Mercurial > hg > orthanc
annotate OrthancServer/OrthancFindRequestHandler.cpp @ 1969:5e40f88f4eba
fix for old versions of mingw
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Mon, 11 Apr 2016 12:53:42 +0200 |
parents | b1291df2f780 |
children | b5d4f9c156ad |
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1 /** |
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2 * Orthanc - A Lightweight, RESTful DICOM Store |
1900 | 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 * |
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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 "OrthancFindRequestHandler.h" |
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35 |
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36 #include "../Core/DicomFormat/DicomArray.h" |
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37 #include "../Core/Lua/LuaFunctionCall.h" |
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38 #include "../Core/Logging.h" |
795 | 39 #include "FromDcmtkBridge.h" |
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40 #include "OrthancInitialization.h" |
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41 #include "Search/LookupResource.h" |
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42 #include "ServerToolbox.h" |
608 | 43 |
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44 #include <boost/regex.hpp> |
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45 |
608 | 46 |
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47 namespace Orthanc |
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48 { |
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49 static void GetChildren(std::list<std::string>& target, |
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50 ServerIndex& index, |
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51 const std::list<std::string>& source) |
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52 { |
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53 target.clear(); |
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54 |
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55 for (std::list<std::string>::const_iterator |
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56 it = source.begin(); it != source.end(); ++it) |
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57 { |
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58 std::list<std::string> tmp; |
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59 index.GetChildren(tmp, *it); |
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60 target.splice(target.end(), tmp); |
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61 } |
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62 } |
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63 |
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64 |
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65 static void StoreSetOfStrings(DicomMap& result, |
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66 const DicomTag& tag, |
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67 const std::set<std::string>& values) |
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68 { |
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69 bool isFirst = true; |
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70 |
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71 std::string s; |
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72 for (std::set<std::string>::const_iterator |
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73 it = values.begin(); it != values.end(); ++it) |
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74 { |
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75 if (isFirst) |
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76 { |
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77 isFirst = false; |
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78 } |
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79 else |
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80 { |
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81 s += "\\"; |
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82 } |
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83 |
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84 s += *it; |
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85 } |
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86 |
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87 result.SetValue(tag, s); |
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88 } |
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89 |
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90 |
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91 static void ExtractTagFromMainDicomTags(std::set<std::string>& target, |
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92 ServerIndex& index, |
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93 const DicomTag& tag, |
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94 const std::list<std::string>& resources, |
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95 ResourceType level) |
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96 { |
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97 for (std::list<std::string>::const_iterator |
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98 it = resources.begin(); it != resources.end(); ++it) |
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99 { |
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100 DicomMap tags; |
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101 if (index.GetMainDicomTags(tags, *it, level, level) && |
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102 tags.HasTag(tag)) |
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103 { |
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104 target.insert(tags.GetValue(tag).GetContent()); |
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105 } |
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106 } |
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107 } |
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108 |
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109 |
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110 static void ExtractTagFromInstances(std::set<std::string>& target, |
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111 ServerContext& context, |
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112 const DicomTag& tag, |
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113 const std::list<std::string>& instances) |
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114 { |
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115 std::string formatted = tag.Format(); |
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116 |
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117 for (std::list<std::string>::const_iterator |
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118 it = instances.begin(); it != instances.end(); ++it) |
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119 { |
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120 Json::Value dicom; |
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121 context.ReadJson(dicom, *it); |
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122 |
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123 if (dicom.isMember(formatted)) |
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124 { |
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125 const Json::Value& source = dicom[formatted]; |
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126 |
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127 if (source.type() == Json::objectValue && |
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128 source.isMember("Type") && |
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129 source.isMember("Value") && |
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130 source["Type"].asString() == "String" && |
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131 source["Value"].type() == Json::stringValue) |
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132 { |
