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annotate OrthancStone/Sources/Toolbox/DicomStructureSet.h @ 2177:4d21befb1501 default tip

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clarify DICOMweb version check
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 23 Oct 2024 19:27:56 +0200
parents 917e40af6b45
children
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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) 2017-2023 Osimis S.A., Belgium
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6 * Copyright (C) 2021-2024 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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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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31
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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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43
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44 #include <list>
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45
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46 namespace OrthancStone
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47 {
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48 class DicomStructureSet : public boost::noncopyable
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49 {
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50 private:
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51 struct ReferencedSlice
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52 {
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53 std::string seriesInstanceUid_;
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54 CoordinateSystem3D geometry_;
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55 double thickness_;
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56
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57 ReferencedSlice()
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58 {
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59 }
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60
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61 ReferencedSlice(const std::string& seriesInstanceUid,
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62 const CoordinateSystem3D& geometry,
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63 double thickness) :
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64 seriesInstanceUid_(seriesInstanceUid),
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65 geometry_(geometry),
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66 thickness_(thickness)
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67 {
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68 }
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69 };
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70
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71 typedef std::map<std::string, ReferencedSlice> ReferencedSlices;
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72
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73 typedef std::vector<Vector> Points;
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74
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75 class Polygon
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76 {
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77 private:
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78 std::string sopInstanceUid_;
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79 bool hasSlice_;
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80 CoordinateSystem3D geometry_;
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81 double projectionAlongNormal_;
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82 double sliceThickness_; // In millimeters
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83 Points points_;
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84 Extent2D extent_;
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85
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86 bool IsPointOnSliceIfAny(const Vector& v) const;
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87
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88 public:
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89 explicit Polygon(const std::string& sopInstanceUid) :
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90 sopInstanceUid_(sopInstanceUid),
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91 hasSlice_(false),
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92 projectionAlongNormal_(0),
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93 sliceThickness_(0)
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94 {
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95 }
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96
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97 void Reserve(size_t n)
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98 {
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99 points_.reserve(n);
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100 }
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101
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102 void AddPoint(const Vector& v);
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103
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104 bool UpdateReferencedSlice(const ReferencedSlices& slices);
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105
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106 bool IsOnSlice(const CoordinateSystem3D& cuttingPlane,
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107 const Vector& estimatedNormal,
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108 double estimatedSliceThickness) 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 void Project(std::list<Extent2D>& target,
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131 const CoordinateSystem3D& cuttingPlane,
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132 const Vector& estimatedNormal,
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133 double estimatedSliceThickness) const;
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134 };
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135
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136 typedef std::list<Polygon> Polygons;
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137
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138 struct Structure
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139 {
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140 std::string name_;
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141 std::string interpretation_;
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142 Polygons polygons_;
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143 uint8_t red_;
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144 uint8_t green_;
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145 uint8_t blue_;
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146 };
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147
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148 typedef std::vector<Structure> Structures;
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149 typedef std::map<std::string, size_t> StructureNamesIndex;
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150
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151 Structures structures_;
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152 ReferencedSlices referencedSlices_;
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153 Vector estimatedNormal_;
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154 double estimatedSliceThickness_;
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155 StructureNamesIndex structureNamesIndex_;
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156
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157
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158 void Setup(const IDicomDataset& dataset);
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159
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160 const Structure& GetStructure(size_t index) const;
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161
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162 Structure& GetStructure(size_t index);
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163
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164 bool ProjectStructure(std::vector< std::vector<ScenePoint2D> >& chains,
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165 const Structure& structure,
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166 const CoordinateSystem3D& cuttingPlane) const;
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167
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168 void EstimateGeometry();
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169
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170 public:
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171 explicit DicomStructureSet(const FullOrthancDataset& instance)
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172 {
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173 Setup(instance);
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174 }
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175
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176 #if ORTHANC_ENABLE_DCMTK == 1
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177 explicit DicomStructureSet(Orthanc::ParsedDicomFile& instance);
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178 #endif
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179
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180 size_t GetStructuresCount() const
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181 {
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182 return structures_.size();
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183 }
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184
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185 Vector GetStructureCenter(size_t index) const;
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186
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187 const std::string& GetStructureName(size_t index) const;
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188
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189 const std::string& GetStructureInterpretation(size_t index) const;
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190
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191 Color GetStructureColor(size_t index) const;
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192
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193 void GetReferencedInstances(std::set<std::string>& instances) const;
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194
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195 void AddReferencedSlice(const std::string& sopInstanceUid,
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196 const std::string& seriesInstanceUid,
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197 const CoordinateSystem3D& geometry,
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198 double thickness);
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199
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200 void AddReferencedSlice(const Orthanc::DicomMap& dataset);
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201
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202 void CheckReferencedSlices();
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203
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204 Vector GetNormal() const;
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205
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206 bool ProjectStructure(std::vector< std::vector<ScenePoint2D> >& chains,
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207 size_t index,
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208 const CoordinateSystem3D& cuttingPlane) const
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209 {
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210 return ProjectStructure(chains, GetStructure(index), cuttingPlane);
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211 }
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212
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213 void ProjectOntoLayer(PolylineSceneLayer& layer,
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214 const CoordinateSystem3D& cuttingPlane,
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215 size_t structureIndex,
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216 const Color& color) const;
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217
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218 void ProjectOntoLayer(PolylineSceneLayer& layer,
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219 const CoordinateSystem3D& cuttingPlane,
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220 size_t structureIndex) const
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221 {
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222 ProjectOntoLayer(layer, cuttingPlane, structureIndex, GetStructureColor(structureIndex));
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223 }
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224
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225 void GetStructurePoints(std::list< std::vector<Vector> >& target,
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226 size_t structureIndex,
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227 const std::string& sopInstanceUid) const;
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228
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229 const Vector& GetEstimatedNormal() const
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230 {
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231 return estimatedNormal_;
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232 }
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233
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234 const double GetEstimatedSliceThickness() const
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235 {
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236 return estimatedSliceThickness_;
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237 }
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238
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239 bool LookupStructureName(size_t& structureIndex /* out */,
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240 const std::string& name) const;
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241 };
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242 }