Mercurial > hg > orthanc-stone
annotate OrthancStone/Sources/Toolbox/DicomStructureSet.cpp @ 1840:c01ed7a7c11f
improved CMakeLists.txt
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Wed, 23 Jun 2021 09:10:27 +0200 |
parents | 80e029f8ec91 |
children | 3889ae96d2e9 |
rev | line source |
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0 | 1 /** |
2 * Stone of Orthanc | |
3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
4 * Department, University Hospital of Liege, Belgium | |
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5 * Copyright (C) 2017-2021 Osimis S.A., Belgium |
0 | 6 * |
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 |
47 | 9 * as published by the Free Software Foundation, either version 3 of |
10 * the License, or (at your option) any later version. | |
0 | 11 * |
12 * This program is distributed in the hope that it will be useful, but | |
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/>. |
0 | 20 **/ |
21 | |
22 | |
23 #include "DicomStructureSet.h" | |
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24 #include "DicomStructureSetUtils.h" |
0 | 25 |
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26 #include "GeometryToolbox.h" |
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27 #include "GenericToolbox.h" |
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28 |
1504 | 29 #include "OrthancDatasets/DicomDatasetReader.h" |
0 | 30 |
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31 #include <Logging.h> |
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32 #include <OrthancException.h> |
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33 #include <Toolbox.h> |
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34 |
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35 #if defined(_MSC_VER) |
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36 # pragma warning(push) |
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37 # pragma warning(disable:4244) |
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38 #endif |
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39 |
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40 #if STONE_TIME_BLOCKING_OPS |
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41 # include <boost/date_time/posix_time/posix_time.hpp> |
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42 #endif |
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43 |
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44 #include <limits> |
0 | 45 #include <stdio.h> |
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46 #include <boost/geometry.hpp> |
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47 #include <boost/geometry/geometries/point_xy.hpp> |
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48 #include <boost/geometry/geometries/polygon.hpp> |
137 | 49 #include <boost/geometry/multi/geometries/multi_polygon.hpp> |
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50 |
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51 #if defined(_MSC_VER) |
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52 # pragma warning(pop) |
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53 #endif |
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54 |
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55 #if ORTHANC_ENABLE_DCMTK == 1 |
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56 # include "ParsedDicomDataset.h" |
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57 #endif |
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58 |
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59 |
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60 typedef boost::geometry::model::d2::point_xy<double> BoostPoint; |
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61 typedef boost::geometry::model::polygon<BoostPoint> BoostPolygon; |
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62 typedef boost::geometry::model::multi_polygon<BoostPolygon> BoostMultiPolygon; |
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63 |
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64 |
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65 static void Union(BoostMultiPolygon& output, |
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66 std::vector<BoostPolygon>& input) |
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67 { |
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68 for (size_t i = 0; i < input.size(); i++) |
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69 { |
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70 boost::geometry::correct(input[i]); |
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71 } |
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72 |
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73 if (input.size() == 0) |
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74 { |
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75 output.clear(); |
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76 } |
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77 else if (input.size() == 1) |
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78 { |
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79 output.resize(1); |
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80 output[0] = input[0]; |
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81 } |
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82 else |
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83 { |
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84 boost::geometry::union_(input[0], input[1], output); |
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85 |
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86 for (size_t i = 0; i < input.size(); i++) |
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87 { |
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88 BoostMultiPolygon tmp; |
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89 boost::geometry::union_(output, input[i], tmp); |
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90 output = tmp; |
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91 } |
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92 } |
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93 } |
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94 |
