Find the parent resource (if it exists) |
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818 if (type != ResourceType_Patient) |
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819 { |
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820 int64_t parentId; |
202 | 821 if (!db_->LookupParent(parentId, id)) |
198
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822 { |
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823 throw OrthancException(ErrorCode_InternalError); |
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824 } |
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825 |
202 | 826 std::string parent = db_->GetPublicId(parentId); |
198
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827 |
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828 switch (type) |
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829 { |
269
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830 case ResourceType_Study: |
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831 result["ParentPatient"] = parent; |
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832 break; |
198
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833 |
269
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834 case ResourceType_Series: |
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835 result["ParentStudy"] = parent; |
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836 break; |
198
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837 |
269
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838 case ResourceType_Instance: |
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839 result["ParentSeries"] = parent; |
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840 break; |
198
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841 |
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842 default: |
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843 throw OrthancException(ErrorCode_InternalError); |
198
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844 } |
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845 } |
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846 |
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847 // List the children resources |
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848 std::list<std::string> children; |
202 | 849 db_->GetChildrenPublicId(children, id); |
198
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850 |
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851 if (type != ResourceType_Instance) |
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852 { |
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853 Json::Value c = Json::arrayValue; |
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854 |
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855 for (std::list<std::string>::const_iterator |
656 | 856 it = children.begin(); it != children.end(); ++it) |
198
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857 { |
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858 c.append(*it); |
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859 } |
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860 |
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861 switch (type) |
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862 { |
269
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863 case ResourceType_Patient: |
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864 result["Studies"] = c; |
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865 break; |
198
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866 |
269
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867 case ResourceType_Study: |
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868 result["Series"] = c; |
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869 break; |
198
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870 |
269
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871 case ResourceType_Series: |
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872 result["Instances"] = c; |
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873 break; |
198
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874 |
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875 default: |
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876 throw OrthancException(ErrorCode_InternalError); |
198
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877 } |
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878 } |
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879 |
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880 // Set the resource type |
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881 switch (type) |
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882 { |
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883 case ResourceType_Patient: |
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884 result["Type"] = "Patient"; |
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885 break; |
198
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886 |
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887 case ResourceType_Study: |
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888 result["Type"] = "Study"; |
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889 break; |
199 | 890 |
269
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891 case ResourceType_Series: |
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892 { |
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893 result["Type"] = "Series"; |
434
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changeset
|
894 result["Status"] = EnumerationToString(GetSeriesStatus(id)); |
198
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895 |
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896 int i; |
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897 if (db_->GetMetadataAsInteger(i, id, MetadataType_Series_ExpectedNumberOfInstances)) |
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898 result["ExpectedNumberOfInstances"] = i; |
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899 else |
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900 result["ExpectedNumberOfInstances"] = Json::nullValue; |
200
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901 |
269
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902 break; |
200
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903 } |
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diff
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|
904 |
269
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905 case ResourceType_Instance: |
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906 { |
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907 result["Type"] = "Instance"; |
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908 |
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909 FileInfo attachment; |
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910 if (!db_->LookupAttachment(attachment, id, FileContentType_Dicom)) |
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911 { |
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912 throw OrthancException(ErrorCode_InternalError); |
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913 } |
200
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914 |
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915 result["FileSize"] = static_cast<unsigned int>(attachment.GetUncompressedSize()); |
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916 result["FileUuid"] = attachment.GetUuid(); |
200
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917 |
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918 int i; |
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919 if (db_->GetMetadataAsInteger(i, id, MetadataType_Instance_IndexInSeries)) |
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920 result["IndexInSeries"] = i; |
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921 else |
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922 result["IndexInSeries"] = Json::nullValue; |
198
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923 |
269
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924 break; |
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925 } |
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926 |
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927 default: |
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928 throw OrthancException(ErrorCode_InternalError); |
198
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929 } |
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930 |
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931 // Record the remaining information |
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932 result["ID"] = publicId; |
202 | 933 MainDicomTagsToJson(result, id); |
198
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934 |
315 | 935 std::string tmp; |
936 | |
937 tmp = db_->GetMetadata(id, MetadataType_AnonymizedFrom); | |
938 if (tmp.size() != 0) | |
