Mercurial > hg > orthanc

annotate OrthancServer/ServerContext.cpp @ 1002:b067017a8a5b lua-scripting

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anonymization refactoring
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 04 Jul 2014 16:31:14 +0200
parents f3929718ea7e
children a226e0959d8b
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2014 Medical Physics Department, CHU of Liege,
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4 * Belgium
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5 *
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6 * This program is free software: you can redistribute it and/or
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7 * modify it under the terms of the GNU General Public License as
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8 * published by the Free Software Foundation, either version 3 of the
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9 * License, or (at your option) any later version.
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10 *
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11 * In addition, as a special exception, the copyright holders of this
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12 * program give permission to link the code of its release with the
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13 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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14 * that use the same license as the "OpenSSL" library), and distribute
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15 * the linked executables. You must obey the GNU General Public License
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16 * in all respects for all of the code used other than "OpenSSL". If you
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17 * modify file(s) with this exception, you may extend this exception to
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18 * your version of the file(s), but you are not obligated to do so. If
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19 * you do not wish to do so, delete this exception statement from your
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20 * version. If you delete this exception statement from all source files
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21 * in the program, then also delete it here.
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22 *
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23 * This program is distributed in the hope that it will be useful, but
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24 * WITHOUT ANY WARRANTY; without even the implied warranty of
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25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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26 * General Public License for more details.
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27 *
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28 * You should have received a copy of the GNU General Public License
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29 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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30 **/
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31
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32
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33 #include "PrecompiledHeadersServer.h"
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34 #include "ServerContext.h"
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35
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36 #include "../Core/HttpServer/FilesystemHttpSender.h"
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37 #include "../Core/Lua/LuaFunctionCall.h"
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38 #include "FromDcmtkBridge.h"
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39 #include "ServerToolbox.h"
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40 #include "OrthancInitialization.h"
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41
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42 #include <glog/logging.h>
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43 #include <EmbeddedResources.h>
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44 #include <dcmtk/dcmdata/dcfilefo.h>
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45
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46
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47 #include "Scheduler/DeleteInstanceCommand.h"
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48 #include "Scheduler/StoreScuCommand.h"
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49
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51
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52 #define ENABLE_DICOM_CACHE 1
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53
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54 static const char* RECEIVED_INSTANCE_FILTER = "ReceivedInstanceFilter";
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55 static const char* ON_STORED_INSTANCE = "OnStoredInstance";
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56
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57 static const size_t DICOM_CACHE_SIZE = 2;
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58
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59 /**
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60 * IMPORTANT: We make the assumption that the same instance of
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61 * FileStorage can be accessed from multiple threads. This seems OK
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62 * since the filesystem implements the required locking mechanisms,
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63 * but maybe a read-writer lock on the "FileStorage" could be
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64 * useful. Conversely, "ServerIndex" already implements mutex-based
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65 * locking.
