annotate OrthancStone/Sources/Toolbox/DicomStructureSet.h @ 1708:eb59fbee071e

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author Sebastien Jodogne <s.jodogne@gmail.com>
date Sat, 28 Nov 2020 16:16:24 +0100
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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) 2017-2020 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 Lesser General Public License
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28956ed68280 agpl license
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Lesser General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Lesser General Public
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18 * License along with this program. If not, see
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19 * <http://www.gnu.org/licenses/>.
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20 **/
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23 #pragma once
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24
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25 #include "../OrthancStone.h"
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26
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27 #if !defined(ORTHANC_ENABLE_DCMTK)
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28 # error The macro ORTHANC_ENABLE_DCMTK must be defined
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29 #endif
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31 #include "DicomStructureSetUtils.h"
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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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38 #if ORTHANC_ENABLE_DCMTK == 1
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39 # include <DicomParsing/ParsedDicomFile.h>
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40 #endif
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41
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42 //#define USE_BOOST_UNION_FOR_POLYGONS 1
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45 #include <list>
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47 namespace OrthancStone
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48 {
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49 class DicomStructureSet : public boost::noncopyable
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50 {
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51 private:
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52 struct ReferencedSlice
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53 {
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54 std::string seriesInstanceUid_;
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55 CoordinateSystem3D geometry_;
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56 double thickness_;
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57
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58 ReferencedSlice()
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59 {
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60 }
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61
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62 ReferencedSlice(const std::string& seriesInstanceUid,
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63 const CoordinateSystem3D& geometry,
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64 double thickness) :
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65 seriesInstanceUid_(seriesInstanceUid),
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66 geometry_(geometry),
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67 thickness_(thickness)
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68 {
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69 }
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70 };
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71
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72 typedef std::map<std::string, ReferencedSlice> ReferencedSlices;
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73
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74 typedef std::vector<Vector> Points;
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76 class Polygon
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77 {
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78 private:
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79 std::string sopInstanceUid_;
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80 bool hasSlice_;
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81 CoordinateSystem3D geometry_;
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82 double projectionAlongNormal_;
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83 double sliceThickness_; // In millimeters
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84 Points points_;
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85 Extent2D extent_;
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86
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87 void CheckPointIsOnSlice(const Vector& v) const;
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88 bool IsPointOnSliceIfAny(const Vector& v) const;
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89
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90 public:
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91 explicit Polygon(const std::string& sopInstanceUid) :
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92 sopInstanceUid_(sopInstanceUid),
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93 hasSlice_(false),
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94 projectionAlongNormal_(0),
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95 sliceThickness_(0)
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96 {
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97 }
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98
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99 void Reserve(size_t n)
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100 {
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101 points_.reserve(n);
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102 }
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103
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104 void AddPoint(const Vector& v);
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105
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106 bool UpdateReferencedSlice(const ReferencedSlices& slices);
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107
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108 bool IsOnSlice(const CoordinateSystem3D& geometry) const;
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109
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110 const Vector& GetGeometryOrigin() const
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111 {
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112 return geometry_.GetOrigin();
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113 }
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114
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115 const std::string& GetSopInstanceUid() const
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116 {
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117 return sopInstanceUid_;
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118 }
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119
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120 const Points& GetPoints() const
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121 {
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122 return points_;
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123 }
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124
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125 double GetSliceThickness() const
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126 {
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127 return sliceThickness_;
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128 }
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129
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130 bool Project(double& x1,
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131 double& y1,
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132 double& x2,
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133 double& y2,
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134 const CoordinateSystem3D& slice) const;
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135 };
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136
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137 typedef std::list<Polygon> Polygons;
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138
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139 struct Structure
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140 {
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141 std::string name_;
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142 std::string interpretation_;
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143 Polygons polygons_;
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144 uint8_t red_;
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145 uint8_t green_;
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146 uint8_t blue_;
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147 };
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148
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149 typedef std::vector<Structure> Structures;
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150
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151 Structures structures_;
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152 ReferencedSlices referencedSlices_;
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153
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154 void Setup(const IDicomDataset& dataset);
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155
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156 const Structure& GetStructure(size_t index) const;
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157
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158 Structure& GetStructure(size_t index);
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159
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160 bool ProjectStructure(
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161 #if USE_BOOST_UNION_FOR_POLYGONS == 1
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162 std::vector< std::vector<Point2D> >& polygons,
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163 #else
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164 std::vector< std::pair<Point2D, Point2D> >& segments,
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165 #endif
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166 const Structure& structure,
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167 const CoordinateSystem3D& slice) const;
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168
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169 public:
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170 explicit DicomStructureSet(const FullOrthancDataset& instance)
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171 {
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172 Setup(instance);
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173 }
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174
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175 #if ORTHANC_ENABLE_DCMTK == 1
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176 explicit DicomStructureSet(Orthanc::ParsedDicomFile& instance);
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177 #endif
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178
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179 size_t GetStructuresCount() const
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180 {
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181 return structures_.size();
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182 }
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183
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184 Vector GetStructureCenter(size_t index) const;
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185
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186 const std::string& GetStructureName(size_t index) const;
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187
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188 const std::string& GetStructureInterpretation(size_t index) const;
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189
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190 Color GetStructureColor(size_t index) const;
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191
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192 // TODO - remove
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193 void GetStructureColor(uint8_t& red,
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194 uint8_t& green,
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195 uint8_t& blue,
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196 size_t index) const;
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197
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198 void GetReferencedInstances(std::set<std::string>& instances);
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199
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200 void AddReferencedSlice(const std::string& sopInstanceUid,
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201 const std::string& seriesInstanceUid,
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202 const CoordinateSystem3D& geometry,
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203 double thickness);
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204
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205 void AddReferencedSlice(const Orthanc::DicomMap& dataset);
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206
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207 void CheckReferencedSlices();
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208
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209 Vector GetNormal() const;
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210
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211 #if USE_BOOST_UNION_FOR_POLYGONS == 1
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212 bool ProjectStructure(std::vector< std::vector<Point2D> >& polygons,
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213 size_t index,
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214 const CoordinateSystem3D& slice) const
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215 {
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216 return ProjectStructure(polygons, GetStructure(index), slice);
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217 }
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218 #else
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219 bool ProjectStructure(std::vector< std::pair<Point2D, Point2D> >& segments,
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220 size_t index,
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221 const CoordinateSystem3D& slice) const
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222 {
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223 return ProjectStructure(segments, GetStructure(index), slice);
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224 }
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225 #endif
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226
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227 void ProjectOntoLayer(PolylineSceneLayer& layer,
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228 const CoordinateSystem3D& plane,
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229 size_t structureIndex,
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230 const Color& color) const;
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231
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232 void ProjectOntoLayer(PolylineSceneLayer& layer,
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233 const CoordinateSystem3D& plane,
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234 size_t structureIndex) const
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235 {
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236 ProjectOntoLayer(layer, plane, structureIndex, GetStructureColor(structureIndex));
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237 }
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238 };
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239 }