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133 target.insert(source["Value"].asString()); |
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134 } |
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135 } |
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136 } |
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137 } |
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138 |
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139 |
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140 static void ComputePatientCounters(DicomMap& result, |
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141 ServerIndex& index, |
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142 const std::string& patient, |
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143 const DicomMap& query) |
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144 { |
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145 std::list<std::string> studies; |
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146 index.GetChildren(studies, patient); |
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147 |
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148 if (query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_STUDIES)) |
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149 { |
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150 result.SetValue(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_STUDIES, |
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151 boost::lexical_cast<std::string>(studies.size())); |
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152 } |
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153 |
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154 if (!query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_SERIES) && |
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155 !query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_INSTANCES)) |
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156 { |
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157 return; |
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158 } |
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159 |
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160 std::list<std::string> series; |
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161 GetChildren(series, index, studies); |
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162 studies.clear(); // This information is useless below |
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163 |
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164 if (query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_SERIES)) |
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165 { |
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166 result.SetValue(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_SERIES, |
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167 boost::lexical_cast<std::string>(series.size())); |
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168 } |
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169 |
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170 if (!query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_INSTANCES)) |
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171 { |
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172 return; |
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173 } |
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174 |
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175 std::list<std::string> instances; |
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176 GetChildren(instances, index, series); |
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177 |
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178 if (query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_INSTANCES)) |
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179 { |
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180 result.SetValue(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_INSTANCES, |
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181 boost::lexical_cast<std::string>(instances.size())); |
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182 } |
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183 } |
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184 |
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185 |
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186 static void ComputeStudyCounters(DicomMap& result, |
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187 ServerContext& context, |
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188 const std::string& study, |
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189 const DicomMap& query) |
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190 { |
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191 ServerIndex& index = context.GetIndex(); |
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192 |
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193 std::list<std::string> series; |
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194 index.GetChildren(series, study); |
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195 |
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196 if (query.HasTag(DICOM_TAG_NUMBER_OF_STUDY_RELATED_SERIES)) |
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197 { |
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198 result.SetValue(DICOM_TAG_NUMBER_OF_STUDY_RELATED_SERIES, |
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199 boost::lexical_cast<std::string>(series.size())); |
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200 } |
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201 |
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202 if (query.HasTag(DICOM_TAG_MODALITIES_IN_STUDY)) |
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203 { |
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204 std::set<std::string> values; |
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205 ExtractTagFromMainDicomTags(values, index, DICOM_TAG_MODALITY, series, ResourceType_Series); |
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206 StoreSetOfStrings(result, DICOM_TAG_MODALITIES_IN_STUDY, values); |
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207 } |
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208 |
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209 if (!query.HasTag(DICOM_TAG_NUMBER_OF_STUDY_RELATED_INSTANCES) && |
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210 !query.HasTag(DICOM_TAG_SOP_CLASSES_IN_STUDY)) |
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211 { |
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212 return; |
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213 } |
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214 |
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215 std::list<std::string> instances; |
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216 GetChildren(instances, index, series); |
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217 |
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218 if (query.HasTag(DICOM_TAG_NUMBER_OF_STUDY_RELATED_INSTANCES)) |
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219 { |
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220 result.SetValue(DICOM_TAG_NUMBER_OF_STUDY_RELATED_INSTANCES, |
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221 boost::lexical_cast<std::string>(instances.size())); |
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222 } |
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223 |
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224 if (query.HasTag(DICOM_TAG_SOP_CLASSES_IN_STUDY)) |
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225 { |
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226 std::set<std::string> values; |
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227 ExtractTagFromInstances(values, context, DICOM_TAG_SOP_CLASS_UID, instances); |