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66 **/
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67
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68 namespace Orthanc
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69 {
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70 ServerContext::ServerContext(const boost::filesystem::path& storagePath,
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71 const boost::filesystem::path& indexPath) :
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72 storage_(storagePath.string()),
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73 index_(*this, indexPath.string()),
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74 accessor_(storage_),
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75 compressionEnabled_(false),
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76 provider_(*this),
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77 dicomCache_(provider_, DICOM_CACHE_SIZE),
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78 scheduler_(Configuration::GetGlobalIntegerParameter("LimitJobs", 10))
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79 {
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80 scu_.SetLocalApplicationEntityTitle(Configuration::GetGlobalStringParameter("DicomAet", "ORTHANC"));
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81 //scu_.SetMillisecondsBeforeClose(1); // The connection is always released
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82
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83 lua_.Execute(Orthanc::EmbeddedResources::LUA_TOOLBOX);
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84 }
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85
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86 void ServerContext::SetCompressionEnabled(bool enabled)
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87 {
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88 if (enabled)
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89 LOG(WARNING) << "Disk compression is enabled";
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90 else
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91 LOG(WARNING) << "Disk compression is disabled";
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92
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93 compressionEnabled_ = enabled;
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94 }
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95
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96 void ServerContext::RemoveFile(const std::string& fileUuid)
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97 {
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98 storage_.Remove(fileUuid);
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99 }
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101
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102 bool ServerContext::ApplyReceivedInstanceFilter(const Json::Value& simplified,
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103 const std::string& remoteAet)
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104 {
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105 LuaContextLocker locker(*this);
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106
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107 if (locker.GetLua().IsExistingFunction(RECEIVED_INSTANCE_FILTER))
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108 {
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109 LuaFunctionCall call(locker.GetLua(), RECEIVED_INSTANCE_FILTER);
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110 call.PushJson(simplified);
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111 call.PushString(remoteAet);
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112
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113 if (!call.ExecutePredicate())
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114 {
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115 return false;
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116 }
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117 }
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118
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119 return true;
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120 }
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121
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122
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123 void ServerContext::ApplyOnStoredInstance(const std::string& instanceId,
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124 const Json::Value& simplifiedDicom,
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125 const Json::Value& metadata)
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126 {
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127 LuaContextLocker locker(*this);
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128
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129 if (locker.GetLua().IsExistingFunction(ON_STORED_INSTANCE))
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130 {
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131 LuaFunctionCall call(locker.GetLua(), ON_STORED_INSTANCE);
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132 call.PushString(instanceId);
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133 call.PushJson(simplifiedDicom);
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134 call.PushJson(metadata);
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135
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136 Json::Value result;
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137 call.ExecuteToJson(result);
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138
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139 printf("TODO\n");
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140 std::cout << result;
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141 }
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142
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143 #if 1
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144 {
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145 // Autorouting test
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146 RemoteModalityParameters p = Configuration::GetModalityUsingSymbolicName("sample");
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147
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148 ServerJob job;
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149 ServerCommandInstance& a = job.AddCommand(new StoreScuCommand(*this, p));
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150 a.AddInput(instanceId);
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151
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152 /*ServerCommandInstance& b = job.AddCommand(new DeleteInstanceCommand(*this));
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153 a.ConnectNext(b);*/
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154
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155 job.SetDescription("Autorouting test");
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156 scheduler_.Submit(job);
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157 }
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158 #endif
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159 }
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160
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161
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162 StoreStatus ServerContext::Store(const char* dicomInstance,
224
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163 size_t dicomSize,
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164 const DicomMap& dicomSummary,
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165 const Json::Value& dicomJson,
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166 const std::string& remoteAet,
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167 const ServerIndex::MetadataMap& metadata)
224
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168 {
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169 Json::Value simplified;
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170 SimplifyTags(simplified, dicomJson);