939 result["AnonymizedFrom"] = tmp; | |
940 | |
941 tmp = db_->GetMetadata(id, MetadataType_ModifiedFrom); | |
942 if (tmp.size() != 0) | |
943 result["ModifiedFrom"] = tmp; | |
944 | |
511
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945 if (type == ResourceType_Patient || |
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946 type == ResourceType_Study || |
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947 type == ResourceType_Series) |
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948 { |
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949 result["IsStable"] = !unstableResources_.Contains(id); |
1148
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diff
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|
950 |
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diff
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|
951 tmp = db_->GetMetadata(id, MetadataType_LastUpdate); |
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|
952 if (tmp.size() != 0) |
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953 result["LastUpdate"] = tmp; |
511
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954 } |
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955 |
198
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956 return true; |
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957 } |
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958 |
0 | 959 |
232
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960 bool ServerIndex::LookupAttachment(FileInfo& attachment, |
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961 const std::string& instanceUuid, |
233 | 962 FileContentType contentType) |
0 | 963 { |
206
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964 boost::mutex::scoped_lock lock(mutex_); |
0 | 965 |
193
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966 int64_t id; |
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|
967 ResourceType type; |
701 | 968 if (!db_->LookupResource(instanceUuid, id, type)) |
192
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969 { |
1113
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diff
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|
970 throw OrthancException(ErrorCode_UnknownResource); |
192
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971 } |
193
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|
972 |
232
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|
973 if (db_->LookupAttachment(attachment, id, contentType)) |
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974 { |
233 | 975 assert(attachment.GetContentType() == contentType); |
232
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|
976 return true; |
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diff
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|
977 } |
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diff
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|
978 else |
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|
979 { |
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diff
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|
980 return false; |
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|
981 } |
192
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diff
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|
982 } |
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|
983 |
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diff
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|
984 |
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|
985 |
0 | 986 void ServerIndex::GetAllUuids(Json::Value& target, |
190 | 987 ResourceType resourceType) |
0 | 988 { |
206
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|
989 boost::mutex::scoped_lock lock(mutex_); |
202 | 990 db_->GetAllPublicIds(target, resourceType); |
0 | 991 } |
992 | |
993 | |
994 bool ServerIndex::GetChanges(Json::Value& target, | |
204 | 995 int64_t since, |
0 | 996 unsigned int maxResults) |
997 { | |
206
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|
998 boost::mutex::scoped_lock lock(mutex_); |
237
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diff
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|
999 db_->GetChanges(target, since, maxResults); |
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|
1000 return true; |
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|
1001 } |
0 | 1002 |
237
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|
1003 bool ServerIndex::GetLastChange(Json::Value& target) |
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|
1004 { |
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1005 boost::mutex::scoped_lock lock(mutex_); |
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|
1006 db_->GetLastChange(target); |
204 | 1007 return true; |
0 | 1008 } |
231 | 1009 |
1010 void ServerIndex::LogExportedResource(const std::string& publicId, | |
1011 const std::string& remoteModality) | |
1012 { | |
1013 boost::mutex::scoped_lock lock(mutex_); | |
1014 | |
1015 int64_t id; | |
1016 ResourceType type; | |
1017 if (!db_->LookupResource(publicId, id, type)) | |
1018 { | |
1019 throw OrthancException(ErrorCode_InternalError); | |
1020 } | |
1021 | |
1022 std::string patientId; | |
1023 std::string studyInstanceUid; | |
1024 std::string seriesInstanceUid; | |
1025 std::string sopInstanceUid; | |
1026 | |
1027 int64_t currentId = id; | |
1028 ResourceType currentType = type; | |
1029 | |
1030 // Iteratively go up inside the patient/study/series/instance hierarchy | |
1031 bool done = false; | |
1032 while (!done) | |
1033 { | |
1034 DicomMap map; | |
1035 db_->GetMainDicomTags(map, currentId); | |
1036 | |
1037 switch (currentType) | |
1038 { | |
269
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1039 case ResourceType_Patient: |
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1040 patientId = map.GetValue(DICOM_TAG_PATIENT_ID).AsString(); |
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1041 done = true; |
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1042 break; |
231 | 1043 |
269
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1044 case ResourceType_Study: |
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1045 studyInstanceUid = map.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString(); |
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1046 currentType = ResourceType_Patient; |
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1047 break; |
231 | 1048 |
269
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1049 case ResourceType_Series: |
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1050 seriesInstanceUid = map.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString(); |
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1051 currentType = ResourceType_Study; |
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1052 break; |
231 | 1053 |
269
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1054 case ResourceType_Instance: |
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1055 sopInstanceUid = map.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString(); |
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1056 currentType = ResourceType_Series; |
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1057 break; |
231 | 1058 |
269
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1059 default: |
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1060 throw OrthancException(ErrorCode_InternalError); |
231 | 1061 } |
1062 | |
1063 // If we have not reached the Patient level, find the parent of | |
1064 // the current resource | |
1065 if (!done) | |
1066 { | |
375
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1067 bool ok = db_->LookupParent(currentId, currentId); |
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1068 assert(ok); |
231 | 1069 } |
1070 } | |
1071 | |
1072 // No need for a SQLite::Transaction here, as we only insert 1 record | |
1073 db_->LogExportedResource(type, | |
1074 publicId, | |
1075 remoteModality, | |
1076 patientId, | |
1077 studyInstanceUid, | |
1078 seriesInstanceUid, | |
1079 sopInstanceUid); | |
1080 } | |
1081 | |
1082 | |
1083 bool ServerIndex::GetExportedResources(Json::Value& target, | |
1084 int64_t since, | |
1085 unsigned int maxResults) | |
1086 { | |
1087 boost::mutex::scoped_lock lock(mutex_); | |
1088 db_->GetExportedResources(target, since, maxResults); | |
1089 return true; | |
1090 } | |
237
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1091 |
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|
1092 bool ServerIndex::GetLastExportedResource(Json::Value& target) |
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1093 { |
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1094 boost::mutex::scoped_lock lock(mutex_); |
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1095 db_->GetLastExportedResource(target); |
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1096 return true; |
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1097 } |
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1098 |
