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annotate OrthancServer/ServerToolbox.cpp @ 3085:c829758b9ca0 db-changes

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reorganization
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 04 Jan 2019 16:52:53 +0100
parents 683d572424b6
children d498ece73562
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
1900
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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) 2017-2019 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU General Public License as
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9 * published by the Free Software Foundation, either version 3 of the
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10 * License, or (at your option) any later version.
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11 *
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12 * In addition, as a special exception, the copyright holders of this
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13 * program give permission to link the code of its release with the
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14 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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15 * that use the same license as the "OpenSSL" library), and distribute
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16 * the linked executables. You must obey the GNU General Public License
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17 * in all respects for all of the code used other than "OpenSSL". If you
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18 * modify file(s) with this exception, you may extend this exception to
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19 * your version of the file(s), but you are not obligated to do so. If
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20 * you do not wish to do so, delete this exception statement from your
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21 * version. If you delete this exception statement from all source files
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22 * in the program, then also delete it here.
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23 *
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24 * This program is distributed in the hope that it will be useful, but
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25 * WITHOUT ANY WARRANTY; without even the implied warranty of
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26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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27 * General Public License for more details.
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28 *
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29 * You should have received a copy of the GNU General Public License
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30 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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31 **/
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32
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33
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34 #include "PrecompiledHeadersServer.h"
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35 #include "ServerToolbox.h"
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36
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37 #include "../Core/DicomFormat/DicomArray.h"
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38 #include "../Core/DicomParsing/ParsedDicomFile.h"
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39 #include "../Core/FileStorage/StorageAccessor.h"
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40 #include "../Core/Logging.h"
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41 #include "../Core/OrthancException.h"
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42 #include "../Plugins/Engine/OrthancPlugins.h"
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43 #include "IDatabaseWrapper.h"
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44 #include "ServerContext.h"
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45
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46 #include <cassert>
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47
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48 namespace Orthanc
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49 {
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50 static const DicomTag PATIENT_IDENTIFIERS[] =
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51 {
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52 DICOM_TAG_PATIENT_ID,
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53 DICOM_TAG_PATIENT_NAME,
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54 DICOM_TAG_PATIENT_BIRTH_DATE
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55 };
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56
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57 static const DicomTag STUDY_IDENTIFIERS[] =
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58 {
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59 DICOM_TAG_PATIENT_ID,
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60 DICOM_TAG_PATIENT_NAME,
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61 DICOM_TAG_PATIENT_BIRTH_DATE,
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62 DICOM_TAG_STUDY_INSTANCE_UID,
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63 DICOM_TAG_ACCESSION_NUMBER,
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64 DICOM_TAG_STUDY_DESCRIPTION,
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65 DICOM_TAG_STUDY_DATE
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66 };
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67
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68 static const DicomTag SERIES_IDENTIFIERS[] =
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69 {
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70 DICOM_TAG_SERIES_INSTANCE_UID
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71 };
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72
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73 static const DicomTag INSTANCE_IDENTIFIERS[] =
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74 {
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75 DICOM_TAG_SOP_INSTANCE_UID
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76 };
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77
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78
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79 void ResourcesContent::Store(Compatibility::ISetResourcesContent& compatibility) const
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80 {
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81 for (std::list<TagValue>::const_iterator
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82 it = tags_.begin(); it != tags_.end(); ++it)
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83 {
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84 if (it->isIdentifier_)
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85 {
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86 compatibility.SetIdentifierTag(it->resourceId_, it->tag_, it->value_);
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87 }
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88 else
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89 {
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90 compatibility.SetMainDicomTag(it->resourceId_, it->tag_, it->value_);
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91 }
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92 }
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93
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94 for (std::list<Metadata>::const_iterator
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95 it = metadata_.begin(); it != metadata_.end(); ++it)
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96 {
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97 compatibility.SetMetadata(it->resourceId_, it->metadata_, it->value_);
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98 }
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99 }
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100
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101
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102 static void StoreMainDicomTagsInternal(ResourcesContent& target,
