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annotate OrthancServer/OrthancRestApi/OrthancRestArchive.cpp @ 1679:15acdb19d520

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RunnableWorkersPool
author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 06 Oct 2015 13:31:40 +0200
parents 76ed4cf74bb5
children 784a6b92d2f1
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2015 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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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 "OrthancRestApi.h"
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35
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36 #include "../DicomDirWriter.h"
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37 #include "../../Core/Compression/HierarchicalZipWriter.h"
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38 #include "../../Core/HttpServer/FilesystemHttpSender.h"
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39 #include "../../Core/Logging.h"
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40 #include "../../Core/Uuid.h"
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41 #include "../ServerContext.h"
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42
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43 #include <stdio.h>
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44
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45 #if defined(_MSC_VER)
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46 #define snprintf _snprintf
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47 #endif
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48
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49 static const uint64_t MEGA_BYTES = 1024 * 1024;
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50 static const uint64_t GIGA_BYTES = 1024 * 1024 * 1024;
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51
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52 namespace Orthanc
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53 {
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54 // Download of ZIP files ----------------------------------------------------
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55
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56 static std::string GetDirectoryNameInArchive(const Json::Value& resource,
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57 ResourceType resourceType)
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58 {
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59 std::string s;
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60 const Json::Value& tags = resource["MainDicomTags"];
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61
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62 switch (resourceType)
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63 {
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64 case ResourceType_Patient:
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65 {
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66 std::string p = tags["PatientID"].asString();
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67 std::string n = tags["PatientName"].asString();
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68 s = p + " " + n;
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69 break;
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70 }
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71
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72 case ResourceType_Study:
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73 {
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74 std::string p;
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75 if (tags.isMember("AccessionNumber"))
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76 {
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77 p = tags["AccessionNumber"].asString() + " ";
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78 }
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79
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80 s = p + tags["StudyDescription"].asString();
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81 break;
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82 }
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83
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84 case ResourceType_Series:
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85 {
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86 std::string d = tags["SeriesDescription"].asString();
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87 std::string m = tags["Modality"].asString();
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88 s = m + " " + d;
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89 break;
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90 }
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91
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92 default:
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93 throw OrthancException(ErrorCode_InternalError);
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94 }
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95
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96 // Get rid of special characters
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97 return Toolbox::ConvertToAscii(s);
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98 }
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99
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100 static bool CreateRootDirectoryInArchive(HierarchicalZipWriter& writer,
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101 ServerContext& context,
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102 const Json::Value& resource,
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103 ResourceType resourceType)
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104 {
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105 if (resourceType == ResourceType_Patient)
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106 {
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107 return true;
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108 }
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109
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110 ResourceType parentType = GetParentResourceType(resourceType);
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111 Json::Value parent;
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112
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113 switch (resourceType)
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114 {
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115 case ResourceType_Study:
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116 {
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117 if (!context.GetIndex().LookupResource(parent, resource["ParentPatient"].asString(), parentType))
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118 {
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119 return false;
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120 }
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121
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122 break;
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123 }
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124
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125 case ResourceType_Series:
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126 if (!context.GetIndex().LookupResource(parent, resource["ParentStudy"].asString(), parentType) ||
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127 !CreateRootDirectoryInArchive(writer, context, parent, parentType))
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128 {
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129 return false;
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130 }
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131 break;
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132
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133 default:
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134 throw OrthancException(ErrorCode_NotImplemented);
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135 }
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136
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137 writer.OpenDirectory(GetDirectoryNameInArchive(parent, parentType).c_str());
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138 return true;
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139 }
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140
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141 static bool ArchiveInstance(HierarchicalZipWriter& writer,
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142 ServerContext& context,
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143 const std::string& instancePublicId,
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144 const char* filename)
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145 {
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146 writer.OpenFile(filename);
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147
