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annotate OrthancServer/Sources/Search/HierarchicalMatcher.cpp @ 5111:7547c7dfd017

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/tools/metrics-prometheus: added orthanc_last_change and orthanc_up_time_s
author Alain Mazy <am@osimis.io>
date Tue, 22 Nov 2022 18:01:23 +0100
parents 6eff25f70121
children 0ea402b4d901
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2022 Osimis S.A., Belgium
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6 * Copyright (C) 2021-2022 Sebastien Jodogne, ICTEAM UCLouvain, Belgium
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7 *
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8 * This program is free software: you can redistribute it and/or
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9 * modify it under the terms of the GNU General Public License as
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10 * published by the Free Software Foundation, either version 3 of the
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11 * License, or (at your option) any later version.
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12 *
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13 * This program is distributed in the hope that it will be useful, but
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14 * WITHOUT ANY WARRANTY; without even the implied warranty of
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15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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16 * General Public License for more details.
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17 *
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18 * You should have received a copy of the GNU General Public License
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19 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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20 **/
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21
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23 #include "../PrecompiledHeadersServer.h"
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24 #include "HierarchicalMatcher.h"
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26 #include "../../../OrthancFramework/Sources/Logging.h"
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27 #include "../../../OrthancFramework/Sources/OrthancException.h"
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28 #include "../../../OrthancFramework/Sources/DicomParsing/FromDcmtkBridge.h"
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29 #include "../../../OrthancFramework/Sources/DicomParsing/ToDcmtkBridge.h"
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30 #include "../OrthancConfiguration.h"
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31
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32 #include <dcmtk/dcmdata/dcfilefo.h>
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33
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34 namespace Orthanc
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35 {
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36 HierarchicalMatcher::HierarchicalMatcher(ParsedDicomFile& query)
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37 {
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38 bool caseSensitivePN;
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39
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40 {
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41 OrthancConfiguration::ReaderLock lock;
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42 caseSensitivePN = lock.GetConfiguration().GetBooleanParameter("CaseSensitivePN", false);
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43 }
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44
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45 bool hasCodeExtensions;
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46 Encoding encoding = query.DetectEncoding(hasCodeExtensions);
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47 Setup(*query.GetDcmtkObject().getDataset(), caseSensitivePN, encoding, hasCodeExtensions);
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48 }
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49
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50
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51 HierarchicalMatcher::~HierarchicalMatcher()
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52 {
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53 for (Sequences::iterator it = sequences_.begin();
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54 it != sequences_.end(); ++it)
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55 {
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56 if (it->second != NULL)
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57 {
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58 delete it->second;
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59 }
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60 }
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61 }
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62
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63
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64 void HierarchicalMatcher::Setup(DcmItem& dataset,
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65 bool caseSensitivePN,
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66 Encoding encoding,
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67 bool hasCodeExtensions)
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68 {
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69 for (unsigned long i = 0; i < dataset.card(); i++)
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70 {
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71 DcmElement* element = dataset.getElement(i);
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72 if (element == NULL)
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73 {
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74 throw OrthancException(ErrorCode_InternalError);
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75 }
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76
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77 DicomTag tag(FromDcmtkBridge::Convert(element->getTag()));
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78 if (tag == DICOM_TAG_SPECIFIC_CHARACTER_SET || // Ignore encoding
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79 tag.GetElement() == 0x0000) // Ignore all "Group Length" tags
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80 {
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81 continue;
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82 }
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83
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84 if (flatTags_.find(tag) != flatTags_.end() ||
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85 sequences_.find(tag) != sequences_.end())
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86 {
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87 // A constraint already exists on this tag
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88 throw OrthancException(ErrorCode_BadRequest);
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89 }
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90
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91 if (FromDcmtkBridge::LookupValueRepresentation(tag) == ValueRepresentation_Sequence)
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92 {
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93 DcmSequenceOfItems& sequence = dynamic_cast<DcmSequenceOfItems&>(*element);
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94
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95 if (sequence.card() == 0 ||
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96 (sequence.card() == 1 && sequence.getItem(0)->card() == 0))
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97 {
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98 // Universal matching of a sequence
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99 sequences_[tag] = NULL;
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100 }
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101 else if (sequence.card() == 1)
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102 {