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103 int64_t resource,
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104 const DicomMap& tags)
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105 {
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106 DicomArray flattened(tags);
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107
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108 for (size_t i = 0; i < flattened.GetSize(); i++)
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109 {
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110 const DicomElement& element = flattened.GetElement(i);
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111 const DicomTag& tag = element.GetTag();
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112 const DicomValue& value = element.GetValue();
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113 if (!value.IsNull() &&
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114 !value.IsBinary())
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115 {
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116 target.AddMainDicomTag(resource, tag, element.GetValue().GetContent());
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117 }
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118 }
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119 }
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120
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121
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122 static void StoreIdentifiers(ResourcesContent& target,
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123 int64_t resource,
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124 ResourceType level,
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125 const DicomMap& map)
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126 {
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127 const DicomTag* tags;
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128 size_t size;
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129
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130 ServerToolbox::LoadIdentifiers(tags, size, level);
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131
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132 for (size_t i = 0; i < size; i++)
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133 {
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134 // The identifiers tags are a subset of the main DICOM tags
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135 assert(DicomMap::IsMainDicomTag(tags[i]));
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136
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137 const DicomValue* value = map.TestAndGetValue(tags[i]);
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138 if (value != NULL &&
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139 !value->IsNull() &&
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140 !value->IsBinary())
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141 {
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142 std::string s = ServerToolbox::NormalizeIdentifier(value->GetContent());
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143 target.AddIdentifierTag(resource, tags[i], s);
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144 }
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145 }
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146 }
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147
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148
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149 void ResourcesContent::AddResource(int64_t resource,
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150 ResourceType level,
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151 const DicomMap& dicomSummary)
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152 {
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153 StoreIdentifiers(*this, resource, level, dicomSummary);
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154
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155 DicomMap tags;
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156
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157 switch (level)
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158 {
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159 case ResourceType_Patient:
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160 dicomSummary.ExtractPatientInformation(tags);
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161 break;
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162
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163 case ResourceType_Study:
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164 // Duplicate the patient tags at the study level (new in Orthanc 0.9.5 - db v6)
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165 dicomSummary.ExtractPatientInformation(tags);
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166 StoreMainDicomTagsInternal(*this, resource, tags);
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167
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168 dicomSummary.ExtractStudyInformation(tags);
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169 break;
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170
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171 case ResourceType_Series:
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172 dicomSummary.ExtractSeriesInformation(tags);
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173 break;
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174
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175 case ResourceType_Instance:
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176 dicomSummary.ExtractInstanceInformation(tags);
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177 break;
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178
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179 default:
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180 throw OrthancException(ErrorCode_InternalError);
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181 }
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182
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183 StoreMainDicomTagsInternal(*this, resource, tags);
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184 }
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185
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186
2120
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187 namespace ServerToolbox
213
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188 {
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189 void SimplifyTags(Json::Value& target,
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190 const Json::Value& source,
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191 DicomToJsonFormat format)
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192 {
2951
65b20d922e10 throw instead of assert when Dicom tags can not be simplified
am@osimis.io
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193 if (!source.isObject())
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am@osimis.io
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194 {
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195 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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196 }
213
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197
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198 target = Json::objectValue;
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199 Json::Value::Members members = source.getMemberNames();
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200
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201 for (size_t i = 0; i < members.size(); i++)
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202 {
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203 const Json::Value& v = source[members[i]];
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204 const std::string& type = v["Type"].asString();
213
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205
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206 std::string name;
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207 switch (format)
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diff changeset
208 {
1860
c7d70f659190 DicomToJsonFormat_Simple -> DicomToJsonFormat_Human