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148 std::string dicom;
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149 context.ReadFile(dicom, instancePublicId, FileContentType_Dicom);
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150 writer.Write(dicom);
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151
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152 return true;
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153 }
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154
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155 static bool ArchiveInternal(HierarchicalZipWriter& writer,
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156 ServerContext& context,
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157 const std::string& publicId,
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158 ResourceType resourceType,
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159 bool isFirstLevel)
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160 {
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161 Json::Value resource;
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162 if (!context.GetIndex().LookupResource(resource, publicId, resourceType))
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163 {
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164 return false;
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165 }
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166
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167 if (isFirstLevel &&
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168 !CreateRootDirectoryInArchive(writer, context, resource, resourceType))
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169 {
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170 return false;
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171 }
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172
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173 writer.OpenDirectory(GetDirectoryNameInArchive(resource, resourceType).c_str());
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174
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175 switch (resourceType)
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176 {
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177 case ResourceType_Patient:
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178 for (Json::Value::ArrayIndex i = 0; i < resource["Studies"].size(); i++)
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179 {
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180 std::string studyId = resource["Studies"][i].asString();
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181 if (!ArchiveInternal(writer, context, studyId, ResourceType_Study, false))
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182 {
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183 return false;
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184 }
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185 }
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186 break;
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187
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188 case ResourceType_Study:
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189 for (Json::Value::ArrayIndex i = 0; i < resource["Series"].size(); i++)
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190 {
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191 std::string seriesId = resource["Series"][i].asString();
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192 if (!ArchiveInternal(writer, context, seriesId, ResourceType_Series, false))
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193 {
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194 return false;
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195 }
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196 }
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197 break;
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198
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199 case ResourceType_Series:
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200 {
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201 // Create a filename prefix, depending on the modality
1623
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202 char format[24] = "%08d.dcm";
751
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203
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204 if (resource["MainDicomTags"].isMember("Modality"))
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205 {
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206 std::string modality = resource["MainDicomTags"]["Modality"].asString();
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207
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208 if (modality.size() == 1)
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209 {
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210 snprintf(format, sizeof(format) - 1, "%c%%07d.dcm", toupper(modality[0]));
751
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211 }
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diff changeset
212 else if (modality.size() >= 2)
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diff changeset
213 {
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diff changeset
214 snprintf(format, sizeof(format) - 1, "%c%c%%06d.dcm", toupper(modality[0]), toupper(modality[1]));
751
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215 }
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216 }
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diff changeset
217
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diff changeset
218 char filename[24];
751
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diff changeset
219
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diff changeset
220 for (Json::Value::ArrayIndex i = 0; i < resource["Instances"].size(); i++)
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diff changeset
221 {
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diff changeset
222 snprintf(filename, sizeof(filename) - 1, format, i);
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diff changeset
223
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diff changeset
224 std::string publicId = resource["Instances"][i].asString();
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diff changeset
225
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226 // This was the implementation up to Orthanc 0.7.0:
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227 // std::string filename = instance["MainDicomTags"]["SOPInstanceUID"].asString() + ".dcm";
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diff changeset
228
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diff changeset
229 if (!ArchiveInstance(writer, context, publicId, filename))
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parents:
diff changeset
230 {
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diff changeset
231 return false;
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parents:
diff changeset
232 }
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diff changeset
233 }
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parents:
diff changeset
234
5197fd35333c refactoring of OrthancRestApi
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diff changeset
235 break;
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diff changeset
236 }
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
237
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
238 default:
5197fd35333c refactoring of OrthancRestApi
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diff changeset
239 throw OrthancException(ErrorCode_InternalError);
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parents:
diff changeset
240 }
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parents:
diff changeset
241
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diff changeset
242 writer.CloseDirectory();
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diff changeset
243 return true;
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parents:
diff changeset
244 }
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
245
1121
82567bac5e25 Creation of ZIP archives for media storage, with DICOMDIR
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parents: 976
diff changeset
246
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diff changeset
247 static bool IsZip64Required(ServerIndex& index,
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diff changeset
248 const std::string& id)
751
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diff changeset
249 {
5197fd35333c refactoring of OrthancRestApi
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diff changeset
250 /**
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251 * Determine whether ZIP64 is required. Original ZIP format can
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252 * store up to 2GB of data (some implementation supporting up to
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diff changeset
253 * 4GB of data), and up to 65535 files.