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95 #if USE_BOOST_UNION_FOR_POLYGONS == 1 |
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96 |
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97 static BoostPolygon CreateRectangle(float x1, float y1, |
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98 float x2, float y2) |
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99 { |
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100 BoostPolygon r; |
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101 boost::geometry::append(r, BoostPoint(x1, y1)); |
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102 boost::geometry::append(r, BoostPoint(x1, y2)); |
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103 boost::geometry::append(r, BoostPoint(x2, y2)); |
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104 boost::geometry::append(r, BoostPoint(x2, y1)); |
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105 return r; |
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106 } |
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107 |
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108 #else |
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109 |
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110 namespace OrthancStone |
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111 { |
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112 static RtStructRectangleInSlab CreateRectangle(float x1, float y1, |
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113 float x2, float y2) |
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114 { |
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115 RtStructRectangleInSlab rect; |
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116 rect.xmin = std::min(x1, x2); |
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117 rect.xmax = std::max(x1, x2); |
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118 rect.ymin = std::min(y1, y2); |
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119 rect.ymax = std::max(y1, y2); |
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120 return rect; |
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121 } |
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122 |
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123 bool CompareRectanglesForProjection(const std::pair<RtStructRectangleInSlab,double>& r1, const std::pair<RtStructRectangleInSlab, double>& r2) |
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124 { |
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125 return r1.second < r2.second; |
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126 } |
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127 |
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128 bool CompareSlabsY(const RtStructRectanglesInSlab& r1, const RtStructRectanglesInSlab& r2) |
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129 { |
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130 if ((r1.size() == 0) || (r2.size() == 0)) |
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131 return false; |
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132 |
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133 return r1[0].ymax < r2[0].ymax; |
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134 } |
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135 } |
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136 |
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137 #endif |
0 | 138 |
139 namespace OrthancStone | |
140 { | |
1504 | 141 static const Orthanc::DicomTag DICOM_TAG_CONTOUR_GEOMETRIC_TYPE(0x3006, 0x0042); |
142 static const Orthanc::DicomTag DICOM_TAG_CONTOUR_IMAGE_SEQUENCE(0x3006, 0x0016); | |
143 static const Orthanc::DicomTag DICOM_TAG_CONTOUR_SEQUENCE(0x3006, 0x0040); | |
144 static const Orthanc::DicomTag DICOM_TAG_CONTOUR_DATA(0x3006, 0x0050); | |
145 static const Orthanc::DicomTag DICOM_TAG_NUMBER_OF_CONTOUR_POINTS(0x3006, 0x0046); | |
146 static const Orthanc::DicomTag DICOM_TAG_REFERENCED_SOP_INSTANCE_UID(0x0008, 0x1155); | |
147 static const Orthanc::DicomTag DICOM_TAG_ROI_CONTOUR_SEQUENCE(0x3006, 0x0039); | |
148 static const Orthanc::DicomTag DICOM_TAG_ROI_DISPLAY_COLOR(0x3006, 0x002a); | |
149 static const Orthanc::DicomTag DICOM_TAG_ROI_NAME(0x3006, 0x0026); | |
150 static const Orthanc::DicomTag DICOM_TAG_RT_ROI_INTERPRETED_TYPE(0x3006, 0x00a4); | |
151 static const Orthanc::DicomTag DICOM_TAG_RT_ROI_OBSERVATIONS_SEQUENCE(0x3006, 0x0080); | |
152 static const Orthanc::DicomTag DICOM_TAG_STRUCTURE_SET_ROI_SEQUENCE(0x3006, 0x0020); | |
0 | 153 |
154 | |
155 static uint8_t ConvertColor(double v) | |
156 { | |
157 if (v < 0) | |
158 { | |
159 return 0; | |
160 } | |
161 else if (v >= 255) | |
162 { | |
163 return 255; | |
164 } | |
165 else | |
166 { | |
167 return static_cast<uint8_t>(v); | |
168 } | |
169 } | |
170 | |
171 | |
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172 static bool FastParseVector(Vector& target, |
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173 const IDicomDataset& dataset, |
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174 const Orthanc::DicomPath& tag) |
0 | 175 { |
118
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176 std::string value; |
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177 return (dataset.GetStringValue(value, tag) && |
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178 GenericToolbox::FastParseVector(target, value)); |
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179 } |
0 | 180 |
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181 void DicomStructureSet::Polygon::CheckPointIsOnSlice(const Vector& v) const |
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182 { |
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183 if (hasSlice_) |
0 | 184 { |
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185 double magnitude = |
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186 GeometryToolbox::ProjectAlongNormal(v, geometry_.GetNormal()); |
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187 if(!LinearAlgebra::IsNear( |
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188 magnitude, |
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189 projectionAlongNormal_, |