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diff changeset
209 case DicomToJsonFormat_Human:
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210 name = v["Name"].asString();
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211 break;
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diff changeset
212
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diff changeset
213 case DicomToJsonFormat_Short:
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214 name = members[i];
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215 break;
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diff changeset
216
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diff changeset
217 default:
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218 throw OrthancException(ErrorCode_ParameterOutOfRange);
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219 }
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diff changeset
220
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diff changeset
221 if (type == "String")
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222 {
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223 target[name] = v["Value"].asString();
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224 }
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diff changeset
225 else if (type == "TooLong" ||
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226 type == "Null")
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227 {
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diff changeset
228 target[name] = Json::nullValue;
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229 }
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diff changeset
230 else if (type == "Sequence")
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diff changeset
231 {
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232 const Json::Value& array = v["Value"];
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233 assert(array.isArray());
213
4ce7fdcc8879 access to tags, simplified-tags and file of an instance
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diff changeset
234
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diff changeset
235 Json::Value children = Json::arrayValue;
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diff changeset
236 for (Json::Value::ArrayIndex i = 0; i < array.size(); i++)
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237 {
de1413733c97 reconstructing main dicom tags
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diff changeset
238 Json::Value c;
1859
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diff changeset
239 SimplifyTags(c, array[i], format);
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diff changeset
240 children.append(c);
de1413733c97 reconstructing main dicom tags
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241 }
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diff changeset
242
de1413733c97 reconstructing main dicom tags
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diff changeset
243 target[name] = children;
de1413733c97 reconstructing main dicom tags
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244 }
de1413733c97 reconstructing main dicom tags
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diff changeset
245 else
de1413733c97 reconstructing main dicom tags
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diff changeset
246 {
de1413733c97 reconstructing main dicom tags
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diff changeset
247 assert(0);
de1413733c97 reconstructing main dicom tags
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diff changeset
248 }
213
4ce7fdcc8879 access to tags, simplified-tags and file of an instance
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249 }
1668
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250 }
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diff changeset
251
de1413733c97 reconstructing main dicom tags
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diff changeset
252
de1413733c97 reconstructing main dicom tags
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diff changeset
253 bool FindOneChildInstance(int64_t& result,
de1413733c97 reconstructing main dicom tags
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diff changeset
254 IDatabaseWrapper& database,
de1413733c97 reconstructing main dicom tags
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diff changeset
255 int64_t resource,
de1413733c97 reconstructing main dicom tags
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diff changeset
256 ResourceType type)
de1413733c97 reconstructing main dicom tags
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diff changeset
257 {
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diff changeset
258 for (;;)
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259 {
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260 if (type == ResourceType_Instance)
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diff changeset
261 {
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diff changeset
262 result = resource;
de1413733c97 reconstructing main dicom tags
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diff changeset
263 return true;
de1413733c97 reconstructing main dicom tags
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diff changeset
264 }
de1413733c97 reconstructing main dicom tags
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diff changeset
265
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266 std::list<int64_t> children;
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267 database.GetChildrenInternalId(children, resource);
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268 if (children.empty())
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269 {
de1413733c97 reconstructing main dicom tags
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diff changeset
270 return false;
de1413733c97 reconstructing main dicom tags
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diff changeset
271 }
de1413733c97 reconstructing main dicom tags
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diff changeset
272
de1413733c97 reconstructing main dicom tags
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diff changeset
273 resource = children.front();
de1413733c97 reconstructing main dicom tags
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diff changeset
274 type = GetChildResourceType(type);
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
275 }
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
276 }
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
277
de1413733c97 reconstructing main dicom tags
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diff changeset
278
de1413733c97 reconstructing main dicom tags
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diff changeset
279 void ReconstructMainDicomTags(IDatabaseWrapper& database,
de1413733c97 reconstructing main dicom tags
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280 IStorageArea& storageArea,
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diff changeset
281 ResourceType level)
de1413733c97 reconstructing main dicom tags
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diff changeset
282 {
de1413733c97 reconstructing main dicom tags
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diff changeset
283 // WARNING: The database should be locked with a transaction!
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parents: 1486
diff changeset
284
2129
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
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parents: 2123
diff changeset
285 // TODO: This function might consume much memory if level ==
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2123
diff changeset
286 // ResourceType_Instance. To improve this, first download the
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2123
diff changeset
287 // list of studies, then remove the instances for each single
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
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parents: 2123
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288 // study (check out OrthancRestApi::InvalidateTags for an
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2123
diff changeset
289 // example). Take this improvement into consideration for the
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2123
diff changeset
290 // next upgrade of the database schema.