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diff changeset
254 * https://en.wikipedia.org/wiki/Zip_(file_format)#ZIP64
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parents:
diff changeset
255 **/
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
256
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
257 uint64_t uncompressedSize;
5197fd35333c refactoring of OrthancRestApi
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diff changeset
258 uint64_t compressedSize;
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
259 unsigned int countStudies;
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
260 unsigned int countSeries;
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
261 unsigned int countInstances;
1121
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diff changeset
262 index.GetStatistics(compressedSize, uncompressedSize,
82567bac5e25 Creation of ZIP archives for media storage, with DICOMDIR
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parents: 976
diff changeset
263 countStudies, countSeries, countInstances, id);
751
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diff changeset
264 const bool isZip64 = (uncompressedSize >= 2 * GIGA_BYTES ||
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
265 countInstances >= 65535);
5197fd35333c refactoring of OrthancRestApi
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diff changeset
266
5197fd35333c refactoring of OrthancRestApi
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diff changeset
267 LOG(INFO) << "Creating a ZIP file with " << countInstances << " files of size "
5197fd35333c refactoring of OrthancRestApi
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parents:
diff changeset
268 << (uncompressedSize / MEGA_BYTES) << "MB using the "
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parents:
diff changeset
269 << (isZip64 ? "ZIP64" : "ZIP32") << " file format";
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parents:
diff changeset
270
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diff changeset
271 return isZip64;
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diff changeset
272 }
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diff changeset
273
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diff changeset
274
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diff changeset
275 template <enum ResourceType resourceType>
82567bac5e25 Creation of ZIP archives for media storage, with DICOMDIR
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diff changeset
276 static void GetArchive(RestApiGetCall& call)
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parents: 976
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277 {
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278 ServerContext& context = OrthancRestApi::GetContext(call);
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279
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280 std::string id = call.GetUriComponent("id", "");
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281 bool isZip64 = IsZip64Required(context.GetIndex(), id);
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282
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283 // Create a RAII for the temporary file to manage the ZIP file
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284 Toolbox::TemporaryFile tmp;
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285
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286 {
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287 // Create a ZIP writer
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288 HierarchicalZipWriter writer(tmp.GetPath().c_str());
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289 writer.SetZip64(isZip64);
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290
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291 // Store the requested resource into the ZIP
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292 if (!ArchiveInternal(writer, context, id, resourceType, true))
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293 {
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294 return;
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295 }
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296 }
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297
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298 // Prepare the sending of the ZIP file
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299 FilesystemHttpSender sender(tmp.GetPath());
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300 sender.SetContentType("application/zip");
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301 sender.SetContentFilename(id + ".zip");
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302
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303 // Send the ZIP
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304 call.GetOutput().AnswerStream(sender);
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305
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306 // The temporary file is automatically removed thanks to the RAII
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307 }
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308
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309
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310 static void GetMediaArchive(RestApiGetCall& call)
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311 {
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312 ServerContext& context = OrthancRestApi::GetContext(call);
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313
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314 std::string id = call.GetUriComponent("id", "");
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315 bool isZip64 = IsZip64Required(context.GetIndex(), id);
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316
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317 // Create a RAII for the temporary file to manage the ZIP file
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318 Toolbox::TemporaryFile tmp;
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319
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320 {
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321 // Create a ZIP writer
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322 HierarchicalZipWriter writer(tmp.GetPath().c_str());
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323 writer.SetZip64(isZip64);
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324 writer.OpenDirectory("IMAGES");
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325
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326 // Create the DICOMDIR writer
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327 DicomDirWriter dicomDir;
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328
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329 // Retrieve the list of the instances
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330 std::list<std::string> instances;
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331 context.GetIndex().GetChildInstances(instances, id);
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332
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333 size_t pos = 0;
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334 for (std::list<std::string>::const_iterator
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335 it = instances.begin(); it != instances.end(); ++it, ++pos)
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336 {
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337 // "DICOM restricts the filenames on DICOM media to 8
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338 // characters (some systems wrongly use 8.3, but this does not
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339 // conform to the standard)."
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340 std::string filename = "IM" + boost::lexical_cast<std::string>(pos);
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341 writer.OpenFile(filename.c_str());
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342
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343 std::string dicom;
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344 context.ReadFile(dicom, *it, FileContentType_Dicom);
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345 writer.Write(dicom);
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346
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347 ParsedDicomFile parsed(dicom);
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348 dicomDir.Add("IMAGES", filename, parsed);
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349 }
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350
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351 // Add the DICOMDIR
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352 writer.CloseDirectory();
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353 writer.OpenFile("DICOMDIR");
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354 std::string s;
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355 dicomDir.Encode(s);
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356 writer.Write(s);
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357 }
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358
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359 // Prepare the sending of the ZIP file
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360 FilesystemHttpSender sender(tmp.GetPath());
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361 sender.SetContentType("application/zip");
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362 sender.SetContentFilename(id + ".zip");
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363
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364 // Send the ZIP
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365 call.GetOutput().AnswerStream(sender);
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366
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367 // The temporary file is automatically removed thanks to the RAII
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368 }
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369
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370
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371 void OrthancRestApi::RegisterArchive()
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372 {
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373 Register("/patients/{id}/archive", GetArchive<ResourceType_Patient>);
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374 Register("/studies/{id}/archive", GetArchive<ResourceType_Study>);
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375 Register("/series/{id}/archive", GetArchive<ResourceType_Series>);
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376
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377 Register("/patients/{id}/media", GetMediaArchive);
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378 Register("/studies/{id}/media", GetMediaArchive);
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379 Register("/series/{id}/media", GetMediaArchive);
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380 }
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381 }