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1099 |
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1100 bool ServerIndex::IsRecyclingNeeded(uint64_t instanceSize) |
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1101 { |
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1102 if (maximumStorageSize_ != 0) |
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1103 { |
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1104 uint64_t currentSize = currentStorageSize_ - listener_->GetSizeOfFilesToRemove(); |
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1105 assert(db_->GetTotalCompressedSize() == currentSize); |
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1106 |
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1107 if (currentSize + instanceSize > maximumStorageSize_) |
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1108 { |
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1109 return true; |
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1110 } |
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1111 } |
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1112 |
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1113 if (maximumPatients_ != 0) |
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1114 { |
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1115 uint64_t patientCount = db_->GetResourceCount(ResourceType_Patient); |
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1116 if (patientCount > maximumPatients_) |
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1117 { |
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1118 return true; |
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1119 } |
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1120 } |
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1121 |
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1122 return false; |
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1123 } |
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1124 |
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1125 |
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1126 void ServerIndex::Recycle(uint64_t instanceSize, |
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1127 const std::string& newPatientId) |
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1128 { |
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1129 if (!IsRecyclingNeeded(instanceSize)) |
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1130 { |
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1131 return; |
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1132 } |
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1133 |
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1134 // Check whether other DICOM instances from this patient are |
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1135 // already stored |
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1136 int64_t patientToAvoid; |
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1137 ResourceType type; |
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1138 bool hasPatientToAvoid = db_->LookupResource(newPatientId, patientToAvoid, type); |
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1139 |
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1140 if (hasPatientToAvoid && type != ResourceType_Patient) |
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1141 { |
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1142 throw OrthancException(ErrorCode_InternalError); |
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1143 } |
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1144 |
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1145 // Iteratively select patient to remove until there is enough |
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1146 // space in the DICOM store |
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1147 int64_t patientToRecycle; |
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1148 while (true) |
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1149 { |
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1150 // If other instances of this patient are already in the store, |
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1151 // we must avoid to recycle them |
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1152 bool ok = hasPatientToAvoid ? |
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1153 db_->SelectPatientToRecycle(patientToRecycle, patientToAvoid) : |
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1154 db_->SelectPatientToRecycle(patientToRecycle); |
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1155 |
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1156 if (!ok) |
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1157 { |
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1158 throw OrthancException(ErrorCode_FullStorage); |
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1159 } |
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1160 |
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1161 LOG(INFO) << "Recycling one patient"; |
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1162 db_->DeleteResource(patientToRecycle); |
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1163 |
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1164 if (!IsRecyclingNeeded(instanceSize)) |
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1165 { |
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1166 // OK, we're done |
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1167 break; |
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1168 } |
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1169 } |
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1170 } |
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1171 |
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1172 void ServerIndex::SetMaximumPatientCount(unsigned int count) |
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1173 { |
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1174 boost::mutex::scoped_lock lock(mutex_); |
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1175 maximumPatients_ = count; |
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1176 |
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1177 if (count == 0) |
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1178 { |
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1179 LOG(WARNING) << "No limit on the number of stored patients"; |
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1180 } |
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1181 else |
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1182 { |
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1183 LOG(WARNING) << "At most " << count << " patients will be stored"; |
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1184 } |
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1185 |
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1186 StandaloneRecycling(); |
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1187 } |
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1188 |
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1189 void ServerIndex::SetMaximumStorageSize(uint64_t size) |
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1190 { |
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1191 boost::mutex::scoped_lock lock(mutex_); |
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1192 maximumStorageSize_ = size; |
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1193 |
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1194 if (size == 0) |
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1195 { |
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1196 LOG(WARNING) << "No limit on the size of the storage area"; |
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1197 } |
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1198 else |
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1199 { |
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1200 LOG(WARNING) << "At most " << (size / MEGA_BYTES) << "MB will be used for the storage area"; |
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1201 } |
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1202 |
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1203 StandaloneRecycling(); |
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1204 } |
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1205 |
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1206 void ServerIndex::StandaloneRecycling() |
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1207 { |
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1208 // WARNING: No mutex here, do not include this as a public method |
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1209 Transaction t(*this); |
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1210 Recycle(0, ""); |
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1211 t.Commit(0); |
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1212 } |