0c09d1af22f3 "/tools/invalidate-tags" to invalidate the JSON summary of all the DICOM files
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parents: 2123
diff changeset
291
1669
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
292 const char* plural = NULL;
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
293
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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parents: 1668
diff changeset
294 switch (level)
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
295 {
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
296 case ResourceType_Patient:
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
297 plural = "patients";
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
298 break;
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
299
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diff changeset
300 case ResourceType_Study:
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diff changeset
301 plural = "studies";
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
302 break;
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
303
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
304 case ResourceType_Series:
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diff changeset
305 plural = "series";
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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parents: 1668
diff changeset
306 break;
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
307
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
308 case ResourceType_Instance:
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diff changeset
309 plural = "instances";
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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parents: 1668
diff changeset
310 break;
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
311
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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parents: 1668
diff changeset
312 default:
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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diff changeset
313 throw OrthancException(ErrorCode_InternalError);
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parents: 1668
diff changeset
314 }
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1668
diff changeset
315
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1668
diff changeset
316 LOG(WARNING) << "Upgrade: Reconstructing the main DICOM tags of all the " << plural << "...";
a412ad57f0f9 refactoring of sample plugins, OrthancPluginReconstructMainDicomTags
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parents: 1668
diff changeset
317
1668
de1413733c97 reconstructing main dicom tags
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diff changeset
318 std::list<std::string> resources;
de1413733c97 reconstructing main dicom tags
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diff changeset
319 database.GetAllPublicIds(resources, level);
de1413733c97 reconstructing main dicom tags
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diff changeset
320
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
321 for (std::list<std::string>::const_iterator
1847
559956d5ceb2 cppcheck
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parents: 1747
diff changeset
322 it = resources.begin(); it != resources.end(); ++it)
1668
de1413733c97 reconstructing main dicom tags
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diff changeset
323 {
de1413733c97 reconstructing main dicom tags
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diff changeset
324 // Locate the resource and one of its child instances
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
325 int64_t resource, instance;
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
326 ResourceType tmp;
de1413733c97 reconstructing main dicom tags
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diff changeset
327
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
328 if (!database.LookupResource(resource, tmp, *it) ||
de1413733c97 reconstructing main dicom tags
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diff changeset
329 tmp != level ||
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
330 !FindOneChildInstance(instance, database, resource, level))
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
331 {
2955
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parents: 2951
diff changeset
332 throw OrthancException(ErrorCode_InternalError,
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2951
diff changeset
333 "Cannot find an instance for " +
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2951
diff changeset
334 std::string(EnumerationToString(level)) +
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2951
diff changeset
335 " with identifier " + *it);
1668
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
336 }
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
337
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
338 // Get the DICOM file attached to some instances in the resource
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
339 FileInfo attachment;
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
340 if (!database.LookupAttachment(attachment, instance, FileContentType_Dicom))
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
341 {
2955
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parents: 2951
diff changeset
342 throw OrthancException(ErrorCode_InternalError,
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2951
diff changeset
343 "Cannot retrieve the DICOM file associated with instance " +
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2951
diff changeset
344 database.GetPublicId(instance));
1668
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
345 }
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
346
1870
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
347 try
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
348 {
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
349 // Read and parse the content of the DICOM file
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
350 StorageAccessor accessor(storageArea);
1673
0bbcfd9695e5 UpgradeDatabase in the sample plugin
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parents: 1669
diff changeset
351
1870
a6c431193c79 Improved logging information if upgrade fails
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parents: 1860
diff changeset
352 std::string content;
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
353 accessor.Read(content, attachment);
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
354
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
355 ParsedDicomFile dicom(content);
1668
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
356
1870
a6c431193c79 Improved logging information if upgrade fails
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parents: 1860
diff changeset
357 // Update the tags of this resource
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
358 DicomMap dicomSummary;
2209
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
359 dicom.ExtractDicomSummary(dicomSummary);
1668
de1413733c97 reconstructing main dicom tags
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parents: 1486
diff changeset
360
1870
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
361 database.ClearMainDicomTags(resource);
3083
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
362
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
363 ResourcesContent tags;
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
364 tags.AddResource(resource, level, dicomSummary);
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
365 database.SetResourcesContent(tags);
1870
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
366 }
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
367 catch (OrthancException&)
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
368 {
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
369 LOG(ERROR) << "Cannot decode the DICOM file with UUID " << attachment.GetUuid()
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
370 << " associated with instance " << database.GetPublicId(instance);
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
371 throw;
a6c431193c79 Improved logging information if upgrade fails
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1860
diff changeset
372 }
213
