Mercurial > hg > orthanc-stone

annotate OrthancStone/Sources/Toolbox/SlicesSorter.cpp @ 1624:59f95b9ea858

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fix build
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 06 Nov 2020 17:30:36 +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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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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21
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22
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23 #include "SlicesSorter.h"
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24
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25 #include "GeometryToolbox.h"
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26
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27 #include <Logging.h>
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28 #include <OrthancException.h>
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30 namespace OrthancStone
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31 {
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32 class SlicesSorter::SliceWithDepth : public boost::noncopyable
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33 {
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34 private:
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35 CoordinateSystem3D geometry_;
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36 double depth_;
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37
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38 std::unique_ptr<Orthanc::IDynamicObject> payload_;
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39
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40 public:
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41 SliceWithDepth(const CoordinateSystem3D& geometry,
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42 Orthanc::IDynamicObject* payload) :
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43 geometry_(geometry),
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44 depth_(0),
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45 payload_(payload)
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46 {
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47 }
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48
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49 void SetNormal(const Vector& normal)
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50 {
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51 depth_ = boost::numeric::ublas::inner_prod(geometry_.GetOrigin(), normal);
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52 }
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53
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54 double GetDepth() const
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55 {
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56 return depth_;
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57 }
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58
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59 const CoordinateSystem3D& GetGeometry() const
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60 {
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61 return geometry_;
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62 }
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64 bool HasPayload() const
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65 {
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66 return (payload_.get() != NULL);
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67 }
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68
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69 const Orthanc::IDynamicObject& GetPayload() const
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70 {
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71 if (HasPayload())
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72 {
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73 return *payload_;
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74 }
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75 else
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76 {
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77 LOG(ERROR) << "SlicesSorter::SliceWithDepth::GetPayload(): (!HasPayload())";
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78 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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79 }
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80 }
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81 };
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82
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83
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84 struct SlicesSorter::Comparator
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85 {
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86 bool operator() (const SliceWithDepth* const& a,
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87 const SliceWithDepth* const& b) const
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88 {
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89 return a->GetDepth() < b->GetDepth();
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90 }
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91 };
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92
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93
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94 SlicesSorter::~SlicesSorter()
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95 {
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96 for (size_t i = 0; i < slices_.size(); i++)
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97 {
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98 assert(slices_[i] != NULL);
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99 delete slices_[i];
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100 }
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101 }
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102
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103
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104 void SlicesSorter::AddSlice(const CoordinateSystem3D& slice,
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105 Orthanc::IDynamicObject* payload)
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106 {
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107 slices_.push_back(new SliceWithDepth(slice, payload));
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108 }
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109
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110
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111 const SlicesSorter::SliceWithDepth& SlicesSorter::GetSlice(size_t i) const
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112 {
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113 if (i >= slices_.size())
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114 {
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115 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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116 }
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117 else
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118 {
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119 assert(slices_[i] != NULL);
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120 return *slices_[i];
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121 }
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122 }
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123
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124
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125 const CoordinateSystem3D& SlicesSorter::GetSliceGeometry(size_t i) const
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126 {
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127 return GetSlice(i).GetGeometry();
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128 }
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129
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130
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131 bool SlicesSorter::HasSlicePayload(size_t i) const
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132 {
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133 return GetSlice(i).HasPayload();
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134 }
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137 const Orthanc::IDynamicObject& SlicesSorter::GetSlicePayload(size_t i) const
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138 {
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139 return GetSlice(i).GetPayload();
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140 }
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141
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142
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143 void SlicesSorter::SetNormal(const Vector& normal)
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144 {
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145 for (size_t i = 0; i < slices_.size(); i++)
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146 {
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147 slices_[i]->SetNormal(normal);
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148 }
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149
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150 hasNormal_ = true;
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151 }
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152
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153
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154 void SlicesSorter::SortInternal()
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155 {
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156 if (!hasNormal_)
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157 {
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158 LOG(ERROR) << "SlicesSorter::SortInternal(): (!hasNormal_)";
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159 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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160 }
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161
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162 Comparator comparator;
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163 std::sort(slices_.begin(), slices_.end(), comparator);
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164 }
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165
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166
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167 void SlicesSorter::FilterNormal(const Vector& normal)
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168 {
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169 size_t pos = 0;
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170
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171 for (size_t i = 0; i < slices_.size(); i++)
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172 {
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173 if (GeometryToolbox::IsParallel(normal, slices_[i]->GetGeometry().GetNormal()))
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174 {
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175 // This slice is compatible with the selected normal
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176 slices_[pos] = slices_[i];
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177 pos += 1;
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178 }
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179 else
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180 {
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181 delete slices_[i];
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182 slices_[i] = NULL;
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183 }
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184 }
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185
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186 slices_.resize(pos);
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187 }
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188
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189
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190 bool SlicesSorter::SelectNormal(Vector& normal) const
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191 {
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192 std::vector<Vector> normalCandidates;
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193 std::vector<unsigned int> normalCount;
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194
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195 bool found = false;
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196
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197 for (size_t i = 0; !found && i < GetSlicesCount(); i++)
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198 {
