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annotate OrthancStone/Sources/Toolbox/DicomStructureSet.h @ 1895:14c8f339d480

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removed redundant definitions Point2D, Point3D and Vector3D from DicomStructureSetUtils.h
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 19 Jan 2022 14:51:55 +0100
parents 90b5e116a5f9
children b3c08e607d9f
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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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28956ed68280 agpl 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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22
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23
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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 "CoordinateSystem3D.h"
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33 #include "Extent2D.h"
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34 #include "OrthancDatasets/FullOrthancDataset.h"
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35 #include "../Scene2D/Color.h"
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36 #include "../Scene2D/PolylineSceneLayer.h"
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37 #include "../Scene2D/ScenePoint2D.h"
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39 #if ORTHANC_ENABLE_DCMTK == 1
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40 # include <DicomParsing/ParsedDicomFile.h>
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41 #endif
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42
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43 //#define USE_BOOST_UNION_FOR_POLYGONS 1
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46 #include <list>
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47
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48 namespace OrthancStone
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49 {
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50 class DicomStructureSet : public boost::noncopyable
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51 {
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52 private:
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53 struct ReferencedSlice
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54 {
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55 std::string seriesInstanceUid_;
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56 CoordinateSystem3D geometry_;
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57 double thickness_;
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58
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59 ReferencedSlice()
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60 {
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61 }
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62
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63 ReferencedSlice(const std::string& seriesInstanceUid,
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64 const CoordinateSystem3D& geometry,
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65 double thickness) :
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66 seriesInstanceUid_(seriesInstanceUid),
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67 geometry_(geometry),
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68 thickness_(thickness)
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69 {
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70 }
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71 };
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72
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73 typedef std::map<std::string, ReferencedSlice> ReferencedSlices;
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74
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75 typedef std::vector<Vector> Points;
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77 class Polygon
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78 {
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79 private:
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80 std::string sopInstanceUid_;
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81 bool hasSlice_;
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82 CoordinateSystem3D geometry_;
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83 double projectionAlongNormal_;
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84 double sliceThickness_; // In millimeters
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85 Points points_;
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86 Extent2D extent_;
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87
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88 void CheckPointIsOnSlice(const Vector& v) const;
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89 bool IsPointOnSliceIfAny(const Vector& v) const;
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90
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91 public:
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92 explicit Polygon(const std::string& sopInstanceUid) :
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93 sopInstanceUid_(sopInstanceUid),
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94 hasSlice_(false),
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95 projectionAlongNormal_(0),
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96 sliceThickness_(0)
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97 {
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98 }
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99
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100 void Reserve(size_t n)
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101 {
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102 points_.reserve(n);
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103 }
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104
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105 void AddPoint(const Vector& v);
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106
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107 bool UpdateReferencedSlice(const ReferencedSlices& slices);
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108
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109 bool IsOnSlice(const CoordinateSystem3D& geometry) const;
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110
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111 const Vector& GetGeometryOrigin() const
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112 {
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113 return geometry_.GetOrigin();
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114 }
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115
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116 const std::string& GetSopInstanceUid() const
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117 {
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118 return sopInstanceUid_;
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119 }
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120
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121 const Points& GetPoints() const
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122 {
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123 return points_;
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124 }
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125
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126 double GetSliceThickness() const
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127 {
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128 return sliceThickness_;
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129 }
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130
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131 bool Project(double& x1,
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132 double& y1,
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133 double& x2,
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134 double& y2,
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135 const CoordinateSystem3D& slice) const;
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136 };
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137
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138 typedef std::list<Polygon> Polygons;
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139
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140 struct Structure
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141 {
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142 std::string name_;
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143 std::string interpretation_;
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144 Polygons polygons_;
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145 uint8_t red_;
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146 uint8_t green_;
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147 uint8_t blue_;
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148 };
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149
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150 typedef std::vector<Structure> Structures;
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151
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152 Structures structures_;
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153 ReferencedSlices referencedSlices_;
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154 Vector estimatedNormal_;
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155 double estimatedSliceThickness_;
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156
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157 void Setup(const IDicomDataset& dataset);
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158
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159 const Structure& GetStructure(size_t index) const;
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160
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161 Structure& GetStructure(size_t index);
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162
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163 bool ProjectStructure(
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164 #if USE_BOOST_UNION_FOR_POLYGONS == 1
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165 std::vector< std::vector<ScenePoint2D> >& polygons,
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166 #else
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167 std::vector< std::pair<ScenePoint2D, ScenePoint2D> >& segments,
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168 #endif
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169 const Structure& structure,
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170 const CoordinateSystem3D& slice) const;
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171
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172 void EstimateGeometry();
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173
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174 public:
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175 explicit DicomStructureSet(const FullOrthancDataset& instance)
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176 {
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177 Setup(instance);
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178 }
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179
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180 #if ORTHANC_ENABLE_DCMTK == 1
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181 explicit DicomStructureSet(Orthanc::ParsedDicomFile& instance);
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182 #endif
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183
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184 size_t GetStructuresCount() const
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185 {
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186 return structures_.size();
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187 }
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188
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189 Vector GetStructureCenter(size_t index) const;
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190
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191 const std::string& GetStructureName(size_t index) const;
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192
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193 const std::string& GetStructureInterpretation(size_t index) const;
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194
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195 Color GetStructureColor(size_t index) const;
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196
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197 void GetReferencedInstances(std::set<std::string>& instances) const;
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198
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199 void AddReferencedSlice(const std::string& sopInstanceUid,
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200 const std::string& seriesInstanceUid,
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201 const CoordinateSystem3D& geometry,
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202 double thickness);
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203
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204 void AddReferencedSlice(const Orthanc::DicomMap& dataset);
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205
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206 void CheckReferencedSlices();
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207
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208 Vector GetNormal() const;
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209
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210 #if USE_BOOST_UNION_FOR_POLYGONS == 1
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211 bool ProjectStructure(std::vector< std::vector<ScenePoint2D> >& polygons,
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212 size_t index,
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213 const CoordinateSystem3D& slice) const
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214 {
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215 return ProjectStructure(polygons, GetStructure(index), slice);
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216 }
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217 #else
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218 bool ProjectStructure(std::vector< std::pair<ScenePoint2D, ScenePoint2D> >& segments,
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219 size_t index,
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220 const CoordinateSystem3D& slice) const
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221 {
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222 return ProjectStructure(segments, GetStructure(index), slice);
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223 }
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224 #endif
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225
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226 void ProjectOntoLayer(PolylineSceneLayer& layer,
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227 const CoordinateSystem3D& plane,
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228 size_t structureIndex,
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229 const Color& color) const;
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230
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231 void ProjectOntoLayer(PolylineSceneLayer& layer,
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232 const CoordinateSystem3D& plane,
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233 size_t structureIndex) const
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234 {
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235 ProjectOntoLayer(layer, plane, structureIndex, GetStructureColor(structureIndex));
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236 }
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237
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238 void GetStructurePoints(std::list< std::vector<Vector> >& target,
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239 size_t structureIndex,
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240 const std::string& sopInstanceUid) const;
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241
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242 const Vector& GetEstimatedNormal() const
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243 {
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244 return estimatedNormal_;
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245 }
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246
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247 const double GetEstimatedSliceThickness() const
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248 {
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249 return estimatedSliceThickness_;
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250 }
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251 };
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252 }