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171
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172 // Test if the instance must be filtered out
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173 if (!ApplyReceivedInstanceFilter(simplified, remoteAet))
397
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174 {
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175 LOG(INFO) << "An incoming instance has been discarded by the filter";
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176 return StoreStatus_FilteredOut;
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177 }
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178
236
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179 if (compressionEnabled_)
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180 {
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181 accessor_.SetCompressionForNextOperations(CompressionType_Zlib);
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182 }
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183 else
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184 {
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185 accessor_.SetCompressionForNextOperations(CompressionType_None);
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186 }
232
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187
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188 FileInfo dicomInfo = accessor_.Write(dicomInstance, dicomSize, FileContentType_Dicom);
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189 FileInfo jsonInfo = accessor_.Write(dicomJson.toStyledString(), FileContentType_DicomAsJson);
232
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190
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191 ServerIndex::Attachments attachments;
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192 attachments.push_back(dicomInfo);
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193 attachments.push_back(jsonInfo);
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194
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195 StoreStatus status = index_.Store(dicomSummary, attachments, remoteAet, metadata);
224
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196
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197 if (status != StoreStatus_Success)
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198 {
232
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199 storage_.Remove(dicomInfo.GetUuid());
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200 storage_.Remove(jsonInfo.GetUuid());
224
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201 }
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202
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203 switch (status)
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204 {
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205 case StoreStatus_Success:
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206 LOG(INFO) << "New instance stored";
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207 break;
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208
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209 case StoreStatus_AlreadyStored:
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210 LOG(INFO) << "Already stored";
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211 break;
224
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212
397
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213 case StoreStatus_Failure:
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214 LOG(ERROR) << "Store failure";
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215 break;
224
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216
397
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217 default:
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218 // This should never happen
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219 break;
224
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220 }
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221
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222 if (status == StoreStatus_Success ||
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223 status == StoreStatus_AlreadyStored)
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224 {
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225 try
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226 {
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227 DicomInstanceHasher hasher(dicomSummary);
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228 std::string instanceId = hasher.HashInstance();
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229
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230 Json::Value metadata;
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231 index_.GetMetadata(metadata, instanceId);
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232
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233 ApplyOnStoredInstance(instanceId, simplified, metadata);
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234 }
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235 catch (OrthancException&)
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236 {
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237 LOG(ERROR) << "Error when dealing with OnStoredInstance";
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238 }
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239 }
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240
224
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241 return status;
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242 }
226
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243
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244
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245 void ServerContext::AnswerDicomFile(RestApiOutput& output,
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246 const std::string& instancePublicId,
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247 FileContentType content)
226
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248 {
232
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249 FileInfo attachment;
236
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250 if (!index_.LookupAttachment(attachment, instancePublicId, content))
232
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diff changeset
251 {
236
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diff changeset
252 throw OrthancException(ErrorCode_InternalError);
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253 }
226
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diff changeset
254
236
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255 accessor_.SetCompressionForNextOperations(attachment.GetCompressionType());
320
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diff changeset
256
236
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diff changeset
257 std::auto_ptr<HttpFileSender> sender(accessor_.ConstructHttpFileSender(attachment.GetUuid()));
320
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258 sender->SetContentType("application/dicom");
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259 sender->SetDownloadFilename(instancePublicId + ".dcm");
236
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diff changeset
260 output.AnswerFile(*sender);
226
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diff changeset
261 }
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diff changeset
262
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diff changeset
263
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diff changeset
264 void ServerContext::ReadJson(Json::Value& result,
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diff changeset
265 const std::string& instancePublicId)
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diff changeset
266 {
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diff changeset
267 std::string s;
697
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268 ReadFile(s, instancePublicId, FileContentType_DicomAsJson);
226
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diff changeset
269
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diff changeset
270 Json::Reader reader;
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271 if (!reader.parse(s, result))