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1213 |
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1214 |
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1215 bool ServerIndex::IsProtectedPatient(const std::string& publicId) |
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1216 { |
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1217 boost::mutex::scoped_lock lock(mutex_); |
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1218 |
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1219 // Lookup for the requested resource |
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1220 int64_t id; |
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1221 ResourceType type; |
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1222 if (!db_->LookupResource(publicId, id, type) || |
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1223 type != ResourceType_Patient) |
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1224 { |
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1225 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1226 } |
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1227 |
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1228 return db_->IsProtectedPatient(id); |
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1229 } |
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1230 |
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1231 |
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1232 void ServerIndex::SetProtectedPatient(const std::string& publicId, |
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1233 bool isProtected) |
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1234 { |
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1235 boost::mutex::scoped_lock lock(mutex_); |
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1236 |
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1237 // Lookup for the requested resource |
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1238 int64_t id; |
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1239 ResourceType type; |
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1240 if (!db_->LookupResource(publicId, id, type) || |
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1241 type != ResourceType_Patient) |
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1242 { |
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1243 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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1244 } |
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1245 |
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1246 // No need for a SQLite::Transaction here, as we only make 1 write to the DB |
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1247 db_->SetProtectedPatient(id, isProtected); |
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1248 |
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1249 if (isProtected) |
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1250 LOG(INFO) << "Patient " << publicId << " has been protected"; |
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1251 else |
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1252 LOG(INFO) << "Patient " << publicId << " has been unprotected"; |
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1253 } |
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1254 |
304 | 1255 |
714
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1256 void ServerIndex::GetChildren(std::list<std::string>& result, |
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1257 const std::string& publicId) |
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1258 { |
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1259 result.clear(); |
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1260 |
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1261 boost::mutex::scoped_lock lock(mutex_); |
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1262 |
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1263 ResourceType type; |
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1264 int64_t resource; |
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1265 if (!db_->LookupResource(publicId, resource, type)) |
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1266 { |
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1267 throw OrthancException(ErrorCode_UnknownResource); |
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1268 } |
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1269 |
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1270 if (type == ResourceType_Instance) |
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1271 { |
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1272 // An instance cannot have a child |
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1273 throw OrthancException(ErrorCode_BadParameterType); |
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1274 } |
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1275 |
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1276 std::list<int64_t> tmp; |
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1277 db_->GetChildrenInternalId(tmp, resource); |
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1278 |
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1279 for (std::list<int64_t>::const_iterator |
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1280 it = tmp.begin(); it != tmp.end(); ++it) |
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1281 { |
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1282 result.push_back(db_->GetPublicId(*it)); |
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1283 } |
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1284 } |
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1285 |
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1286 |
304 | 1287 void ServerIndex::GetChildInstances(std::list<std::string>& result, |
1288 const std::string& publicId) | |
1289 { | |
1290 result.clear(); | |
1291 | |
1292 boost::mutex::scoped_lock lock(mutex_); | |
1293 | |
1294 ResourceType type; | |
1295 int64_t top; | |
1296 if (!db_->LookupResource(publicId, top, type)) | |
1297 { | |
1298 throw OrthancException(ErrorCode_UnknownResource); | |
1299 } | |
1300 | |
1301 if (type == ResourceType_Instance) | |
1302 { | |
1303 // The resource is already an instance: Do not go down the hierarchy | |
1304 result.push_back(publicId); | |
1305 return; | |
1306 } | |
1307 | |
1308 std::stack<int64_t> toExplore; | |
1309 toExplore.push(top); | |
1310 | |
1311 std::list<int64_t> tmp; | |
1312 | |
1313 while (!toExplore.empty()) | |
1314 { | |
1315 // Get the internal ID of the current resource | |
1316 int64_t resource = toExplore.top(); | |
1317 toExplore.pop(); | |
1318 | |
1319 if (db_->GetResourceType(resource) == ResourceType_Instance) | |
1320 { | |
1321 result.push_back(db_->GetPublicId(resource)); | |
1322 } | |
1323 else | |
1324 { | |
1325 // Tag all the children of this resource as to be explored | |
1326 db_->GetChildrenInternalId(tmp, resource); | |
1327 for (std::list<int64_t>::const_iterator | |
656 | 1328 it = tmp.begin(); it != tmp.end(); ++it) |
304 | 1329 { |
1330 toExplore.push(*it); | |
1331 } | |
1332 } | |
1333 } | |
1334 } | |
1335 | |
306
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1336 |
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1337 void ServerIndex::SetMetadata(const std::string& publicId, |
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1338 MetadataType type, |
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1339 const std::string& value) |
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1340 { |
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1341 boost::mutex::scoped_lock lock(mutex_); |
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1342 |
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1343 ResourceType rtype; |
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1344 int64_t id; |
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1345 if (!db_->LookupResource(publicId, id, rtype)) |
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1346 { |
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1347 throw OrthancException(ErrorCode_UnknownResource); |
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1348 } |
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1349 |
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1350 db_->SetMetadata(id, type, value); |
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1351 } |
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1352 |
438 | 1353 |
1354 void ServerIndex::DeleteMetadata(const std::string& publicId, | |
1355 MetadataType type) | |
1356 { | |
1357 boost::mutex::scoped_lock lock(mutex_); | |
1358 | |
1359 ResourceType rtype; | |
1360 int64_t id; | |
1361 if (!db_->LookupResource(publicId, id, rtype)) | |
1362 { | |
1363 throw OrthancException(ErrorCode_UnknownResource); | |
1364 } | |
1365 | |
1366 db_->DeleteMetadata(id, type); | |
1367 } | |
1368 | |
1369 | |
306