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228 StoreSetOfStrings(result, DICOM_TAG_SOP_CLASSES_IN_STUDY, values); |
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229 } |
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230 } |
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231 |
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232 |
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233 static void ComputeSeriesCounters(DicomMap& result, |
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234 ServerIndex& index, |
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235 const std::string& series, |
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236 const DicomMap& query) |
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237 { |
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238 std::list<std::string> instances; |
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239 index.GetChildren(instances, series); |
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240 |
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241 if (query.HasTag(DICOM_TAG_NUMBER_OF_SERIES_RELATED_INSTANCES)) |
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242 { |
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243 result.SetValue(DICOM_TAG_NUMBER_OF_SERIES_RELATED_INSTANCES, |
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244 boost::lexical_cast<std::string>(instances.size())); |
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245 } |
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246 } |
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247 |
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248 |
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249 static DicomMap* ComputeCounters(ServerContext& context, |
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250 const std::string& instanceId, |
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251 ResourceType level, |
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252 const DicomMap& query) |
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253 { |
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254 switch (level) |
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255 { |
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256 case ResourceType_Patient: |
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257 if (!query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_STUDIES) && |
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258 !query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_SERIES) && |
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259 !query.HasTag(DICOM_TAG_NUMBER_OF_PATIENT_RELATED_INSTANCES)) |
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260 { |
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261 return NULL; |
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262 } |
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263 |
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264 break; |
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265 |
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266 case ResourceType_Study: |
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267 if (!query.HasTag(DICOM_TAG_NUMBER_OF_STUDY_RELATED_SERIES) && |
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268 !query.HasTag(DICOM_TAG_NUMBER_OF_STUDY_RELATED_INSTANCES) && |
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269 !query.HasTag(DICOM_TAG_SOP_CLASSES_IN_STUDY) && |
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270 !query.HasTag(DICOM_TAG_MODALITIES_IN_STUDY)) |
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271 { |
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272 return NULL; |
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273 } |
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274 |
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275 break; |
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276 |
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277 case ResourceType_Series: |
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278 if (!query.HasTag(DICOM_TAG_NUMBER_OF_SERIES_RELATED_INSTANCES)) |
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279 { |
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280 return NULL; |
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281 } |
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282 |
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283 break; |
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284 |
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285 default: |
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286 return NULL; |
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287 } |
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288 |
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289 std::string parent; |
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290 if (!context.GetIndex().LookupParent(parent, instanceId, level)) |
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291 { |
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292 throw OrthancException(ErrorCode_UnknownResource); // The resource was deleted in between |
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293 } |
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294 |
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295 std::auto_ptr<DicomMap> result(new DicomMap); |
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296 |
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297 switch (level) |
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298 { |
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299 case ResourceType_Patient: |
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300 ComputePatientCounters(*result, context.GetIndex(), parent, query); |
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301 break; |
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302 |
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303 case ResourceType_Study: |
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304 ComputeStudyCounters(*result, context, parent, query); |
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305 break; |
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306 |
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307 case ResourceType_Series: |
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308 ComputeSeriesCounters(*result, context.GetIndex(), parent, query); |
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309 break; |
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310 |
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311 default: |
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312 throw OrthancException(ErrorCode_InternalError); |
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313 } |
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314 |
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315 return result.release(); |
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316 } |
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317 |
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318 |
608 | 319 static void AddAnswer(DicomFindAnswers& answers, |
320 const Json::Value& resource, | |
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321 const DicomArray& query, |
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322 const std::list<DicomTag>& sequencesToReturn, |
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323 const DicomMap* counters) |
608 | 324 { |
325 DicomMap result; | |
326 | |
327 for (size_t i = 0; i < query.GetSize(); i++) | |
328 { | |
1346 | 329 if (query.GetElement(i).GetTag() == DICOM_TAG_QUERY_RETRIEVE_LEVEL) |
330 { | |
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331 // Fix issue 30 on Google Code (QR response missing "Query/Retrieve Level" (008,0052)) |
1346 | 332 result.SetValue(query.GetElement(i).GetTag(), query.GetElement(i).GetValue()); |
333 } | |
334 else if (query.GetElement(i).GetTag() == DICOM_TAG_SPECIFIC_CHARACTER_SET) | |
