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annotate OrthancFramework/Sources/FileStorage/FilesystemStorage.cpp @ 5742:078b724dcbf8

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if frame decoding fails, transcode to LittleEndianExplicit using plugins and decode with built-in decoder
author Alain Mazy <am@orthanc.team>
date Thu, 29 Aug 2024 12:33:41 +0200
parents 2fe77dfe0466
children
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2023 Osimis S.A., Belgium
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6 * Copyright (C) 2024-2024 Orthanc Team SRL, Belgium
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7 * Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium
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8 *
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9 * This program is free software: you can redistribute it and/or
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10 * modify it under the terms of the GNU Lesser General Public License
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11 * as published by the Free Software Foundation, either version 3 of
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12 * the License, or (at your option) any later version.
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13 *
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14 * This program is distributed in the hope that it will be useful, but
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15 * WITHOUT ANY WARRANTY; without even the implied warranty of
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16 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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17 * Lesser General Public License for more details.
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18 *
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19 * You should have received a copy of the GNU Lesser General Public
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20 * License along with this program. If not, see
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21 * <http://www.gnu.org/licenses/>.
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22 **/
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24
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25 #include "../PrecompiledHeaders.h"
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26 #include "FilesystemStorage.h"
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27 #include <boost/thread.hpp>
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29 // http://stackoverflow.com/questions/1576272/storing-large-number-of-files-in-file-system
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30 // http://stackoverflow.com/questions/446358/storing-a-large-number-of-images
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32 #include "../Logging.h"
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33 #include "../OrthancException.h"
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34 #include "../StringMemoryBuffer.h"
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35 #include "../SystemToolbox.h"
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36 #include "../Toolbox.h"
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38 #include <boost/filesystem/fstream.hpp>
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39
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41 static std::string ToString(const boost::filesystem::path& p)
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42 {
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43 #if BOOST_HAS_FILESYSTEM_V3 == 1
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44 return p.filename().string();
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45 #else
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46 return p.filename();
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47 #endif
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48 }
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51 namespace Orthanc
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52 {
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53 boost::filesystem::path FilesystemStorage::GetPath(const std::string& uuid) const
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54 {
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55 namespace fs = boost::filesystem;
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56
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57 if (!Toolbox::IsUuid(uuid))
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58 {
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59 throw OrthancException(ErrorCode_ParameterOutOfRange);
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60 }
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62 fs::path path = root_;
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64 path /= std::string(&uuid[0], &uuid[2]);
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65 path /= std::string(&uuid[2], &uuid[4]);
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66 path /= uuid;
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67
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68 #if BOOST_HAS_FILESYSTEM_V3 == 1
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69 path.make_preferred();
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70 #endif
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72 return path;
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73 }
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74
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75 void FilesystemStorage::Setup(const std::string& root)
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76 {
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77 //root_ = boost::filesystem::absolute(root).string();
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78 root_ = root;
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80 SystemToolbox::MakeDirectory(root);
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81 }
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82
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83 FilesystemStorage::FilesystemStorage(const std::string &root) :
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84 fsyncOnWrite_(false)
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85 {
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86 Setup(root);
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87 }
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88
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89 FilesystemStorage::FilesystemStorage(const std::string &root,
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90 bool fsyncOnWrite) :
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91 fsyncOnWrite_(fsyncOnWrite)
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92 {
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93 Setup(root);
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94 }
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98 static const char* GetDescriptionInternal(FileContentType content)
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99 {
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100 // This function is for logging only (internal use), a more
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101 // fully-featured version is available in ServerEnumerations.cpp
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102 switch (content)
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103 {
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104 case FileContentType_Unknown:
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105 return "Unknown";
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106
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107 case FileContentType_Dicom:
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108 return "DICOM";
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109
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110 case FileContentType_DicomAsJson:
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111 return "JSON summary of DICOM";
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112
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113 case FileContentType_DicomUntilPixelData:
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114 return "DICOM until pixel data";
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115
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116 default:
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117 return "User-defined";
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118 }
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119 }
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121
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122 void FilesystemStorage::Create(const std::string& uuid,
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123 const void* content,
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124 size_t size,
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125 FileContentType type)
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126 {
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127 Toolbox::ElapsedTimer timer;
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128 LOG(INFO) << "Creating attachment \"" << uuid << "\" of \"" << GetDescriptionInternal(type)
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129 << "\" type";
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130
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131 boost::filesystem::path path;
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132
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133 path = GetPath(uuid);
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134
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135 if (boost::filesystem::exists(path))
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136 {
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137 // Extremely unlikely case: This Uuid has already been created
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138 // in the past.