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1370 bool ServerIndex::LookupMetadata(std::string& target, |
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1371 const std::string& publicId, |
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1372 MetadataType type) |
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1373 { |
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1374 boost::mutex::scoped_lock lock(mutex_); |
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1375 |
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1376 ResourceType rtype; |
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1377 int64_t id; |
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1378 if (!db_->LookupResource(publicId, id, rtype)) |
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1379 { |
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1380 throw OrthancException(ErrorCode_UnknownResource); |
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1381 } |
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1382 |
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1383 return db_->LookupMetadata(target, id, type); |
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1384 } |
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1385 |
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1386 |
739 | 1387 void ServerIndex::ListAvailableMetadata(std::list<MetadataType>& target, |
436
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1388 const std::string& publicId) |
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1389 { |
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1390 boost::mutex::scoped_lock lock(mutex_); |
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1391 |
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1392 ResourceType rtype; |
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1393 int64_t id; |
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1394 if (!db_->LookupResource(publicId, id, rtype)) |
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1395 { |
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diff
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|
1396 throw OrthancException(ErrorCode_UnknownResource); |
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diff
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|
1397 } |
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diff
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|
1398 |
739 | 1399 db_->ListAvailableMetadata(target, id); |
436
d51186bf7602
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diff
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|
1400 } |
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diff
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|
1401 |
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diff
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|
1402 |
697
dd1ce9a2844c
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diff
changeset
|
1403 void ServerIndex::ListAvailableAttachments(std::list<FileContentType>& target, |
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diff
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|
1404 const std::string& publicId, |
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diff
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|
1405 ResourceType expectedType) |
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diff
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|
1406 { |
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diff
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|
1407 boost::mutex::scoped_lock lock(mutex_); |
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diff
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|
1408 |
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diff
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|
1409 ResourceType type; |
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diff
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|
1410 int64_t id; |
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diff
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|
1411 if (!db_->LookupResource(publicId, id, type) || |
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diff
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|
1412 expectedType != type) |
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diff
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|
1413 { |
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diff
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|
1414 throw OrthancException(ErrorCode_UnknownResource); |
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diff
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|
1415 } |
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diff
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|
1416 |
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|
1417 db_->ListAvailableAttachments(target, id); |
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|
1418 } |
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|
1419 |
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|
1420 |
306
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|
1421 bool ServerIndex::LookupParent(std::string& target, |
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|
1422 const std::string& publicId) |
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1423 { |
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1424 boost::mutex::scoped_lock lock(mutex_); |
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|
1425 |
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|
1426 ResourceType type; |
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|
1427 int64_t id; |
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|
1428 if (!db_->LookupResource(publicId, id, type)) |
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|
1429 { |
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1430 throw OrthancException(ErrorCode_UnknownResource); |
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|
1431 } |
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|
1432 |
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|
1433 int64_t parentId; |
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|
1434 if (db_->LookupParent(parentId, id)) |
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|
1435 { |
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|
1436 target = db_->GetPublicId(parentId); |
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diff
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|
1437 return true; |
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|
1438 } |
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|
1439 else |
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|
1440 { |
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|
1441 return false; |
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|
1442 } |
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|
1443 } |
310 | 1444 |
1445 | |
1446 uint64_t ServerIndex::IncrementGlobalSequence(GlobalProperty sequence) | |
1447 { | |
1448 boost::mutex::scoped_lock lock(mutex_); | |
311 | 1449 |
1450 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
1451 | |
1452 transaction->Begin(); | |
1453 uint64_t seq = db_->IncrementGlobalSequence(sequence); | |
1454 transaction->Commit(); | |
1455 | |
1456 return seq; | |
310 | 1457 } |
315 | 1458 |
1459 | |
1460 | |
1461 void ServerIndex::LogChange(ChangeType changeType, | |
1462 const std::string& publicId) | |
1463 { | |
1464 boost::mutex::scoped_lock lock(mutex_); | |
1465 std::auto_ptr<SQLite::Transaction> transaction(db_->StartTransaction()); | |
1466 transaction->Begin(); | |
1467 | |
1468 int64_t id; | |
1469 ResourceType type; | |
1470 if (!db_->LookupResource(publicId, id, type)) | |
1471 { | |
1472 throw OrthancException(ErrorCode_UnknownResource); | |
1473 } | |
1474 | |
1177
5b2d8c280ac2
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1475 db_->LogChange(changeType, id, type, publicId); |
315 | 1476 |
1477 transaction->Commit(); | |
1478 } | |
413
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diff
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|
1479 |
47d63c941902
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diff
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|
1480 |
47d63c941902
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Sebastien Jodogne <s.jodogne@gmail.com>
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399
diff
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|
1481 void ServerIndex::DeleteChanges() |
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diff
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|
1482 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
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399
diff
changeset
|
1483 boost::mutex::scoped_lock lock(mutex_); |
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diff
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|
1484 db_->ClearTable("Changes"); |
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diff
