Mercurial > hg > orthanc-stone

annotate Framework/Toolbox/DicomStructure2.cpp @ 1200:54cbffabdc45 broker

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integration mainline->broker
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 29 Nov 2019 11:03:41 +0100
parents 29f5f2031310
children 2d8ab34c8c91
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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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20
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21 #ifdef BGO_ENABLE_DICOMSTRUCTURESETLOADER2
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22
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23 #include "DicomStructure2.h"
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24
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25 #include "../Toolbox/GeometryToolbox.h"
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26 #include "../Toolbox/DisjointDataSet.h"
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27
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28 namespace OrthancStone
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29 {
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30 // see header
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31 //void DicomStructure2::ComputeNormal()
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32 //{
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33 // try
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34 // {
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35 // if (polygons_.size() > 0)
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36 // {
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37
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38 // // TODO: check all polygons are OK
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39 // const DicomStructurePolygon2 polygon = polygons_[0];
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40 // $$$$$$$$$$$$$$$$$
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41 // state_ = NormalComputed;
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42 // }
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43 // else
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44 // {
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45 // // bogus! no polygons. Let's assign a "nothing here" value
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46 // LinearAlgebra::AssignVector(normal_, 0, 0, 0);
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47 // state_ = Invalid;
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48 // }
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49 // }
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50 // catch (const Orthanc::OrthancException& e)
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51 // {
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52 // state_ = Invalid;
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53 // if (e.HasDetails())
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54 // {
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55 // LOG(ERROR) << "OrthancException in ComputeNormal: " << e.What() << " Details: " << e.GetDetails();
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56 // }
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57 // else
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58 // {
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59 // LOG(ERROR) << "OrthancException in ComputeNormal: " << e.What();
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60 // }
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61 // throw;
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62 // }
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63 // catch (const std::exception& e)
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64 // {
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65 // state_ = Invalid;
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66 // LOG(ERROR) << "std::exception in ComputeNormal: " << e.what();
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67 // throw;
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68 // }
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69 // catch (...)
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70 // {
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71 // state_ = Invalid;
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72 // LOG(ERROR) << "Unknown exception in ComputeNormal";
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73 // throw;
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74 // }
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75 //}
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76
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77 void DicomStructure2::ComputeSliceThickness()
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78 {
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79 if (state_ != NormalComputed)
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80 {
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81 LOG(ERROR) << "DicomStructure2::ComputeSliceThickness - state must be NormalComputed";
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82 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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83 }
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84 if (polygons_.size() < 2)
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85 {
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86 // cannot compute thickness if there are not at least 2 slabs (structures)
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87 sliceThickness_ = 1.0;
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88 state_ = Invalid;
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89 }
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90 else
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91 {
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92 // normal can be (1,0,0), (0,1,0) or (0,0,1), nothing else.
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93 // these can be compared with == (exact double representation)
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94 if (normal_[0] == 1)
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95 {
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96 // in a single polygon, all the points have the same X
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97 sliceThickness_ = fabs(polygons_[0].GetPoint(0)[0] - polygons_[1].GetPoint(0)[0]);
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98 }
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99 else if (normal_[1] == 1)
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100 {
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101 // in a single polygon, all the points have the same X
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102 sliceThickness_ = fabs(polygons_[0].GetPoint(0)[1] - polygons_[1].GetPoint(0)[1]);
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103 }
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104 else if (normal_[2] == 1)
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105 {
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106 // in a single polygon, all the points have the same X
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107 sliceThickness_ = fabs(polygons_[0].GetPoint(0)[2] - polygons_[1].GetPoint(0)[2]);
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108 }
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109 else
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110 {
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111 ORTHANC_ASSERT(false);
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112 state_ = Invalid;
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113 }
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114 }
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115 state_ = Valid;
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116 }
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117
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118 void DicomStructure2::AddPolygon(const DicomStructurePolygon2& polygon)
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119 {
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120 if (state_ != Building)
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121 {
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122 LOG(ERROR) << "DicomStructure2::AddPolygon - can only add polygon while building";
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123 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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124 }
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125 polygons_.push_back(polygon);
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126 }
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127
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128 void DicomStructure2::ComputeDependentProperties()
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129 {
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130 if (state_ != Building)
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131 {
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132 LOG(ERROR) << "DicomStructure2::ComputeDependentProperties - can only be called once";
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133 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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134 }
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135 for (size_t i = 0; i < polygons_.size(); ++i)
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136 {
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137 // "compute" the polygon normal
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138 polygons_[i].ComputeDependentProperties();
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139 }
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140 if (polygons_.size() > 0)
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141 {
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142 normal_ = polygons_[0].GetNormal();
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143 state_ = NormalComputed;
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144 }
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145 else
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146 {
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147 LinearAlgebra::AssignVector(normal_, 0, 0, 0);
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148 state_ = Invalid; // THIS MAY HAPPEN !!! (for instance for instance 72c773ac-5059f2c4-2e6a9120-4fd4bca1-45701661 :) )
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149 }
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150 if (polygons_.size() >= 2)
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151 ComputeSliceThickness(); // this will change state_ from NormalComputed to Valid
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152 }
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153
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154 OrthancStone::Vector DicomStructure2::GetNormal() const
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155 {
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156 if (state_ != Valid && state_ != Invalid)
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157 {
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158 LOG(ERROR) << "DicomStructure2::GetNormal() -- please call ComputeDependentProperties first.";