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190 sliceThickness_ / 2.0 /* in mm */ )) |
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191 { |
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192 LOG(ERROR) << "This RT-STRUCT contains a point that is off the " |
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193 << "slice of its instance | " |
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194 << "magnitude = " << magnitude << " | " |
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195 << "projectionAlongNormal_ = " << projectionAlongNormal_ << " | " |
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196 << "tolerance (sliceThickness_ / 2.0) = " << (sliceThickness_ / 2.0); |
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197 |
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198 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); |
122
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199 } |
0 | 200 } |
122
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201 } |
0 | 202 |
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203 bool DicomStructureSet::Polygon::IsPointOnSliceIfAny(const Vector& v) const |
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204 { |
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205 if (hasSlice_) |
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206 { |
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207 double magnitude = |
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208 GeometryToolbox::ProjectAlongNormal(v, geometry_.GetNormal()); |
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209 bool onSlice = LinearAlgebra::IsNear( |
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210 magnitude, |
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211 projectionAlongNormal_, |
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212 sliceThickness_ / 2.0 /* in mm */); |
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213 if (!onSlice) |
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214 { |
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215 LOG(WARNING) << "This RT-STRUCT contains a point that is off the " |
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216 << "slice of its instance | " |
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217 << "magnitude = " << magnitude << " | " |
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218 << "projectionAlongNormal_ = " << projectionAlongNormal_ << " | " |
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219 << "tolerance (sliceThickness_ / 2.0) = " << (sliceThickness_ / 2.0); |
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220 } |
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221 return onSlice; |
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222 } |
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223 else |
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224 { |
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225 return true; |
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226 } |
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227 } |
0 | 228 |
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229 void DicomStructureSet::Polygon::AddPoint(const Vector& v) |
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230 { |
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231 #if 1 |
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232 // BGO 2019-09-03 |
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233 if (IsPointOnSliceIfAny(v)) |
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234 { |
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235 points_.push_back(v); |
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236 } |
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237 #else |
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238 CheckPoint(v); |
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239 points_.push_back(v); |
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240 #endif |
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241 } |
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242 |
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243 |
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244 bool DicomStructureSet::Polygon::UpdateReferencedSlice(const ReferencedSlices& slices) |
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245 { |
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246 if (hasSlice_) |
0 | 247 { |
122
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248 return true; |
32 | 249 } |
250 else | |
251 { | |
122
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252 ReferencedSlices::const_iterator it = slices.find(sopInstanceUid_); |
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253 |
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254 if (it == slices.end()) |
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255 { |
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256 return false; |
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257 } |
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258 else |
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259 { |
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260 const CoordinateSystem3D& geometry = it->second.geometry_; |
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261 |
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262 hasSlice_ = true; |
131 | 263 geometry_ = geometry; |
264 projectionAlongNormal_ = GeometryToolbox::ProjectAlongNormal(geometry.GetOrigin(), geometry.GetNormal()); | |
122
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265 sliceThickness_ = it->second.thickness_; |
0 | 266 |
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267 extent_.Clear(); |
131 | 268 |
1571 | 269 for (Points::const_iterator it2 = points_.begin(); it2 != points_.end(); ++it2) |
122
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270 { |
1571 | 271 if (IsPointOnSliceIfAny(*it2)) |
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272 { |
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273 double x, y; |
1571 | 274 geometry.ProjectPoint2(x, y, *it2); |
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275 extent_.AddPoint(x, y); |
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276 } |
122