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103 sequences_[tag] = new HierarchicalMatcher(*sequence.getItem(0), caseSensitivePN, encoding, hasCodeExtensions);
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104 }
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105 else
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106 {
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107 throw OrthancException(ErrorCode_BadRequest);
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108 }
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109 }
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110 else
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111 {
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112 flatTags_.insert(tag);
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113
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114 std::set<DicomTag> ignoreTagLength;
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115 std::unique_ptr<DicomValue> value(FromDcmtkBridge::ConvertLeafElement
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116 (*element, DicomToJsonFlags_None,
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117 0, encoding, hasCodeExtensions, ignoreTagLength));
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118
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119 // WARNING: Also modify "DatabaseLookup::IsMatch()" if modifying this code
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120 if (value.get() == NULL ||
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121 value->IsNull())
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122 {
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123 // This is an universal constraint
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124 }
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125 else if (value->IsBinary())
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126 {
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127 if (!value->GetContent().empty())
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128 {
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129 LOG(WARNING) << "This C-Find modality worklist query contains a non-empty tag ("
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130 << tag.Format() << ") with UN (unknown) value representation. "
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131 << "It will be ignored.";
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132 }
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133 }
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134 else if (value->GetContent().empty())
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135 {
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136 // This is an universal matcher
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137 }
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138 else
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139 {
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140 flatConstraints_.AddDicomConstraint
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141 (tag, value->GetContent(), caseSensitivePN, true /* mandatory */);
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142 }
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143 }
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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 std::string HierarchicalMatcher::Format(const std::string& prefix) const
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149 {
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150 std::string s;
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151
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152 std::set<DicomTag> tags;
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153 for (size_t i = 0; i < flatConstraints_.GetConstraintsCount(); i++)
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154 {
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155 const DicomTagConstraint& c = flatConstraints_.GetConstraint(i);
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156
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157 s += c.Format() + "\n";
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158 tags.insert(c.GetTag());
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159 }
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160
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161 // Loop over the universal constraints
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162 for (std::set<DicomTag>::const_iterator it = flatTags_.begin();
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163 it != flatTags_.end(); ++it)
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164 {
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165 if (tags.find(*it) == tags.end())
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166 {
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167 s += prefix + it->Format() + " == *\n";
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168 }
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169 }
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170
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171 for (Sequences::const_iterator it = sequences_.begin();
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172 it != sequences_.end(); ++it)
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173 {
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174 s += prefix + it->first.Format() + " ";
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175
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176 if (it->second == NULL)
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177 {
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178 s += "*\n";
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179 }
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180 else
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181 {
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182 s += "Sequence:\n" + it->second->Format(prefix + " ");
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183 }
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184 }
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185
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186 return s;
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187 }
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188
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189
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190 bool HierarchicalMatcher::Match(ParsedDicomFile& dicom) const
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191 {
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192 bool hasCodeExtensions;
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193 Encoding encoding = dicom.DetectEncoding(hasCodeExtensions);
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194
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195 return MatchInternal(*dicom.GetDcmtkObject().getDataset(),
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196 encoding, hasCodeExtensions);
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197 }
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198
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199
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200 bool HierarchicalMatcher::MatchInternal(DcmItem& item,
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201 Encoding encoding,
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202 bool hasCodeExtensions) const
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203 {
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204 if (!flatConstraints_.IsMatch(item, encoding, hasCodeExtensions))
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205 {
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206 return false;
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207 }
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208
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209 for (Sequences::const_iterator it = sequences_.begin();
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210 it != sequences_.end(); ++it)
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211 {
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212 if (it->second != NULL)
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213 {
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214 DcmTagKey tag = ToDcmtkBridge::Convert(it->first);
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215