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139 throw OrthancException(ErrorCode_InternalError, "This file UUID already exists");
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140 }
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141
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142 // In very unlikely cases, a thread could be deleting a
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143 // directory while another thread needs it -> introduce 3 retries at 1 ms interval
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144 int retryCount = 0;
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145 const int maxRetryCount = 3;
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146
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147 while (retryCount < maxRetryCount)
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148 {
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149 retryCount++;
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150 if (retryCount > 1)
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151 {
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152 boost::this_thread::sleep(boost::posix_time::milliseconds(2 * retryCount + (rand() % 10)));
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153 LOG(INFO) << "Retrying to create attachment \"" << uuid << "\" of \"" << GetDescriptionInternal(type)
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154 << "\" type";
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155 }
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156
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157 try
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158 {
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159 boost::filesystem::create_directories(path.parent_path()); // the function ensures that the directory exists or throws
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160 }
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161 catch (boost::filesystem::filesystem_error& er)
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162 {
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163 if (er.code() == boost::system::errc::file_exists // the last element of the parent_path is a file
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164 || er.code() == boost::system::errc::not_a_directory) // one of the element of the parent_path is not a directory
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165 {
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166 throw OrthancException(ErrorCode_DirectoryOverFile, "One of the element of the path is a file"); // no need to retry this error
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167 }
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168
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169 // ignore other errors and retry
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170 }
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171
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172 try
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173 {
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174 SystemToolbox::WriteFile(content, size, path.string(), fsyncOnWrite_);
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175
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176 LOG(INFO) << "Created attachment \"" << uuid << "\" (" << timer.GetHumanTransferSpeed(true, size) << ")";
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177 return;
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178 }
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179 catch (OrthancException& ex)
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180 {
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181 if (retryCount >= maxRetryCount)
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182 {
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183 throw ex;
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184 }
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185 }
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186 }
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187 }
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188
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189
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190 IMemoryBuffer* FilesystemStorage::Read(const std::string& uuid,
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191 FileContentType type)
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192 {
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193 Toolbox::ElapsedTimer timer;
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194 LOG(INFO) << "Reading attachment \"" << uuid << "\" of \"" << GetDescriptionInternal(type)
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195 << "\" content type";
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196
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197 std::string content;
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198 SystemToolbox::ReadFile(content, GetPath(uuid).string());
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199
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200 LOG(INFO) << "Read attachment \"" << uuid << "\" (" << timer.GetHumanTransferSpeed(true, content.size()) << ")";
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201
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202 return StringMemoryBuffer::CreateFromSwap(content);
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203 }
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204
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205
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206 IMemoryBuffer* FilesystemStorage::ReadRange(const std::string& uuid,
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207 FileContentType type,
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208 uint64_t start /* inclusive */,
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209 uint64_t end /* exclusive */)
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210 {
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211 Toolbox::ElapsedTimer timer;
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212 LOG(INFO) << "Reading attachment \"" << uuid << "\" of \"" << GetDescriptionInternal(type)
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213 << "\" content type (range from " << start << " to " << end << ")";
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214
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215 std::string content;
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216 SystemToolbox::ReadFileRange(
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217 content, GetPath(uuid).string(), start, end, true /* throw if overflow */);
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218
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219 LOG(INFO) << "Read range of attachment \"" << uuid << "\" (" << timer.GetHumanTransferSpeed(true, content.size()) << ")";
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220 return StringMemoryBuffer::CreateFromSwap(content);
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221 }
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222
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223
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224 bool FilesystemStorage::HasReadRange() const
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225 {
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226 return true;
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227 }
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228
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229
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230 uintmax_t FilesystemStorage::GetSize(const std::string& uuid) const
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231 {
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232 boost::filesystem::path path = GetPath(uuid);
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233 return boost::filesystem::file_size(path);
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234 }
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235
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236
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237
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238 void FilesystemStorage::ListAllFiles(std::set<std::string>& result) const
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239 {
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240 namespace fs = boost::filesystem;
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241
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242 result.clear();
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243