335 { | |
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336 // Do not include the encoding, this is handled by class ParsedDicomFile |
1346 | 337 } |
338 else | |
608 | 339 { |
340 std::string tag = query.GetElement(i).GetTag().Format(); | |
341 std::string value; | |
342 if (resource.isMember(tag)) | |
343 { | |
344 value = resource.get(tag, Json::arrayValue).get("Value", "").asString(); | |
345 result.SetValue(query.GetElement(i).GetTag(), value); | |
346 } | |
722 | 347 else |
348 { | |
349 result.SetValue(query.GetElement(i).GetTag(), ""); | |
350 } | |
608 | 351 } |
352 } | |
353 | |
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354 if (counters != NULL) |
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355 { |
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356 DicomArray tmp(*counters); |
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357 for (size_t i = 0; i < tmp.GetSize(); i++) |
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358 { |
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359 result.SetValue(tmp.GetElement(i).GetTag(), tmp.GetElement(i).GetValue().GetContent()); |
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360 } |
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361 } |
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362 |
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363 if (result.GetSize() == 0 && |
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364 sequencesToReturn.empty()) |
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365 { |
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366 LOG(WARNING) << "The C-FIND request does not return any DICOM tag"; |
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367 } |
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368 else if (sequencesToReturn.empty()) |
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369 { |
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370 answers.Add(result); |
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371 } |
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372 else |
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373 { |
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374 ParsedDicomFile dicom(result); |
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375 |
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376 for (std::list<DicomTag>::const_iterator tag = sequencesToReturn.begin(); |
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377 tag != sequencesToReturn.end(); ++tag) |
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378 { |
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379 const Json::Value& source = resource[tag->Format()]; |
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380 |
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381 if (source.type() == Json::objectValue && |
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382 source.isMember("Type") && |
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383 source.isMember("Value") && |
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384 source["Type"].asString() == "Sequence" && |
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385 source["Value"].type() == Json::arrayValue) |
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386 { |
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387 Json::Value content = Json::arrayValue; |
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388 |
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389 for (Json::Value::ArrayIndex i = 0; i < source["Value"].size(); i++) |
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390 { |
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391 Json::Value item; |
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392 Toolbox::SimplifyTags(item, source["Value"][i], DicomToJsonFormat_Short); |
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393 content.append(item); |
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394 } |
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395 |
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396 dicom.Replace(*tag, content, false); |
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397 } |
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398 } |
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399 |
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400 answers.Add(dicom); |
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401 } |
608 | 402 } |
403 | |
404 | |
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405 |
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406 bool OrthancFindRequestHandler::FilterQueryTag(std::string& value /* can be modified */, |
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407 ResourceType level, |
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408 const DicomTag& tag, |
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409 ModalityManufacturer manufacturer) |
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410 { |
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411 switch (manufacturer) |
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412 { |
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413 case ModalityManufacturer_EFilm2: |
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414 // Following Denis Nesterov's mail on 2015-11-30 |
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415 if (tag == DicomTag(0x0008, 0x0000) || // "GenericGroupLength" |
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416 tag == DicomTag(0x0010, 0x0000) || // "GenericGroupLength" |
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417 tag == DicomTag(0x0020, 0x0000)) // "GenericGroupLength" |
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418 { |
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419 return false; |
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420 } |
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421 |
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422 break; |
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423 |
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424 case ModalityManufacturer_Vitrea: |
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425 // Following Denis Nesterov's mail on 2015-11-30 |
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426 if (tag == DicomTag(0x5653, 0x0010)) // "PrivateCreator = Vital Images SW 3.4" |
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427 { |
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428 return false; |
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429 } |
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430 |
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431 break; |
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432 |
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433 default: |
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434 break; |
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435 } |
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436 |
1851
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437 return true; |
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438 } |
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439 |
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440 |
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441 bool OrthancFindRequestHandler::ApplyLuaFilter(DicomMap& target, |
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442 const DicomMap& source, |
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443 const std::string& remoteIp, |
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444 const std::string& remoteAet, |
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445 const std::string& calledAet) |
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446 { |
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447 Json::Value output; |
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448 |
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449 { |
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450 LuaScripting::Locker locker(context_.GetLua()); |