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272 {
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273 throw OrthancException("Corrupted JSON file");
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274 }
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diff changeset
275 }
227
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diff changeset
276
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diff changeset
277
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278 void ServerContext::ReadFile(std::string& result,
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279 const std::string& instancePublicId,
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280 FileContentType content,
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281 bool uncompressIfNeeded)
227
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282 {
232
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283 FileInfo attachment;
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284 if (!index_.LookupAttachment(attachment, instancePublicId, content))
227
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285 {
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286 throw OrthancException(ErrorCode_InternalError);
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287 }
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288
697
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289 if (uncompressIfNeeded)
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290 {
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291 accessor_.SetCompressionForNextOperations(attachment.GetCompressionType());
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292 }
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293 else
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294 {
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295 accessor_.SetCompressionForNextOperations(CompressionType_None);
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296 }
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297
232
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298 accessor_.Read(result, attachment.GetUuid());
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299 }
285
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300
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301
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302 IDynamicObject* ServerContext::DicomCacheProvider::Provide(const std::string& instancePublicId)
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303 {
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304 std::string content;
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305 context_.ReadFile(content, instancePublicId, FileContentType_Dicom);
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306 return new ParsedDicomFile(content);
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307 }
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308
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309
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310 ServerContext::DicomCacheLocker::DicomCacheLocker(ServerContext& that,
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311 const std::string& instancePublicId) :
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312 that_(that)
285
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313 {
291
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314 #if ENABLE_DICOM_CACHE == 0
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315 static std::auto_ptr<IDynamicObject> p;
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316 p.reset(provider_.Provide(instancePublicId));
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317 dicom_ = dynamic_cast<ParsedDicomFile*>(p.get());
291
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318 #else
778
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319 that_.dicomCacheMutex_.lock();
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320 dicom_ = &dynamic_cast<ParsedDicomFile&>(that_.dicomCache_.Access(instancePublicId));
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321 #endif
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322 }
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323
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324
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325 ServerContext::DicomCacheLocker::~DicomCacheLocker()
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326 {
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327 #if ENABLE_DICOM_CACHE == 0
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328 #else
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329 that_.dicomCacheMutex_.unlock();
291
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diff changeset
330 #endif
285
4031f73fe0e4 access to the raw dicom tags
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331 }
304
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332
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333
792
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diff changeset
334 static DcmFileFormat& GetDicom(ParsedDicomFile& file)
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335 {
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336 return *reinterpret_cast<DcmFileFormat*>(file.GetDcmtkObject());
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337 }
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338
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339
304
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diff changeset
340 StoreStatus ServerContext::Store(std::string& resultPublicId,
791
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341 ParsedDicomFile& dicomInstance,
304
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342 const char* dicomBuffer,
1002
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343 size_t dicomSize,
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344 const ServerIndex::MetadataMap& metadata)
304
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345 {
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346 DicomMap dicomSummary;
792
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347 FromDcmtkBridge::Convert(dicomSummary, *GetDicom(dicomInstance).getDataset());
304
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diff changeset
348
730
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diff changeset
349 try
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350 {
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351 DicomInstanceHasher hasher(dicomSummary);
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diff changeset
352 resultPublicId = hasher.HashInstance();
304
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diff changeset
353
730
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diff changeset
354 Json::Value dicomJson;
792
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diff changeset
355 FromDcmtkBridge::ToJson(dicomJson, *GetDicom(dicomInstance).getDataset());
304
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diff changeset
356
730
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diff changeset
357 StoreStatus status = StoreStatus_Failure;
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diff changeset
358 if (dicomSize > 0)
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diff changeset
359 {
1002
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360 status = Store(dicomBuffer, dicomSize, dicomSummary, dicomJson, "", metadata);
730
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diff changeset
361 }
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362
309e686b41e7 better logging about nonexistent tags
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diff changeset
363 return status;
309e686b41e7 better logging about nonexistent tags
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diff changeset
364 }
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diff changeset
365 catch (OrthancException& e)
304
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diff changeset
366 {
730
309e686b41e7 better logging about nonexistent tags
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diff changeset
367 if (e.GetErrorCode() == ErrorCode_InexistentTag)
309e686b41e7 better logging about nonexistent tags