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216 DcmSequenceOfItems* sequence = NULL;
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217 if (!item.findAndGetSequence(tag, sequence).good() ||
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218 sequence == NULL)
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219 {
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220 continue;
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221 }
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222
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223 bool match = false;
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224
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225 for (unsigned long i = 0; i < sequence->card(); i++)
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226 {
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227 if (it->second->MatchInternal(*sequence->getItem(i), encoding, hasCodeExtensions))
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228 {
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229 match = true;
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230 break;
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231 }
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232 }
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233
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234 if (!match)
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235 {
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236 return false;
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237 }
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238 }
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239 }
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240
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241 return true;
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242 }
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243
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244
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245 DcmDataset* HierarchicalMatcher::ExtractInternal(DcmItem& source,
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246 Encoding encoding,
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247 bool hasCodeExtensions) const
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248 {
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249 std::unique_ptr<DcmDataset> target(new DcmDataset);
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250
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251 for (std::set<DicomTag>::const_iterator it = flatTags_.begin();
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252 it != flatTags_.end(); ++it)
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253 {
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254 DcmTagKey tag = ToDcmtkBridge::Convert(*it);
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255
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256 DcmElement* element = NULL;
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257 if (source.findAndGetElement(tag, element).good() &&
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258 element != NULL)
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259 {
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260 if (it->IsPrivate())
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261 {
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262 throw OrthancException(ErrorCode_NotImplemented,
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263 "Not applicable to private tags: " + it->Format());
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264 }
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265
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266 std::unique_ptr<DcmElement> cloned(FromDcmtkBridge::CreateElementForTag(*it, "" /* no private creator */));
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267 cloned->copyFrom(*element);
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268 target->insert(cloned.release());
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269 }
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270 }
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271
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272 for (Sequences::const_iterator it = sequences_.begin();
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273 it != sequences_.end(); ++it)
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274 {
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275 DcmTagKey tag = ToDcmtkBridge::Convert(it->first);
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276
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277 DcmSequenceOfItems* sequence = NULL;
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278 if (source.findAndGetSequence(tag, sequence).good() &&
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279 sequence != NULL)
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280 {
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281 std::unique_ptr<DcmSequenceOfItems> cloned(new DcmSequenceOfItems(tag));
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282
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283 for (unsigned long i = 0; i < sequence->card(); i++)
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284 {
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285 if (it->second == NULL)
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286 {
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287 cloned->append(new DcmItem(*sequence->getItem(i)));
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288 }
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289 else if (it->second->MatchInternal(*sequence->getItem(i), encoding, hasCodeExtensions)) // TODO Might be optimized
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290 {
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291 // It is necessary to encapsulate the child dataset into a
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292 // "DcmItem" object before it can be included in a
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293 // sequence. Otherwise, "dciodvfy" reports an error "Bad
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294 // tag in sequence - Expecting Item or Sequence Delimiter."
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295 std::unique_ptr<DcmDataset> child(it->second->ExtractInternal(*sequence->getItem(i), encoding, hasCodeExtensions));
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296 cloned->append(new DcmItem(*child));
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297 }
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298 }
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299
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300 target->insert(cloned.release());
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301 }
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302 }
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303
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304 return target.release();
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305 }
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306
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307
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308 ParsedDicomFile* HierarchicalMatcher::Extract(ParsedDicomFile& dicom) const
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309 {
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310 bool hasCodeExtensions;
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311 Encoding encoding = dicom.DetectEncoding(hasCodeExtensions);
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312
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313 std::unique_ptr<DcmDataset> dataset(ExtractInternal(*dicom.GetDcmtkObject().getDataset(),
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314 encoding, hasCodeExtensions));
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315
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316 std::unique_ptr<ParsedDicomFile> result(new ParsedDicomFile(*dataset));
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317 result->SetEncoding(encoding);
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318
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319 return result.release();
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320 }
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321 }