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annotate OrthancServer/Search/HierarchicalMatcher.cpp @ 3594:0654d0838de8

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disable thread support in DCMTK if wasm/asm.js
author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 06 Jan 2020 17:59:34 +0100
parents cf8cbeb35f33
children 94f4a18a79cc
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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 "HierarchicalMatcher.h"
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36
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37 #include "../../Core/Logging.h"
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38 #include "../../Core/OrthancException.h"
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39 #include "../../Core/DicomParsing/FromDcmtkBridge.h"
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40 #include "../../Core/DicomParsing/ToDcmtkBridge.h"
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41 #include "../OrthancConfiguration.h"
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42
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43 #include <dcmtk/dcmdata/dcfilefo.h>
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44
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45 namespace Orthanc
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46 {
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47 HierarchicalMatcher::HierarchicalMatcher(ParsedDicomFile& query)
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48 {
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49 bool caseSensitivePN;
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50
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51 {
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52 OrthancConfiguration::ReaderLock lock;
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53 caseSensitivePN = lock.GetConfiguration().GetBooleanParameter("CaseSensitivePN", false);
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54 }
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55
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56 bool hasCodeExtensions;
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57 Encoding encoding = query.DetectEncoding(hasCodeExtensions);
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58 Setup(*query.GetDcmtkObject().getDataset(), caseSensitivePN, encoding, hasCodeExtensions);
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59 }
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60
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61
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62 HierarchicalMatcher::~HierarchicalMatcher()
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63 {
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64 for (Sequences::iterator it = sequences_.begin();
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65 it != sequences_.end(); ++it)
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66 {
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67 if (it->second != NULL)
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68 {
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69 delete it->second;
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70 }
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71 }
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72 }
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73
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74
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75 void HierarchicalMatcher::Setup(DcmItem& dataset,
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76 bool caseSensitivePN,
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77 Encoding encoding,
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78 bool hasCodeExtensions)
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79 {
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80 for (unsigned long i = 0; i < dataset.card(); i++)
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81 {
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82 DcmElement* element = dataset.getElement(i);
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83 if (element == NULL)
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84 {
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85 throw OrthancException(ErrorCode_InternalError);
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86 }
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87
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88 DicomTag tag(FromDcmtkBridge::Convert(element->getTag()));
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89 if (tag == DICOM_TAG_SPECIFIC_CHARACTER_SET || // Ignore encoding
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90 tag.GetElement() == 0x0000) // Ignore all "Group Length" tags
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91 {
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92 continue;
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93 }
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94
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95 if (flatTags_.find(tag) != flatTags_.end() ||
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96 sequences_.find(tag) != sequences_.end())
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97 {
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98 // A constraint already exists on this tag
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99 throw OrthancException(ErrorCode_BadRequest);
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100 }
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101
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102 if (FromDcmtkBridge::LookupValueRepresentation(tag) == ValueRepresentation_Sequence)
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103 {
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104 DcmSequenceOfItems& sequence = dynamic_cast<DcmSequenceOfItems&>(*element);
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105
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106 if (sequence.card() == 0 ||
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107 (sequence.card() == 1 && sequence.getItem(0)->card() == 0))
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108 {
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109 // Universal matching of a sequence
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110 sequences_[tag] = NULL;
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111 }
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112 else if (sequence.card() == 1)
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113 {
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114 sequences_[tag] = new HierarchicalMatcher(*sequence.getItem(0), caseSensitivePN, encoding, hasCodeExtensions);
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115 }
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116 else
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117 {
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118 throw OrthancException(ErrorCode_BadRequest);
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119 }
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120 }
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121 else
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122 {
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123 flatTags_.insert(tag);
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124
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125 std::set<DicomTag> ignoreTagLength;
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126 std::auto_ptr<DicomValue> value(FromDcmtkBridge::ConvertLeafElement
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127 (*element, DicomToJsonFlags_None,
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128 0, encoding, hasCodeExtensions, ignoreTagLength));
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129
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130 // WARNING: Also modify "DatabaseLookup::IsMatch()" if modifying this code
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131 if (value.get() == NULL ||
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132 value->IsNull())
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133 {
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134 // This is an universal constraint
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135 }
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136 else if (value->IsBinary())
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137 {
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138 if (!value->GetContent().empty())
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139 {
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140 LOG(WARNING) << "This C-Find modality worklist query contains a non-empty tag ("
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141 << tag.Format() << ") with UN (unknown) value representation. "
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142 << "It will be ignored.";
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143 }
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144 }
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145 else if (value->GetContent().empty())
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146 {
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147 // This is an universal matcher
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148 }
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149 else
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150 {
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151 flatConstraints_.AddDicomConstraint
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152 (tag, value->GetContent(), caseSensitivePN, true /* mandatory */);
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153 }
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154 }
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155 }
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156 }
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157
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158
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159 std::string HierarchicalMatcher::Format(const std::string& prefix) const
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160 {
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161 std::string s;
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162
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163 std::set<DicomTag> tags;
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164 for (size_t i = 0; i < flatConstraints_.GetConstraintsCount(); i++)
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165 {
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166 const DicomTagConstraint& c = flatConstraints_.GetConstraint(i);
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167
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168 s += c.Format() + "\n";
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169 tags.insert(c.GetTag());
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170 }
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171
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172 // Loop over the universal constraints
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173 for (std::set<DicomTag>::const_iterator it = flatTags_.begin();
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174 it != flatTags_.end(); ++it)
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175 {
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176 if (tags.find(*it) == tags.end())