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159 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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160 }
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161 if (state_ == Invalid)
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162 {
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163 LOG(ERROR) << "DicomStructure2::GetNormal() -- The Dicom structure is invalid. The normal is set to 0,0,0";
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164 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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165 }
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166 return normal_;
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167 }
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168
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169 const DicomStructurePolygon2* DicomStructure2::GetPolygonClosestToSlice(
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170 const CoordinateSystem3D& plane) const
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171 {
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172 ORTHANC_ASSERT(state_ == Valid);
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173
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174 // we assume 0,0,1 for now
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175 ORTHANC_ASSERT(LinearAlgebra::IsNear(plane.GetNormal()[0], 0.0));
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176 ORTHANC_ASSERT(LinearAlgebra::IsNear(plane.GetNormal()[1], 0.0));
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177
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178 for (size_t i = 0; i < polygons_.size(); ++i)
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179 {
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180 const DicomStructurePolygon2& polygon = polygons_[i];
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181
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182 // "height" of cutting plane
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183 double cutZ = plane.GetOrigin()[2];
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184
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185 if (LinearAlgebra::IsNear(
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186 cutZ, polygon.GetZ(),
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187 sliceThickness_ / 2.0 /* in mm */))
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188 return &polygon;
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189 }
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190 return NULL;
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191 }
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192
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193
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194 bool DicomStructure2::Project(std::vector< std::pair<Point2D, Point2D> > & segments, const CoordinateSystem3D & plane) const
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195 {
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196 segments.clear();
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197
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198 Vector normal = GetNormal();
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199
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200 size_t totalRectCount = 0;
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201
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202 // dummy var
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203 bool isOpposite = false;
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204
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205 // This is an axial projection
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206 if (GeometryToolbox::IsParallelOrOpposite(isOpposite, normal, plane.GetNormal()))
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207 {
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208 const DicomStructurePolygon2* polygon = GetPolygonClosestToSlice(plane);
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209 if (polygon)
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210 {
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211 polygon->ProjectOnParallelPlane(segments, plane);
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212 }
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213 }
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214 else
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215 {
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216 // let's compute the dot product of the plane normal and the polygons
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217 // normal.
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218 double dot = LinearAlgebra::DotProduct(plane.GetNormal(), normal);
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219
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220 if (LinearAlgebra::IsNear(dot, 0))
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221 {
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222 // Coronal or sagittal projection
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223
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224 // vector of vector of rectangles that will be merged in a single big contour:
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225
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226 // each polygon slab cut by a perpendicular plane yields 0..* rectangles
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227 std::vector< RtStructRectanglesInSlab > rectanglesForEachSlab;
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228
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229 for (size_t i = 0; i < polygons_.size(); ++i)
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230 {
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231 // book an entry for this slab
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232 rectanglesForEachSlab.push_back(RtStructRectanglesInSlab());
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233
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234 // let's compute the intersection between the polygon and the plane
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235 // intersections are in plane coords
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236 std::vector<Point2D> intersections;
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237
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238 polygons_[i].ProjectOnConstantPlane(intersections, plane);
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239
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240 // for each pair of intersections, we add a rectangle.
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241 if ((intersections.size() % 2) != 0)
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242 {
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243 LOG(WARNING) << "Odd number of intersections between structure "
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244 << name_ << ", polygon # " << i
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245 << " and plane where X axis is parallel to polygon normal vector";
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246 }
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247
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248 size_t numRects = intersections.size() / 2;
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249
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250 // we keep count of the total number of rects for vector pre-allocations
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251 totalRectCount += numRects;
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252
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253 for (size_t iRect = 0; iRect < numRects; ++iRect)
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254 {
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255 RtStructRectangleInSlab rectangle;
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256 ORTHANC_ASSERT(LinearAlgebra::IsNear(intersections[2 * iRect].y, intersections[2 * iRect + 1].y));
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257 ORTHANC_ASSERT((2 * iRect + 1) < intersections.size());
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258 double x1 = intersections[2 * iRect].x;
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259 double x2 = intersections[2 * iRect + 1].x;
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260 double y1 = intersections[2 * iRect].y - sliceThickness_ * 0.5;
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261 double y2 = intersections[2 * iRect].y + sliceThickness_ * 0.5;
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262
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263 rectangle.xmin = std::min(x1, x2);
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264 rectangle.xmax = std::max(x1, x2);
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265 rectangle.ymin = std::min(y1, y2);
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266 rectangle.ymax = std::max(y1, y2);
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267
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268 // TODO: keep them sorted!!!!
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269
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270 rectanglesForEachSlab.back().push_back(rectangle);
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271 }
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272 }
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273 // now we need to merge all the slabs into a set of polygons (1 or more)
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274 ConvertListOfSlabsToSegments(segments, rectanglesForEachSlab, totalRectCount);
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275 }
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276 else
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277 {
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278 // plane is not perpendicular to the polygons
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279 // 180.0 / [Math]::Pi = 57.2957795130823
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280 double acDot = 57.2957795130823 * acos(dot);
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281 LOG(ERROR) << "DicomStructure2::Project -- cutting plane must be "
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282 << "perpendicular to the structures, but dot product is: "
998
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283 << dot << " and (180/pi)*acos(dot) = " << acDot;
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284 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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285 }
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286 }
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287 return segments.size() != 0;
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288 }
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289 }
1019
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290
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291 #endif
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292 // BGO_ENABLE_DICOMSTRUCTURESETLOADER2
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293