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|
1485 } |
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diff
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|
1486 |
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diff
changeset
|
1487 void ServerIndex::DeleteExportedResources() |
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diff
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|
1488 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
399
diff
changeset
|
1489 boost::mutex::scoped_lock lock(mutex_); |
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Sebastien Jodogne <s.jodogne@gmail.com>
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399
diff
changeset
|
1490 db_->ClearTable("ExportedResources"); |
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diff
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|
1491 } |
440
23e5b35e3c5c
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diff
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|
1492 |
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diff
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|
1493 |
646 | 1494 void ServerIndex::GetStatisticsInternal(/* out */ uint64_t& compressedSize, |
1495 /* out */ uint64_t& uncompressedSize, | |
1496 /* out */ unsigned int& countStudies, | |
1497 /* out */ unsigned int& countSeries, | |
1498 /* out */ unsigned int& countInstances, | |
1499 /* in */ int64_t id, | |
1500 /* in */ ResourceType type) | |
440
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diff
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|
1501 { |
646 | 1502 std::stack<int64_t> toExplore; |
1503 toExplore.push(id); | |
440
23e5b35e3c5c
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diff
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|
1504 |
646 | 1505 countInstances = 0; |
1506 countSeries = 0; | |
1507 countStudies = 0; | |
1508 compressedSize = 0; | |
1509 uncompressedSize = 0; | |
440
23e5b35e3c5c
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diff
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|
1510 |
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diff
changeset
|
1511 while (!toExplore.empty()) |
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diff
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|
1512 { |
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diff
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|
1513 // Get the internal ID of the current resource |
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diff
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|
1514 int64_t resource = toExplore.top(); |
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diff
changeset
|
1515 toExplore.pop(); |
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diff
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|
1516 |
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diff
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|
1517 ResourceType thisType = db_->GetResourceType(resource); |
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diff
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|
1518 |
702
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delete custom attachment
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diff
changeset
|
1519 std::list<FileContentType> f; |
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diff
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|
1520 db_->ListAvailableAttachments(f, resource); |
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diff
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|
1521 |
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diff
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|
1522 for (std::list<FileContentType>::const_iterator |
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diff
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|
1523 it = f.begin(); it != f.end(); ++it) |
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diff
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|
1524 { |
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diff
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|
1525 FileInfo attachment; |
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diff
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|
1526 if (db_->LookupAttachment(attachment, resource, *it)) |
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diff
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|
1527 { |
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diff
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|
1528 compressedSize += attachment.GetCompressedSize(); |
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|
1529 uncompressedSize += attachment.GetUncompressedSize(); |
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diff
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|
1530 } |
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diff
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|
1531 } |
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diff
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|
1532 |
440
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|
1533 if (thisType == ResourceType_Instance) |
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1534 { |
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|
1535 countInstances++; |
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1536 } |
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1537 else |
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diff
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|
1538 { |
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diff
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|
1539 switch (thisType) |
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1540 { |
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|
1541 case ResourceType_Study: |
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1542 countStudies++; |
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|
1543 break; |
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diff
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1544 |
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diff
changeset
|
1545 case ResourceType_Series: |
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|
1546 countSeries++; |
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diff
changeset
|
1547 break; |
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diff
changeset
|
1548 |
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diff
changeset
|
1549 default: |
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diff
changeset
|
1550 break; |
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changeset
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1551 } |
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changeset
|
1552 |
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diff
changeset
|
1553 // Tag all the children of this resource as to be explored |
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|
1554 std::list<int64_t> tmp; |
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diff
changeset
|
1555 db_->GetChildrenInternalId(tmp, resource); |
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1556 for (std::list<int64_t>::const_iterator |
656 | 1557 it = tmp.begin(); it != tmp.end(); ++it) |
440
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1558 { |
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1559 toExplore.push(*it); |
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1560 } |
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1561 } |
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1562 } |
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1563 |
646 | 1564 if (countStudies == 0) |
1565 { | |
1566 countStudies = 1; | |
1567 } | |
1568 | |
1569 if (countSeries == 0) | |
1570 { | |
1571 countSeries = 1; | |
1572 } | |
1573 } | |
1574 | |
1575 | |
1576 | |
1577 void ServerIndex::GetStatistics(Json::Value& target, | |
1578 const std::string& publicId) | |
1579 { | |
1580 boost::mutex::scoped_lock lock(mutex_); | |
1581 | |
1582 ResourceType type; | |
1583 int64_t top; | |
1584 if (!db_->LookupResource(publicId, top, type)) | |
1585 { | |
1586 throw OrthancException(ErrorCode_UnknownResource); | |
1587 } | |
1588 | |
1589 uint64_t uncompressedSize; | |
1590 uint64_t compressedSize; | |
1591 unsigned int countStudies; | |
1592 unsigned int countSeries; | |
1593 unsigned int countInstances; | |
1594 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1595 countSeries, countInstances, top, type); | |
1596 | |
440
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1597 target = Json::objectValue; |
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1598 target["DiskSize"] = boost::lexical_cast<std::string>(compressedSize); |
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1599 target["DiskSizeMB"] = boost::lexical_cast<unsigned int>(compressedSize / MEGA_BYTES); |