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277 } |
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278 return true; |
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279 } |
0 | 280 } |
281 } | |
282 | |
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283 bool DicomStructureSet::Polygon::IsOnSlice(const CoordinateSystem3D& slice) const |
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284 { |
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285 bool isOpposite = false; |
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286 |
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287 if (points_.empty() || |
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288 !hasSlice_ || |
131 | 289 !GeometryToolbox::IsParallelOrOpposite(isOpposite, slice.GetNormal(), geometry_.GetNormal())) |
122
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290 { |
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291 return false; |
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292 } |
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293 |
131 | 294 double d = GeometryToolbox::ProjectAlongNormal(slice.GetOrigin(), geometry_.GetNormal()); |
122
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295 |
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296 return (LinearAlgebra::IsNear(d, projectionAlongNormal_, |
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297 sliceThickness_ / 2.0)); |
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298 } |
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299 |
131 | 300 bool DicomStructureSet::Polygon::Project(double& x1, |
301 double& y1, | |
302 double& x2, | |
303 double& y2, | |
304 const CoordinateSystem3D& slice) const | |
305 { | |
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306 // TODO: optimize this method using a sweep-line algorithm for polygons |
132
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307 |
131 | 308 if (!hasSlice_ || |
132
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309 points_.size() <= 1) |
131 | 310 { |
311 return false; | |
312 } | |
313 | |
314 double x, y; | |
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315 geometry_.ProjectPoint2(x, y, slice.GetOrigin()); |
131 | 316 |
317 bool isOpposite; | |
318 if (GeometryToolbox::IsParallelOrOpposite | |
319 (isOpposite, slice.GetNormal(), geometry_.GetAxisY())) | |
320 { | |
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321 // plane is constant Y |
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322 |
132
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323 if (y < extent_.GetY1() || |
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324 y > extent_.GetY2()) |
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325 { |
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326 // The polygon does not intersect the input slice |
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327 return false; |
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328 } |
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329 |
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330 bool isFirst = true; |
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331 double xmin = std::numeric_limits<double>::infinity(); |
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332 double xmax = -std::numeric_limits<double>::infinity(); |
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333 |
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334 double prevX, prevY; |
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335 geometry_.ProjectPoint2(prevX, prevY, points_[points_.size() - 1]); |
132
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336 |
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337 for (size_t i = 0; i < points_.size(); i++) |
131 | 338 { |
132
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339 // Reference: ../../Resources/Computations/IntersectSegmentAndHorizontalLine.py |
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340 double curX, curY; |
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341 geometry_.ProjectPoint2(curX, curY, points_[i]); |
132
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342 |
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343 // if prev* and cur* are on opposite sides of y, this means that the |
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344 // segment intersects the plane. |
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345 if ((prevY <= y && curY >= y) || |
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346 (prevY >= y && curY <= y)) |
132
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347 { |
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348 double p = (curX * prevY - curY * prevX + y * (prevX - curX)) / (prevY - curY); |
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349 xmin = std::min(xmin, p); |
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350 xmax = std::max(xmax, p); |
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351 isFirst = false; |
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352 |
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353 // xmin and xmax represent the extent of the rectangle along the |
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354 // intersection between the plane and the polygon geometry |
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355 |
132
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356 } |
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357 |
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358 prevX = curX; |
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359 prevY = curY; |
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360 } |
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361 |
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362 // if NO segment intersects the plane |
132
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363 if (isFirst) |
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364 { |
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365 return false; |
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366 } |
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367 else |
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368 { |