4ce7fdcc8879 access to tags, simplified-tags and file of an instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
373 }
4ce7fdcc8879 access to tags, simplified-tags and file of an instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
374 }
2121
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
375
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
376
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
377 void LoadIdentifiers(const DicomTag*& tags,
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
378 size_t& size,
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
379 ResourceType level)
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
380 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
381 switch (level)
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
382 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
383 case ResourceType_Patient:
3083
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
384 tags = PATIENT_IDENTIFIERS;
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
385 size = sizeof(PATIENT_IDENTIFIERS) / sizeof(DicomTag);
2121
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
386 break;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
387
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
388 case ResourceType_Study:
3083
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
389 tags = STUDY_IDENTIFIERS;
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
390 size = sizeof(STUDY_IDENTIFIERS) / sizeof(DicomTag);
2121
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
391 break;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
392
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
393 case ResourceType_Series:
3083
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
394 tags = SERIES_IDENTIFIERS;
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
395 size = sizeof(SERIES_IDENTIFIERS) / sizeof(DicomTag);
2121
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
396 break;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
397
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
398 case ResourceType_Instance:
3083
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
399 tags = INSTANCE_IDENTIFIERS;
683d572424b6 IDatabaseWrapper::SetResourcesContent
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3061
diff changeset
400 size = sizeof(INSTANCE_IDENTIFIERS) / sizeof(DicomTag);
2121
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
401 break;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
402
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
403 default:
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
404 throw OrthancException(ErrorCode_ParameterOutOfRange);
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
405 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
406 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
407
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
408
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
409 std::string NormalizeIdentifier(const std::string& value)
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
410 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
411 std::string t;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
412 t.reserve(value.size());
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
413
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
414 for (size_t i = 0; i < value.size(); i++)
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
415 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
416 if (value[i] == '%' ||
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
417 value[i] == '_')
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
418 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
419 t.push_back(' '); // These characters might break wildcard queries in SQL
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
420 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
421 else if (isascii(value[i]) &&
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
422 !iscntrl(value[i]) &&
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
423 (!isspace(value[i]) || value[i] == ' '))
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
424 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
425 t.push_back(value[i]);
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
426 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
427 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
428
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
429 Toolbox::ToUpperCase(t);
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
430
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
431 return Toolbox::StripSpaces(t);
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
432 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
433
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
434
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
435 bool IsIdentifier(const DicomTag& tag,
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
436 ResourceType level)
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
437 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
438 const DicomTag* tags;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
439 size_t size;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
440
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
441 LoadIdentifiers(tags, size, level);
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
442
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
443 for (size_t i = 0; i < size; i++)
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
444 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
445 if (tag == tags[i])
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
446 {
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
447 return true;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
448 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
449 }
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
450
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
451 return false;
7e8889bc95c6 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2120
diff changeset
452 }
2209
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
453
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
454
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
455 void ReconstructResource(ServerContext& context,
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
456 const std::string& resource)
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
457 {
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
458 LOG(WARNING) << "Reconstructing resource " << resource;
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
459
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
460 std::list<std::string> instances;
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
461 context.GetIndex().GetChildInstances(instances, resource);
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
462
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
463 for (std::list<std::string>::const_iterator
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
464 it = instances.begin(); it != instances.end(); ++it)
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
465 {
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
466 ServerContext::DicomCacheLocker locker(context, *it);
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
467
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
468 Json::Value dicomAsJson;
2409
e4045b3c9772 ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2380
diff changeset
469 locker.GetDicom().DatasetToJson(dicomAsJson);
2209
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
470
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
471 std::string s = dicomAsJson.toStyledString();
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
472 context.AddAttachment(*it, FileContentType_DicomAsJson, s.c_str(), s.size());
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
473
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
474 context.GetIndex().ReconstructInstance(locker.GetDicom());
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
475 }
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2129
diff changeset
476 }
213
4ce7fdcc8879 access to tags, simplified-tags and file of an instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
477 }
4ce7fdcc8879 access to tags, simplified-tags and file of an instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
478 }