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annotate Framework/Toolbox/DicomStructureSet2.h @ 988:4c9b4c4de814 toa2019090901

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Fixed bug in DicomStructureSet that prevented points from being added to polygons
author Benjamin Golinvaux <bgo@osimis.io>
date Mon, 09 Sep 2019 16:15:28 +0200
parents d225bccd4d4a
children 38b6bb0bdd72
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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) 2017-2019 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 Affero General Public 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 * Affero 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 Affero General Public License
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18 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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19 **/
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22 #pragma once
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24 #include "CoordinateSystem3D.h"
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25 #include "Extent2D.h"
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26 #include "../Scene2D/Color.h"
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27
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28 #include <Plugins/Samples/Common/FullOrthancDataset.h>
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29
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30 #include <list>
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31
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32 namespace OrthancStone
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33 {
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34 class DicomStructureSet2 : public boost::noncopyable
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35 {
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36 public:
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37 typedef std::pair<double, double> PolygonPoint2D;
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38
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39 private:
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40 struct ReferencedSlice
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41 {
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42 std::string seriesInstanceUid_;
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43 CoordinateSystem3D geometry_;
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44 double thickness_;
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45
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46 ReferencedSlice()
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47 {
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48 }
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49
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50 ReferencedSlice(const std::string& seriesInstanceUid,
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51 const CoordinateSystem3D& geometry,
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52 double thickness) :
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53 seriesInstanceUid_(seriesInstanceUid),
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54 geometry_(geometry),
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55 thickness_(thickness)
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56 {
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57 }
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58 };
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59
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60 typedef std::map<std::string, ReferencedSlice> ReferencedSlices;
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61
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62 typedef std::vector<Vector> Points;
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63
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64 class Polygon
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65 {
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66 private:
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67 std::string sopInstanceUid_;
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68 bool hasSlice_;
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69 CoordinateSystem3D geometry_;
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70 double projectionAlongNormal_;
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71 double sliceThickness_; // In millimeters
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72 Points points_;
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73 Extent2D extent_;
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74
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75 void CheckPointIsOnSlice(const Vector& v) const;
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76 bool IsPointOnSliceIfAny(const Vector& v) const;
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77
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78 public:
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79 Polygon(const std::string& sopInstanceUid) :
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80 sopInstanceUid_(sopInstanceUid),
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81 hasSlice_(false)
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82 {
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83 }
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84
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85 void Reserve(size_t n)
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86 {
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87 points_.reserve(n);
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88 }
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89
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90 void AddPoint(const Vector& v);
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91
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92 bool UpdateReferencedSlice(const ReferencedSlices& slices);
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94 bool IsOnSlice(const CoordinateSystem3D& geometry) const;
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95
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96 const std::string& GetSopInstanceUid() const
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97 {
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98 return sopInstanceUid_;
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99 }
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100
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101 const Points& GetPoints() const
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102 {
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103 return points_;
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104 }
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105
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106 double GetSliceThickness() const
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107 {
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108 return sliceThickness_;
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109 }
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110
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111 bool Project(double& x1,
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112 double& y1,
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113 double& x2,
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114 double& y2,
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115 const CoordinateSystem3D& slice) const;
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116 };
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117
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118 typedef std::list<Polygon> Polygons;
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119
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120 struct Structure
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121 {
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122 std::string name_;
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123 std::string interpretation_;
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124 Polygons polygons_;
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125 uint8_t red_;
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126 uint8_t green_;
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127 uint8_t blue_;
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128 };
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129
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130 typedef std::vector<Structure> Structures;
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131
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132 Structures structures_;
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133 ReferencedSlices referencedSlices_;
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134
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135 const Structure& GetStructure(size_t index) const;
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136
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137 Structure& GetStructure(size_t index);
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138
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139 bool ProjectStructure(std::vector< std::vector<PolygonPoint2D> >& polygons,
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140 const Structure& structure,
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141 const CoordinateSystem3D& slice) const;
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142
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143 public:
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144 DicomStructureSet2(const OrthancPlugins::FullOrthancDataset& instance);
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145
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146 size_t GetStructuresCount() const
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147 {
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148 return structures_.size();
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149 }
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150
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151 Vector GetStructureCenter(size_t index) const;
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152
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153 const std::string& GetStructureName(size_t index) const;
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154
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155 const std::string& GetStructureInterpretation(size_t index) const;
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156
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157 Color GetStructureColor(size_t index) const;
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158
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159 // TODO - remove
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160 void GetStructureColor(uint8_t& red,
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161 uint8_t& green,
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162 uint8_t& blue,
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163 size_t index) const;
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164
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165 void GetReferencedInstances(std::set<std::string>& instances);
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166
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167 void AddReferencedSlice(const std::string& sopInstanceUid,
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168 const std::string& seriesInstanceUid,
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169 const CoordinateSystem3D& geometry,
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170 double thickness);
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171
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172 void AddReferencedSlice(const Orthanc::DicomMap& dataset);
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173
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174 void CheckReferencedSlices();
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175
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176 Vector GetNormal() const;
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177
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178 bool ProjectStructure(std::vector< std::vector<PolygonPoint2D> >& polygons,
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179 size_t index,
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180 const CoordinateSystem3D& slice) const
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181 {
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182 return ProjectStructure(polygons, GetStructure(index), slice);
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183 }
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184 };
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185 }