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369 // y is the plane y coord in the polygon geometry |
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370 // xmin and xmax are ALSO expressed in the polygon geometry |
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371 |
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372 // let's convert them to 3D world geometry... |
132
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373 Vector p1 = (geometry_.MapSliceToWorldCoordinates(xmin, y) + |
131 | 374 sliceThickness_ / 2.0 * geometry_.GetNormal()); |
132
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375 Vector p2 = (geometry_.MapSliceToWorldCoordinates(xmax, y) - |
131 | 376 sliceThickness_ / 2.0 * geometry_.GetNormal()); |
132
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377 |
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378 // then to the cutting plane geometry... |
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379 slice.ProjectPoint2(x1, y1, p1); |
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380 slice.ProjectPoint2(x2, y2, p2); |
131 | 381 return true; |
382 } | |
383 } | |
384 else if (GeometryToolbox::IsParallelOrOpposite | |
385 (isOpposite, slice.GetNormal(), geometry_.GetAxisX())) | |
386 { | |
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387 // plane is constant X => Sagittal view (remember that in the |
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388 // sagittal projection, the normal must be swapped) |
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389 |
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390 |
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391 /* |
1178
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392 Please read the comments in the section above, by taking into account |
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393 the fact that, in this case, the plane has a constant X, not Y (in |
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394 polygon geometry_ coordinates) |
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395 */ |
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396 |
132
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397 if (x < extent_.GetX1() || |
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398 x > extent_.GetX2()) |
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399 { |
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400 return false; |
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401 } |
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402 |
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403 bool isFirst = true; |
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404 double ymin = std::numeric_limits<double>::infinity(); |
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405 double ymax = -std::numeric_limits<double>::infinity(); |
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406 |
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407 double prevX, prevY; |
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408 geometry_.ProjectPoint2(prevX, prevY, points_[points_.size() - 1]); |
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409 |
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410 for (size_t i = 0; i < points_.size(); i++) |
131 | 411 { |
132
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412 // Reference: ../../Resources/Computations/IntersectSegmentAndVerticalLine.py |
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413 double curX, curY; |
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414 geometry_.ProjectPoint2(curX, curY, points_[i]); |
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415 |
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416 if ((prevX <= x && curX >= x) || |
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417 (prevX >= x && curX <= x)) |
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418 { |
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419 double p = (curX * prevY - curY * prevX + x * (curY - prevY)) / (curX - prevX); |
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420 ymin = std::min(ymin, p); |
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421 ymax = std::max(ymax, p); |
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422 isFirst = false; |
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423 } |
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424 |
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425 prevX = curX; |
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426 prevY = curY; |
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427 } |
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428 |
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429 if (isFirst) |
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430 { |
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431 return false; |
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432 } |
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433 else |
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434 { |
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435 Vector p1 = (geometry_.MapSliceToWorldCoordinates(x, ymin) + |
131 | 436 sliceThickness_ / 2.0 * geometry_.GetNormal()); |
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437 Vector p2 = (geometry_.MapSliceToWorldCoordinates(x, ymax) - |
131 | 438 sliceThickness_ / 2.0 * geometry_.GetNormal()); |
439 | |
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440 slice.ProjectPoint2(x1, y1, p1); |
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441 slice.ProjectPoint2(x2, y2, p2); |
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442 |
131 | 443 return true; |
444 } | |
445 } | |
446 else | |
447 { | |
448 // Should not happen | |
449 return false; | |
450 } | |
451 } | |
452 | |
453 | |
0 | 454 const DicomStructureSet::Structure& DicomStructureSet::GetStructure(size_t index) const |
455 { | |
456 if (index >= structures_.size()) | |
457 { | |
125 | 458 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); |
0 | 459 } |
460 | |
461 return structures_[index]; | |
462 } | |
463 | |
464 | |
125 | 465 DicomStructureSet::Structure& DicomStructureSet::GetStructure(size_t index) |
0 | 466 { |
125 | 467 if (index >= structures_.size()) |
468 { | |