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244 if (fs::exists(root_) && fs::is_directory(root_))
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245 {
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246 for (fs::recursive_directory_iterator current(root_), end; current != end ; ++current)
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247 {
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248 if (SystemToolbox::IsRegularFile(current->path().string()))
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249 {
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250 try
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251 {
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252 fs::path d = current->path();
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253 std::string uuid = ToString(d);
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254 if (Toolbox::IsUuid(uuid))
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255 {
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256 fs::path p0 = d.parent_path().parent_path().parent_path();
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257 std::string p1 = ToString(d.parent_path().parent_path());
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258 std::string p2 = ToString(d.parent_path());
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259 if (p1.length() == 2 &&
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260 p2.length() == 2 &&
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261 p1 == uuid.substr(0, 2) &&
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262 p2 == uuid.substr(2, 2) &&
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263 p0 == root_)
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264 {
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265 result.insert(uuid);
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266 }
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267 }
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268 }
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269 catch (fs::filesystem_error&)
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270 {
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271 }
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272 }
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273 }
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274 }
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275 }
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276
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277
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278 void FilesystemStorage::Clear()
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279 {
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280 namespace fs = boost::filesystem;
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281 typedef std::set<std::string> List;
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282
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283 List result;
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284 ListAllFiles(result);
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285
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286 for (List::const_iterator it = result.begin(); it != result.end(); ++it)
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287 {
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288 Remove(*it, FileContentType_Unknown /*ignored in this class*/);
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289 }
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290 }
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291
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292
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293 void FilesystemStorage::Remove(const std::string& uuid,
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294 FileContentType type)
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295 {
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296 LOG(INFO) << "Deleting attachment \"" << uuid << "\" of type " << static_cast<int>(type);
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297
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298 namespace fs = boost::filesystem;
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299
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300 fs::path p = GetPath(uuid);
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301
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302 try
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303 {
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304 fs::remove(p);
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305 }
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306 catch (...)
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307 {
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308 // Ignore the error
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309 }
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310
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311 // Remove the two parent directories, ignoring the error code if
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312 // these directories are not empty
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313
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314 try
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315 {
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316 #if BOOST_HAS_FILESYSTEM_V3 == 1
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317 boost::system::error_code err;
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318 fs::remove(p.parent_path(), err);
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319 fs::remove(p.parent_path().parent_path(), err);
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320 #else
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321 fs::remove(p.parent_path());
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322 fs::remove(p.parent_path().parent_path());
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323 #endif
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324 }
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325 catch (...)
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326 {
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327 // Ignore the error
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328 }
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329 }
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330
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331
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332 uintmax_t FilesystemStorage::GetCapacity() const
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333 {
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334 return boost::filesystem::space(root_).capacity;
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335 }
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336
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337 uintmax_t FilesystemStorage::GetAvailableSpace() const
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338 {
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339 return boost::filesystem::space(root_).available;
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340 }
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341
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342
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343 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1
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344 FilesystemStorage::FilesystemStorage(std::string root) :
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345 fsyncOnWrite_(false)
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346 {
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347 Setup(root);
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348 }
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349 #endif
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350
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351
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352 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1
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353 void FilesystemStorage::Read(std::string& content,
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354 const std::string& uuid,
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355 FileContentType type)
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356 {
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357 std::unique_ptr<IMemoryBuffer> buffer(Read(uuid, type));
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358 buffer->MoveToString(content);
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359 }
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360 #endif
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361 }