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1600 target["UncompressedSize"] = boost::lexical_cast<std::string>(uncompressedSize); |
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1601 target["UncompressedSizeMB"] = boost::lexical_cast<unsigned int>(uncompressedSize / MEGA_BYTES); |
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1602 |
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1603 switch (type) |
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1604 { |
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1605 // Do NOT add "break" below this point! |
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1606 case ResourceType_Patient: |
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1607 target["CountStudies"] = countStudies; |
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1608 |
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1609 case ResourceType_Study: |
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1610 target["CountSeries"] = countSeries; |
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1611 |
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1612 case ResourceType_Series: |
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1613 target["CountInstances"] = countInstances; |
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1614 |
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1615 case ResourceType_Instance: |
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1616 default: |
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1617 break; |
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1618 } |
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1619 } |
511
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1620 |
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1621 |
646 | 1622 void ServerIndex::GetStatistics(/* out */ uint64_t& compressedSize, |
1623 /* out */ uint64_t& uncompressedSize, | |
1624 /* out */ unsigned int& countStudies, | |
1625 /* out */ unsigned int& countSeries, | |
1626 /* out */ unsigned int& countInstances, | |
1627 const std::string& publicId) | |
1628 { | |
1629 boost::mutex::scoped_lock lock(mutex_); | |
1630 | |
1631 ResourceType type; | |
1632 int64_t top; | |
1633 if (!db_->LookupResource(publicId, top, type)) | |
1634 { | |
1635 throw OrthancException(ErrorCode_UnknownResource); | |
1636 } | |
1637 | |
1638 GetStatisticsInternal(compressedSize, uncompressedSize, countStudies, | |
1639 countSeries, countInstances, top, type); | |
1640 } | |
1641 | |
1642 | |
511
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1643 void ServerIndex::UnstableResourcesMonitorThread(ServerIndex* that) |
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1644 { |
810
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1645 int stableAge = Configuration::GetGlobalIntegerParameter("StableAge", 60); |
511
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1646 if (stableAge <= 0) |
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1647 { |
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1648 stableAge = 60; |
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1649 } |
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1650 |
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1651 LOG(INFO) << "Starting the monitor for stable resources (stable age = " << stableAge << ")"; |
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1652 |
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1653 while (!that->done_) |
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1654 { |
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1655 // Check for stable resources each second |
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1656 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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1657 |
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1658 boost::mutex::scoped_lock lock(that->mutex_); |
513 | 1659 |
511
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1660 while (!that->unstableResources_.IsEmpty() && |
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1661 that->unstableResources_.GetOldestPayload().GetAge() > static_cast<unsigned int>(stableAge)) |
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1662 { |
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1663 // This DICOM resource has not received any new instance for |
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1664 // some time. It can be considered as stable. |
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1665 |
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1666 UnstableResourcePayload payload; |
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1667 int64_t id = that->unstableResources_.RemoveOldest(payload); |
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1668 |
513 | 1669 // Ensure that the resource is still existing before logging the change |
1670 if (that->db_->IsExistingResource(id)) | |
511
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1671 { |
1177
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diff
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|
1672 switch (payload.GetResourceType()) |
513 | 1673 { |
1177
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1674 case ResourceType_Patient: |
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diff
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1675 that->db_->LogChange(ChangeType_StablePatient, id, ResourceType_Patient, payload.GetPublicId()); |
513 | 1676 break; |
511
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1677 |
1177
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1678 case ResourceType_Study: |
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diff
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|
1679 that->db_->LogChange(ChangeType_StableStudy, id, ResourceType_Study, payload.GetPublicId()); |
513 | 1680 break; |
511
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1681 |
1177
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1682 case ResourceType_Series: |
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diff
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|
1683 that->db_->LogChange(ChangeType_StableSeries, id, ResourceType_Series, payload.GetPublicId()); |
513 | 1684 break; |
1685 | |
1686 default: | |
1687 throw OrthancException(ErrorCode_InternalError); | |
1688 } | |
1689 | |
1690 //LOG(INFO) << "Stable resource: " << EnumerationToString(payload.type_) << " " << id; | |
511
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1691 } |
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1692 } |
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1693 } |
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1694 |
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1695 LOG(INFO) << "Closing the monitor thread for stable resources"; |
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1696 } |
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1697 |
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1698 |
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1699 void ServerIndex::MarkAsUnstable(int64_t id, |
1177
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1700 Orthanc::ResourceType type, |
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1701 const std::string& publicId) |
511
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1702 { |
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1703 // WARNING: Before calling this method, "mutex_" must be locked. |
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1704 |
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1705 assert(type == Orthanc::ResourceType_Patient || |
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1706 type == Orthanc::ResourceType_Study || |
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1707 type == Orthanc::ResourceType_Series); |
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1708 |
1177
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1709 UnstableResourcePayload payload(type, publicId); |
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|
1710 unstableResources_.AddOrMakeMostRecent(id, payload); |
511
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1711 //LOG(INFO) << "Unstable resource: " << EnumerationToString(type) << " " << id; |
1189
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NewChildInstance change type
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|
1712 |
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|
1713 db_->LogChange(ChangeType_NewChildInstance, id, type, publicId); |
511
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1714 } |
521 | 1715 |
1716 | |
1717 | |
1162 | 1718 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1719 const DicomTag& tag, | |
1720 const std::string& value, | |
1721 ResourceType type) | |
615 | 1722 { |
1723 result.clear(); | |
1724 | |
1725 boost::mutex::scoped_lock lock(mutex_); | |
1726 | |
1727 std::list<int64_t> id; | |
1162 | 1728 db_->LookupIdentifier(id, tag, value); |
615 | 1729 |
1730 for (std::list<int64_t>::const_iterator | |
656 | 1731 it = id.begin(); it != id.end(); ++it) |