1893 | 451 static const char* NAME = "IncomingFindRequestFilter"; |
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452 |
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453 if (!locker.GetLua().IsExistingFunction(NAME)) |
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454 { |
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455 return false; |
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456 } |
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457 |
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458 Json::Value tmp = Json::objectValue; |
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459 DicomArray a(source); |
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460 |
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461 for (size_t i = 0; i < a.GetSize(); i++) |
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462 { |
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463 const DicomValue& v = a.GetElement(i).GetValue(); |
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464 std::string s = (v.IsNull() || v.IsBinary()) ? "" : v.GetContent(); |
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465 tmp[a.GetElement(i).GetTag().Format()] = s; |
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466 } |
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467 |
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468 Json::Value origin = Json::objectValue; |
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469 origin["RemoteIp"] = remoteIp; |
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470 origin["RemoteAet"] = remoteAet; |
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471 origin["CalledAet"] = calledAet; |
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472 |
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473 LuaFunctionCall call(locker.GetLua(), NAME); |
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474 call.PushJson(tmp); |
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475 call.PushJson(origin); |
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476 |
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477 call.ExecuteToJson(output, true); |
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478 } |
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479 |
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480 // The Lua context is released at this point |
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481 |
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482 if (output.type() != Json::objectValue) |
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483 { |
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484 LOG(ERROR) << "Lua: IncomingFindRequestFilter must return a table"; |
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485 throw OrthancException(ErrorCode_LuaBadOutput); |
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486 } |
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487 |
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488 Json::Value::Members members = output.getMemberNames(); |
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489 |
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490 for (size_t i = 0; i < members.size(); i++) |
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491 { |
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492 if (output[members[i]].type() != Json::stringValue) |
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493 { |
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494 LOG(ERROR) << "Lua: IncomingFindRequestFilter must return a table mapping names of DICOM tags to strings"; |
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495 throw OrthancException(ErrorCode_LuaBadOutput); |
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496 } |
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497 |
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498 DicomTag tag(FromDcmtkBridge::ParseTag(members[i])); |
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499 target.SetValue(tag, output[members[i]].asString()); |
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500 } |
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501 |
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502 return true; |
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503 } |
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504 |
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505 |
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506 void OrthancFindRequestHandler::Handle(DicomFindAnswers& answers, |
665 | 507 const DicomMap& input, |
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508 const std::list<DicomTag>& sequencesToReturn, |
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509 const std::string& remoteIp, |
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510 const std::string& remoteAet, |
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511 const std::string& calledAet) |
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512 { |
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513 /** |
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514 * Ensure that the remote modality is known to Orthanc. |
665 | 515 **/ |
516 | |
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517 RemoteModalityParameters modality; |
665 | 518 |
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519 if (!Configuration::LookupDicomModalityUsingAETitle(modality, remoteAet)) |
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520 { |
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521 throw OrthancException(ErrorCode_UnknownModality); |
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522 } |
806 | 523 |
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524 bool caseSensitivePN = Configuration::GetGlobalBoolParameter("CaseSensitivePN", false); |
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525 |
665 | 526 |
527 /** | |
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528 * Possibly apply the user-supplied Lua filter. |
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529 **/ |
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530 |
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531 DicomMap lua; |
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532 const DicomMap* filteredInput = &input; |
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533 |
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534 if (ApplyLuaFilter(lua, input, remoteIp, remoteAet, calledAet)) |
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535 { |
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536 filteredInput = &lua; |
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537 } |
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538 |
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539 |
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540 /** |
565
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541 * Retrieve the query level. |
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542 **/ |
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543 |
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544 assert(filteredInput != NULL); |
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545 const DicomValue* levelTmp = filteredInput->TestAndGetValue(DICOM_TAG_QUERY_RETRIEVE_LEVEL); |
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546 if (levelTmp == NULL || |
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547 levelTmp->IsNull() || |
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548 levelTmp->IsBinary()) |
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549 { |
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550 LOG(ERROR) << "C-FIND request without the tag 0008,0052 (QueryRetrieveLevel)"; |
565
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551 throw OrthancException(ErrorCode_BadRequest); |
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552 } |
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553 |
