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annotate OrthancStone/Sources/Toolbox/DicomStructureSet.h @ 1885:ddaee6b96501

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retrieving rt-struct info
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 14 Jan 2022 19:04:05 +0100
parents 7053b8a0aaec
children 6ce81914f7e4
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1 /**
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2 * Stone of Orthanc
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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 Lesser General Public License
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10 * as published by the Free Software Foundation, either version 3 of
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11 * the 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 * Lesser 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 Lesser General Public
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19 * License along with this program. If not, see
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20 * <http://www.gnu.org/licenses/>.
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21 **/
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24 #pragma once
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25
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26 #include "../OrthancStone.h"
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27
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28 #if !defined(ORTHANC_ENABLE_DCMTK)
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29 # error The macro ORTHANC_ENABLE_DCMTK must be defined
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30 #endif
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32 #include "DicomStructureSetUtils.h"
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33 #include "CoordinateSystem3D.h"
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34 #include "Extent2D.h"
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35 #include "OrthancDatasets/FullOrthancDataset.h"
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36 #include "../Scene2D/Color.h"
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37 #include "../Scene2D/PolylineSceneLayer.h"
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38 #include "../Scene2D/ScenePoint2D.h"
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39
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40 #if ORTHANC_ENABLE_DCMTK == 1
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41 # include <DicomParsing/ParsedDicomFile.h>
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42 #endif
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43
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44 //#define USE_BOOST_UNION_FOR_POLYGONS 1
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47 #include <list>
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48
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49 namespace OrthancStone
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50 {
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51 class DicomStructureSet : public boost::noncopyable
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52 {
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53 private:
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54 struct ReferencedSlice
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55 {
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56 std::string seriesInstanceUid_;
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57 CoordinateSystem3D geometry_;
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58 double thickness_;
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59
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60 ReferencedSlice()
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61 {
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62 }
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64 ReferencedSlice(const std::string& seriesInstanceUid,
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65 const CoordinateSystem3D& geometry,
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66 double thickness) :
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67 seriesInstanceUid_(seriesInstanceUid),
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68 geometry_(geometry),
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69 thickness_(thickness)
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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 typedef std::map<std::string, ReferencedSlice> ReferencedSlices;
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75
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76 typedef std::vector<Vector> Points;
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78 class Polygon
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79 {
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80 private:
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81 std::string sopInstanceUid_;
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82 bool hasSlice_;
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83 CoordinateSystem3D geometry_;
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84 double projectionAlongNormal_;
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85 double sliceThickness_; // In millimeters
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86 Points points_;
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87 Extent2D extent_;
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88
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89 void CheckPointIsOnSlice(const Vector& v) const;
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90 bool IsPointOnSliceIfAny(const Vector& v) const;
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91
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92 public:
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93 explicit Polygon(const std::string& sopInstanceUid) :
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94 sopInstanceUid_(sopInstanceUid),
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95 hasSlice_(false),
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96 projectionAlongNormal_(0),
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97 sliceThickness_(0)
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98 {
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99 }
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100
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101 void Reserve(size_t n)
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102 {
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103 points_.reserve(n);
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104 }
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105
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106 void AddPoint(const Vector& v);
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107
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108 bool UpdateReferencedSlice(const ReferencedSlices& slices);
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109
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110 bool IsOnSlice(const CoordinateSystem3D& geometry) const;
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111
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112 const Vector& GetGeometryOrigin() const
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113 {
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114 return geometry_.GetOrigin();
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115 }
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116
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117 const std::string& GetSopInstanceUid() const
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118 {
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119 return sopInstanceUid_;
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120 }
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121
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122 const Points& GetPoints() const
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123 {
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124 return points_;
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125 }
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126
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127 double GetSliceThickness() const
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128 {
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129 return sliceThickness_;
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130 }
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131
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132 bool Project(double& x1,
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133 double& y1,
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134 double& x2,
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135 double& y2,
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136 const CoordinateSystem3D& slice) const;
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137 };
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138
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139 typedef std::list<Polygon> Polygons;
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140
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141 struct Structure
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142 {
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143 std::string name_;
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144 std::string interpretation_;
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145 Polygons polygons_;
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146 uint8_t red_;
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147 uint8_t green_;
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148 uint8_t blue_;
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149 };
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150
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151 typedef std::vector<Structure> Structures;
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152
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153 Structures structures_;
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154 ReferencedSlices referencedSlices_;
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155
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156 void Setup(const IDicomDataset& dataset);
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157
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158 const Structure& GetStructure(size_t index) const;
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159
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160 Structure& GetStructure(size_t index);
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161
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162 bool ProjectStructure(
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163 #if USE_BOOST_UNION_FOR_POLYGONS == 1
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164 std::vector< std::vector<Point2D> >& polygons,
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165 #else
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166 std::vector< std::pair<Point2D, Point2D> >& segments,
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167 #endif
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168 const Structure& structure,
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169 const CoordinateSystem3D& slice) const;
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170
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171 public:
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172 explicit DicomStructureSet(const FullOrthancDataset& instance)
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173 {
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174 Setup(instance);
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175 }
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176
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177 #if ORTHANC_ENABLE_DCMTK == 1
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178 explicit DicomStructureSet(Orthanc::ParsedDicomFile& instance);
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179 #endif
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180
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181 size_t GetStructuresCount() const
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182 {
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183 return structures_.size();
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184 }
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185
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186 Vector GetStructureCenter(size_t index) const;
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187
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188 const std::string& GetStructureName(size_t index) const;
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189
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190 const std::string& GetStructureInterpretation(size_t index) const;
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191
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192 Color GetStructureColor(size_t index) const;
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193
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194 // TODO - remove
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195 void GetStructureColor(uint8_t& red,
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196 uint8_t& green,
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197 uint8_t& blue,
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198 size_t index) const;
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199
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200 void GetReferencedInstances(std::set<std::string>& instances) const;
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201
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202 void AddReferencedSlice(const std::string& sopInstanceUid,
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203 const std::string& seriesInstanceUid,
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204 const CoordinateSystem3D& geometry,
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205 double thickness);
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206
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207 void AddReferencedSlice(const Orthanc::DicomMap& dataset);
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208
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209 void CheckReferencedSlices();
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210
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211 Vector GetNormal() const;
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212
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213 #if USE_BOOST_UNION_FOR_POLYGONS == 1
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214 bool ProjectStructure(std::vector< std::vector<Point2D> >& polygons,
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215 size_t index,
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216 const CoordinateSystem3D& slice) const
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217 {
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218 return ProjectStructure(polygons, GetStructure(index), slice);
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219 }
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220 #else
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221 bool ProjectStructure(std::vector< std::pair<Point2D, Point2D> >& segments,
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222 size_t index,
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223 const CoordinateSystem3D& slice) const
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224 {
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225 return ProjectStructure(segments, GetStructure(index), slice);
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226 }
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227 #endif
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228
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229 void ProjectOntoLayer(PolylineSceneLayer& layer,
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230 const CoordinateSystem3D& plane,
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231 size_t structureIndex,
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232 const Color& color) const;
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233
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234 void ProjectOntoLayer(PolylineSceneLayer& layer,
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235 const CoordinateSystem3D& plane,
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236 size_t structureIndex) const
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237 {
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238 ProjectOntoLayer(layer, plane, structureIndex, GetStructureColor(structureIndex));
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239 }
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240
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241 void GetStructurePoints(std::list< std::vector<Vector> >& target,
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242 size_t structureIndex,
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243 const std::string& sopInstanceUid) const;
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244 };
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245 }