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199 const Vector& normal = GetSlice(i).GetGeometry().GetNormal();
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200
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201 bool add = true;
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202 for (size_t j = 0; add && j < normalCandidates.size(); j++) // (*)
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203 {
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204 if (GeometryToolbox::IsParallel(normal, normalCandidates[j]))
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205 {
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206 normalCount[j] += 1;
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207 add = false;
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208 }
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209 }
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210
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211 if (add)
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212 {
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213 if (normalCount.size() > 2)
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214 {
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215 // To get linear-time complexity in (*). This heuristics
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216 // allows the series to have one single frame that is
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217 // not parallel to the others (such a frame could be a
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218 // generated preview)
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219 found = false;
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220 }
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221 else
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222 {
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223 normalCandidates.push_back(normal);
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224 normalCount.push_back(1);
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225 }
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226 }
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227 }
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228
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229 for (size_t i = 0; !found && i < normalCandidates.size(); i++)
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230 {
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231 unsigned int count = normalCount[i];
647
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232 if (count == GetSlicesCount() ||
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233 count + 1 == GetSlicesCount())
73
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234 {
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235 normal = normalCandidates[i];
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236 found = true;
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237 }
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238 }
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239
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240 return found;
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241 }
77
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242
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243
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244 bool SlicesSorter::Sort()
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245 {
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246 if (GetSlicesCount() > 0)
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247 {
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248 Vector normal;
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249 if (SelectNormal(normal))
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250 {
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251 FilterNormal(normal);
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252 SetNormal(normal);
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253 SortInternal();
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254 return true;
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255 }
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256 }
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257
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258 return false;
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259 }
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260
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261
647
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diff changeset
262 bool SlicesSorter::LookupClosestSlice(size_t& index,
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diff changeset
263 double& distance,
6af3099ed8da uncoupling OrthancStone::SlicesSorter from OrthancStone::Slice
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diff changeset
264 const CoordinateSystem3D& slice) const
77
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265 {
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266 // TODO Turn this linear-time lookup into a log-time lookup,
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267 // keeping track of whether the slices are sorted along the normal
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268
647
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diff changeset
269 bool found = false;
6af3099ed8da uncoupling OrthancStone::SlicesSorter from OrthancStone::Slice
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270
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diff changeset
271 distance = std::numeric_limits<double>::infinity();
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diff changeset
272
77
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273 for (size_t i = 0; i < slices_.size(); i++)
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274 {
647
6af3099ed8da uncoupling OrthancStone::SlicesSorter from OrthancStone::Slice
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diff changeset
275 assert(slices_[i] != NULL);
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diff changeset
276
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diff changeset
277 double tmp;
757
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diff changeset
278 if (CoordinateSystem3D::ComputeDistance(tmp, slices_[i]->GetGeometry(), slice))
77
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279 {
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diff changeset
280 if (!found ||
6af3099ed8da uncoupling OrthancStone::SlicesSorter from OrthancStone::Slice
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diff changeset
281 tmp < distance)
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282 {
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diff changeset
283 index = i;
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diff changeset
284 distance = tmp;
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diff changeset
285 found = true;
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diff changeset
286 }
77
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287 }
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288 }
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289
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6af3099ed8da uncoupling OrthancStone::SlicesSorter from OrthancStone::Slice
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diff changeset
290 return found;
77
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diff changeset
291 }
667
e9339f2b5de7 refactoring of VolumeImage
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292
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diff changeset
293
1156
34ee7204fde3 removing IGeometryProvider
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294 bool SlicesSorter::ComputeSpacingBetweenSlices(double& spacing /* out */) const
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295 {
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296 if (GetSlicesCount() <= 1)
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297 {
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298 // This is a volume that is empty or that contains one single
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299 // slice: Choose a dummy z-dimension for voxels
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300 spacing = 1.0;
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301 return true;
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302 }
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303
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304 const OrthancStone::CoordinateSystem3D& reference = GetSliceGeometry(0);
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305
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306 double referencePosition = reference.ProjectAlongNormal(reference.GetOrigin());
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307
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308 double p = reference.ProjectAlongNormal(GetSliceGeometry(1).GetOrigin());
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309 spacing = p - referencePosition;
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310
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311 if (spacing <= 0)
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312 {
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313 LOG(ERROR) << "SlicesSorter::ComputeSpacingBetweenSlices(): (spacing <= 0)";
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314 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls,
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315 "Please call the Sort() method before");
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316 }
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317
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318 for (size_t i = 1; i < GetSlicesCount(); i++)
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319 {
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320 OrthancStone::Vector q = reference.GetOrigin() + spacing * static_cast<double>(i) * reference.GetNormal();
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321 double d = boost::numeric::ublas::norm_2(q - GetSliceGeometry(i).GetOrigin());
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322
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323 if (!OrthancStone::LinearAlgebra::IsNear(d, 0, 0.001 /* tolerance expressed in mm */))
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324 {
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325 return false;
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326 }
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327 }
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328
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329 return true;
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330 }
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331
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332
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333 bool SlicesSorter::AreAllSlicesDistinct() const
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334 {
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335 if (GetSlicesCount() <= 1)
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336 {
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337 return true;
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338 }
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339 else
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340 {
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341 const OrthancStone::CoordinateSystem3D& reference = GetSliceGeometry(0);
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342 double previousPosition = reference.ProjectAlongNormal(GetSliceGeometry(0).GetOrigin());
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343
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344 for (size_t i = 1; i < GetSlicesCount(); i++)
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345 {
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346 double position = reference.ProjectAlongNormal(GetSliceGeometry(i).GetOrigin());
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347
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348 if (OrthancStone::LinearAlgebra::IsNear(position, previousPosition, 0.001 /* tolerance expressed in mm */))
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349 {
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350 return false;
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351 }
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352
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353 previousPosition = position;
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354 }
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355
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356 return true;
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357 }
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358 }
73
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359 }