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554 ResourceType level = StringToResourceType(levelTmp->GetContent().c_str()); |
565
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555 |
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556 if (level != ResourceType_Patient && |
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557 level != ResourceType_Study && |
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558 level != ResourceType_Series && |
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559 level != ResourceType_Instance) |
565
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560 { |
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561 throw OrthancException(ErrorCode_NotImplemented); |
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562 } |
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563 |
665 | 564 |
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565 DicomArray query(*filteredInput); |
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566 LOG(INFO) << "DICOM C-Find request at level: " << EnumerationToString(level); |
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567 |
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568 for (size_t i = 0; i < query.GetSize(); i++) |
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569 { |
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570 if (!query.GetElement(i).GetValue().IsNull()) |
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571 { |
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572 LOG(INFO) << " " << query.GetElement(i).GetTag() |
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573 << " " << FromDcmtkBridge::GetName(query.GetElement(i).GetTag()) |
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574 << " = " << query.GetElement(i).GetValue().GetContent(); |
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575 } |
565
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576 } |
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577 |
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578 for (std::list<DicomTag>::const_iterator it = sequencesToReturn.begin(); |
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579 it != sequencesToReturn.end(); ++it) |
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580 { |
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581 LOG(INFO) << " (" << it->Format() |
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582 << ") " << FromDcmtkBridge::GetName(*it) |
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583 << " : sequence tag whose content will be copied"; |
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584 } |
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585 |
565
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586 |
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587 /** |
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588 * Build up the query object. |
608 | 589 **/ |
590 | |
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591 LookupResource finder(level); |
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592 |
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593 for (size_t i = 0; i < query.GetSize(); i++) |
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594 { |
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595 const DicomTag tag = query.GetElement(i).GetTag(); |
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596 |
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597 if (query.GetElement(i).GetValue().IsNull() || |
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598 tag == DICOM_TAG_QUERY_RETRIEVE_LEVEL || |
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599 tag == DICOM_TAG_SPECIFIC_CHARACTER_SET) |
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600 { |
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601 continue; |
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602 } |
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603 |
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604 std::string value = query.GetElement(i).GetValue().GetContent(); |
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605 if (value.size() == 0) |
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606 { |
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607 // An empty string corresponds to a "*" wildcard constraint, so we ignore it |
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608 continue; |
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609 } |
611
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610 |
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611 if (FilterQueryTag(value, level, tag, modality.GetManufacturer())) |
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612 { |
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613 ValueRepresentation vr = FromDcmtkBridge::GetValueRepresentation(tag); |
1758 | 614 |
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615 // DICOM specifies that searches must be case sensitive, except |
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616 // for tags with a PN value representation |
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617 bool sensitive = true; |
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618 if (vr == ValueRepresentation_PatientName) |
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619 { |
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620 sensitive = caseSensitivePN; |
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621 } |
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622 |
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623 finder.AddDicomConstraint(tag, value, sensitive); |
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624 } |
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625 else |
1758 | 626 { |
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627 LOG(INFO) << "Because of a patch for the manufacturer of the remote modality, " |
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628 << "ignoring constraint on tag (" << tag.Format() << ") " << FromDcmtkBridge::GetName(tag); |
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629 } |
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630 } |
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631 |
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632 |
608 | 633 /** |
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634 * Run the query. |
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635 **/ |
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636 |
1753 | 637 size_t maxResults = (level == ResourceType_Instance) ? maxInstances_ : maxResults_; |
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638 |
1753 | 639 std::vector<std::string> resources, instances; |
640 context_.GetIndex().FindCandidates(resources, instances, finder); | |
1752 | 641 |
1753 | 642 assert(resources.size() == instances.size()); |
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643 bool complete = true; |
1753 | 644 |
645 for (size_t i = 0; i < instances.size(); i++) | |
1752 | 646 { |
1753 | 647 Json::Value dicom; |
648 context_.ReadJson(dicom, instances[i]); | |
649 | |
650 if (finder.IsMatch(dicom)) | |
651 { | |
652 if (maxResults != 0 && | |
653 answers.GetSize() >= maxResults) | |
654 { | |
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655 complete = false; |
1753 | 656 break; |
657 } | |
658 else | |
659 { | |
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660 std::auto_ptr<DicomMap> counters(ComputeCounters(context_, instances[i], level, input)); |
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661 AddAnswer(answers, dicom, query, sequencesToReturn, counters.get()); |
1753 | 662 } |
663 } | |
1752 | 664 } |
665 | |
1753 | 666 LOG(INFO) << "Number of matching resources: " << answers.GetSize(); |
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667 |
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668 answers.SetComplete(complete); |
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669 } |
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670 } |