615 | 1732 { |
1733 if (db_->GetResourceType(*it) == type) | |
1734 { | |
1735 result.push_back(db_->GetPublicId(*it)); | |
1736 } | |
1737 } | |
1738 } | |
1739 | |
1740 | |
1162 | 1741 void ServerIndex::LookupIdentifier(std::list<std::string>& result, |
1742 const DicomTag& tag, | |
1743 const std::string& value) | |
521 | 1744 { |
1745 result.clear(); | |
1746 | |
1747 boost::mutex::scoped_lock lock(mutex_); | |
1748 | |
1749 std::list<int64_t> id; | |
1162 | 1750 db_->LookupIdentifier(id, tag, value); |
521 | 1751 |
1752 for (std::list<int64_t>::const_iterator | |
656 | 1753 it = id.begin(); it != id.end(); ++it) |
521 | 1754 { |
1755 result.push_back(db_->GetPublicId(*it)); | |
1756 } | |
1757 } | |
1758 | |
1759 | |
1162 | 1760 void ServerIndex::LookupIdentifier(std::list< std::pair<ResourceType, std::string> >& result, |
1761 const std::string& value) | |
521 | 1762 { |
1763 result.clear(); | |
1764 | |
1765 boost::mutex::scoped_lock lock(mutex_); | |
1766 | |
1767 std::list<int64_t> id; | |
1162 | 1768 db_->LookupIdentifier(id, value); |
521 | 1769 |
1770 for (std::list<int64_t>::const_iterator | |
656 | 1771 it = id.begin(); it != id.end(); ++it) |
521 | 1772 { |
1139
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1773 result.push_back(std::make_pair(db_->GetResourceType(*it), |
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1774 db_->GetPublicId(*it))); |
521 | 1775 } |
1776 } | |
699
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1777 |
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1778 |
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1779 StoreStatus ServerIndex::AddAttachment(const FileInfo& attachment, |
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1780 const std::string& publicId) |
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1781 { |
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1782 boost::mutex::scoped_lock lock(mutex_); |
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1783 |
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1784 Transaction t(*this); |
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1785 |
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1786 ResourceType resourceType; |
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1787 int64_t resourceId; |
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1788 if (!db_->LookupResource(publicId, resourceId, resourceType)) |
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1789 { |
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1790 return StoreStatus_Failure; // Inexistent resource |
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1791 } |
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1792 |
704
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1793 // Remove possible previous attachment |
699
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1794 db_->DeleteAttachment(resourceId, attachment.GetContentType()); |
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1795 |
704
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1796 // Locate the patient of the target resource |
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1797 int64_t patientId = resourceId; |
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1798 for (;;) |
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1799 { |
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1800 int64_t parent; |
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1801 if (db_->LookupParent(parent, patientId)) |
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1802 { |
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1803 // We have not reached the patient level yet |
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1804 patientId = parent; |
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1805 } |
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1806 else |
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1807 { |
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1808 // We have reached the patient level |
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1809 break; |
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1810 } |
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1811 } |
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1812 |
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1813 // Possibly apply the recycling mechanism while preserving this patient |
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1814 assert(db_->GetResourceType(patientId) == ResourceType_Patient); |
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1815 Recycle(attachment.GetCompressedSize(), db_->GetPublicId(patientId)); |
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1816 |
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1817 db_->AddAttachment(resourceId, attachment); |
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1818 |
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1819 t.Commit(attachment.GetCompressedSize()); |
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1820 |
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1821 return StoreStatus_Success; |
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1822 } |
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1823 |
702
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1824 |
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1825 void ServerIndex::DeleteAttachment(const std::string& publicId, |
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1826 FileContentType type) |
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1827 { |
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1828 boost::mutex::scoped_lock lock(mutex_); |
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1829 listener_->Reset(); |
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1830 |
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1831 Transaction t(*this); |
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1832 |
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1833 ResourceType rtype; |
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1834 int64_t id; |
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1835 if (!db_->LookupResource(publicId, id, rtype)) |
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1836 { |
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1837 throw OrthancException(ErrorCode_UnknownResource); |
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1838 } |
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1839 |
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1840 db_->DeleteAttachment(id, type); |
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1841 |
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1842 t.Commit(0); |
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1843 } |
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1844 |
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1845 |
1002
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1846 bool ServerIndex::GetMetadata(Json::Value& target, |
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1847 const std::string& publicId) |
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1848 { |
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1849 boost::mutex::scoped_lock lock(mutex_); |
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1850 |
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1851 target = Json::objectValue; |
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1852 |
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1853 ResourceType type; |
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1854 int64_t id; |
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1855 if (!db_->LookupResource(publicId, id, type)) |
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1856 { |
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1857 return false; |
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1858 } |
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1859 |
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1860 std::list<MetadataType> metadata; |
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1861 db_->ListAvailableMetadata(metadata, id); |
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1862 |
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1863 for (std::list<MetadataType>::const_iterator |
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1864 it = metadata.begin(); it != metadata.end(); it++) |
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1865 { |
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1866 std::string key = EnumerationToString(*it); |
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1867 std::string value = db_->GetMetadata(id, *it); |
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1868 target[key] = value; |
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1869 } |
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1870 |
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1871 return true; |
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1872 } |
0 | 1873 } |