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177 {
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178 s += prefix + it->Format() + " == *\n";
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179 }
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180 }
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181
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182 for (Sequences::const_iterator it = sequences_.begin();
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183 it != sequences_.end(); ++it)
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184 {
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185 s += prefix + it->first.Format() + " ";
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186
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187 if (it->second == NULL)
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188 {
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189 s += "*\n";
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190 }
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191 else
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192 {
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193 s += "Sequence:\n" + it->second->Format(prefix + " ");
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194 }
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195 }
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196
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197 return s;
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198 }
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199
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200
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201 bool HierarchicalMatcher::Match(ParsedDicomFile& dicom) const
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202 {
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203 bool hasCodeExtensions;
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204 Encoding encoding = dicom.DetectEncoding(hasCodeExtensions);
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205
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206 return MatchInternal(*dicom.GetDcmtkObject().getDataset(),
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207 encoding, hasCodeExtensions);
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208 }
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209
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210
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211 bool HierarchicalMatcher::MatchInternal(DcmItem& item,
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212 Encoding encoding,
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213 bool hasCodeExtensions) const
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214 {
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215 if (!flatConstraints_.IsMatch(item, encoding, hasCodeExtensions))
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216 {
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217 return false;
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218 }
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219
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220 for (Sequences::const_iterator it = sequences_.begin();
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221 it != sequences_.end(); ++it)
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222 {
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223 if (it->second != NULL)
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224 {
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225 DcmTagKey tag = ToDcmtkBridge::Convert(it->first);
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226
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227 DcmSequenceOfItems* sequence = NULL;
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228 if (!item.findAndGetSequence(tag, sequence).good() ||
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229 sequence == NULL)
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230 {
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231 continue;
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232 }
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233
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234 bool match = false;
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235
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236 for (unsigned long i = 0; i < sequence->card(); i++)
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237 {
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238 if (it->second->MatchInternal(*sequence->getItem(i), encoding, hasCodeExtensions))
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239 {
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240 match = true;
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241 break;
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242 }
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243 }
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244
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245 if (!match)
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246 {
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247 return false;
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248 }
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249 }
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250 }
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251
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252 return true;
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253 }
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254
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255
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256 DcmDataset* HierarchicalMatcher::ExtractInternal(DcmItem& source,
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257 Encoding encoding,
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258 bool hasCodeExtensions) const
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259 {
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260 std::auto_ptr<DcmDataset> target(new DcmDataset);
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261
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262 for (std::set<DicomTag>::const_iterator it = flatTags_.begin();
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263 it != flatTags_.end(); ++it)
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264 {
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265 DcmTagKey tag = ToDcmtkBridge::Convert(*it);
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266
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267 DcmElement* element = NULL;
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268 if (source.findAndGetElement(tag, element).good() &&
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269 element != NULL)
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270 {
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271 std::auto_ptr<DcmElement> cloned(FromDcmtkBridge::CreateElementForTag(*it));
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272 cloned->copyFrom(*element);
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273 target->insert(cloned.release());
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274 }
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275 }
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276
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277 for (Sequences::const_iterator it = sequences_.begin();
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278 it != sequences_.end(); ++it)
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279 {
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280 DcmTagKey tag = ToDcmtkBridge::Convert(it->first);
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281
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282 DcmSequenceOfItems* sequence = NULL;
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283 if (source.findAndGetSequence(tag, sequence).good() &&
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284 sequence != NULL)
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285 {
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286 std::auto_ptr<DcmSequenceOfItems> cloned(new DcmSequenceOfItems(tag));
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287
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288 for (unsigned long i = 0; i < sequence->card(); i++)
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289 {
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290 if (it->second == NULL)
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291 {
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292 cloned->append(new DcmItem(*sequence->getItem(i)));
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293 }
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294 else if (it->second->MatchInternal(*sequence->getItem(i), encoding, hasCodeExtensions)) // TODO Might be optimized
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295 {
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296 // It is necessary to encapsulate the child dataset into a
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297 // "DcmItem" object before it can be included in a
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298 // sequence. Otherwise, "dciodvfy" reports an error "Bad
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299 // tag in sequence - Expecting Item or Sequence Delimiter."
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300 std::auto_ptr<DcmDataset> child(it->second->ExtractInternal(*sequence->getItem(i), encoding, hasCodeExtensions));
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301 cloned->append(new DcmItem(*child));
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302 }
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303 }
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304
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305 target->insert(cloned.release());
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306 }
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307 }
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308
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309 return target.release();
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310 }
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311
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312
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313 ParsedDicomFile* HierarchicalMatcher::Extract(ParsedDicomFile& dicom) const
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314 {
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315 bool hasCodeExtensions;
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316 Encoding encoding = dicom.DetectEncoding(hasCodeExtensions);
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317
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318 std::auto_ptr<DcmDataset> dataset(ExtractInternal(*dicom.GetDcmtkObject().getDataset(),
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319 encoding, hasCodeExtensions));
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320
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321 std::auto_ptr<ParsedDicomFile> result(new ParsedDicomFile(*dataset));
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322 result->SetEncoding(encoding);
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323
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324 return result.release();
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325 }
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326 }