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diff changeset
368 {
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diff changeset
369 LogMissingRequiredTag(dicomSummary);
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diff changeset
370 }
304
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diff changeset
371
942
b3f6fb1130cd fixes thanks to cppcheck
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diff changeset
372 throw;
730
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diff changeset
373 }
304
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diff changeset
374 }
4eea080e6e7a refactoring
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diff changeset
375
4eea080e6e7a refactoring
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diff changeset
376
4eea080e6e7a refactoring
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diff changeset
377 StoreStatus ServerContext::Store(std::string& resultPublicId,
1002
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diff changeset
378 ParsedDicomFile& dicomInstance,
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379 const ServerIndex::MetadataMap& metadata)
304
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diff changeset
380 {
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diff changeset
381 std::string buffer;
792
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diff changeset
382 if (!FromDcmtkBridge::SaveToMemoryBuffer(buffer, GetDicom(dicomInstance).getDataset()))
304
4eea080e6e7a refactoring
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diff changeset
383 {
4eea080e6e7a refactoring
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diff changeset
384 throw OrthancException(ErrorCode_InternalError);
4eea080e6e7a refactoring
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diff changeset
385 }
4eea080e6e7a refactoring
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diff changeset
386
4eea080e6e7a refactoring
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diff changeset
387 if (buffer.size() == 0)
1002
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diff changeset
388 return Store(resultPublicId, dicomInstance, NULL, 0, metadata);
304
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diff changeset
389 else
1002
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diff changeset
390 return Store(resultPublicId, dicomInstance, &buffer[0], buffer.size(), metadata);
304
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diff changeset
391 }
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diff changeset
392
4eea080e6e7a refactoring
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diff changeset
393
4eea080e6e7a refactoring
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diff changeset
394 StoreStatus ServerContext::Store(std::string& resultPublicId,
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diff changeset
395 const char* dicomBuffer,
1002
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diff changeset
396 size_t dicomSize,
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diff changeset
397 const ServerIndex::MetadataMap& metadata)
304
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diff changeset
398 {
4eea080e6e7a refactoring
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diff changeset
399 ParsedDicomFile dicom(dicomBuffer, dicomSize);
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400 return Store(resultPublicId, dicom, dicomBuffer, dicomSize, metadata);
304
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diff changeset
401 }
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diff changeset
402
791
381f90e2b69d refactoring
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diff changeset
403
381f90e2b69d refactoring
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diff changeset
404 StoreStatus ServerContext::Store(std::string& resultPublicId,
1002
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diff changeset
405 const std::string& dicomContent,
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diff changeset
406 const ServerIndex::MetadataMap& metadata)
791
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diff changeset
407 {
381f90e2b69d refactoring
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diff changeset
408 if (dicomContent.size() == 0)
381f90e2b69d refactoring
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diff changeset
409 {
381f90e2b69d refactoring
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diff changeset
410 return Store(resultPublicId, NULL, 0);
381f90e2b69d refactoring
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diff changeset
411 }
381f90e2b69d refactoring
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parents: 778
diff changeset
412 else
381f90e2b69d refactoring
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parents: 778
diff changeset
413 {
1002
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diff changeset
414 return Store(resultPublicId, &dicomContent[0], dicomContent.size(), metadata);
791
381f90e2b69d refactoring
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parents: 778
diff changeset
415 }
381f90e2b69d refactoring
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parents: 778
diff changeset
416 }
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417
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418
695
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419 void ServerContext::SetStoreMD5ForAttachments(bool storeMD5)
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420 {
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421 LOG(INFO) << "Storing MD5 for attachments: " << (storeMD5 ? "yes" : "no");
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422 accessor_.SetStoreMD5(storeMD5);
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423 }
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424
699
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425
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426 bool ServerContext::AddAttachment(const std::string& resourceId,
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427 FileContentType attachmentType,
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428 const void* data,
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429 size_t size)
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430 {
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431 LOG(INFO) << "Adding attachment " << EnumerationToString(attachmentType) << " to resource " << resourceId;
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parents: 697
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432
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433 if (compressionEnabled_)
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434 {
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435 accessor_.SetCompressionForNextOperations(CompressionType_Zlib);
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436 }
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437 else
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438 {
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439 accessor_.SetCompressionForNextOperations(CompressionType_None);
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440 }
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441
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442 FileInfo info = accessor_.Write(data, size, attachmentType);
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443 StoreStatus status = index_.AddAttachment(info, resourceId);
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444
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445 if (status != StoreStatus_Success)
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446 {
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447 storage_.Remove(info.GetUuid());
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448 return false;
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449 }
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450 else
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451 {
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452 return true;
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453 }
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454 }
224
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455 }