469 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
0 | 470 } |
471 | |
472 return structures_[index]; | |
473 } | |
474 | |
1504 | 475 void DicomStructureSet::Setup(const IDicomDataset& tags) |
0 | 476 { |
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477 #if STONE_TIME_BLOCKING_OPS |
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478 boost::posix_time::ptime timerStart = boost::posix_time::microsec_clock::universal_time(); |
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479 #endif |
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480 |
1504 | 481 DicomDatasetReader reader(tags); |
32 | 482 |
483 size_t count, tmp; | |
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484 if (!tags.GetSequenceSize(count, Orthanc::DicomPath(DICOM_TAG_RT_ROI_OBSERVATIONS_SEQUENCE)) || |
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485 !tags.GetSequenceSize(tmp, Orthanc::DicomPath(DICOM_TAG_ROI_CONTOUR_SEQUENCE)) || |
32 | 486 tmp != count || |
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487 !tags.GetSequenceSize(tmp, Orthanc::DicomPath(DICOM_TAG_STRUCTURE_SET_ROI_SEQUENCE)) || |
32 | 488 tmp != count) |
0 | 489 { |
490 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
491 } | |
492 | |
32 | 493 structures_.resize(count); |
494 for (size_t i = 0; i < count; i++) | |
495 { | |
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496 structures_[i].interpretation_ = reader.GetStringValue |
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497 (Orthanc::DicomPath(DICOM_TAG_RT_ROI_OBSERVATIONS_SEQUENCE, i, |
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498 DICOM_TAG_RT_ROI_INTERPRETED_TYPE), |
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499 "No interpretation"); |
0 | 500 |
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501 structures_[i].name_ = reader.GetStringValue |
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502 (Orthanc::DicomPath(DICOM_TAG_STRUCTURE_SET_ROI_SEQUENCE, i, |
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503 DICOM_TAG_ROI_NAME), |
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504 "No name"); |
0 | 505 |
506 Vector color; | |
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507 if (FastParseVector(color, tags, Orthanc::DicomPath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
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508 DICOM_TAG_ROI_DISPLAY_COLOR)) && |
32 | 509 color.size() == 3) |
0 | 510 { |
32 | 511 structures_[i].red_ = ConvertColor(color[0]); |
512 structures_[i].green_ = ConvertColor(color[1]); | |
513 structures_[i].blue_ = ConvertColor(color[2]); | |
514 } | |
515 else | |
516 { | |
517 structures_[i].red_ = 255; | |
518 structures_[i].green_ = 0; | |
519 structures_[i].blue_ = 0; | |
0 | 520 } |
521 | |
32 | 522 size_t countSlices; |
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523 if (!tags.GetSequenceSize(countSlices, Orthanc::DicomPath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
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524 DICOM_TAG_CONTOUR_SEQUENCE))) |
32 | 525 { |
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526 countSlices = 0; |
32 | 527 } |
0 | 528 |
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529 LOG(INFO) << "New RT structure: \"" << structures_[i].name_ |
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530 << "\" with interpretation \"" << structures_[i].interpretation_ |
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531 << "\" containing " << countSlices << " slices (color: " |
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532 << static_cast<int>(structures_[i].red_) << "," |
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533 << static_cast<int>(structures_[i].green_) << "," |
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534 << static_cast<int>(structures_[i].blue_) << ")"; |
0 | 535 |
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536 /** |
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537 * These temporary variables avoid allocating many vectors in |
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538 * the loop below (indeed, "Orthanc::DicomPath" handles a |
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539 * "std::vector<PrefixItem>") |
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540 **/ |
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541 Orthanc::DicomPath countPointsPath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
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542 DICOM_TAG_CONTOUR_SEQUENCE, 0, |
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543 DICOM_TAG_NUMBER_OF_CONTOUR_POINTS); |
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544 |
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545 Orthanc::DicomPath geometricTypePath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
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546 DICOM_TAG_CONTOUR_SEQUENCE, 0, |
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547 DICOM_TAG_CONTOUR_GEOMETRIC_TYPE); |
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548 |
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549 Orthanc::DicomPath imageSequencePath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
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550 DICOM_TAG_CONTOUR_SEQUENCE, 0, |
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551 DICOM_TAG_CONTOUR_IMAGE_SEQUENCE); |
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552 |
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553 // (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155) |
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replaced OrthancStone::DicomPath by new class Orthanc::DicomPath from orthanc framework
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554 Orthanc::DicomPath referencedInstancePath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
126522623e20
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555 DICOM_TAG_CONTOUR_SEQUENCE, 0, |
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556 DICOM_TAG_CONTOUR_IMAGE_SEQUENCE, 0, |
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557 DICOM_TAG_REFERENCED_SOP_INSTANCE_UID); |
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558 |
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559 Orthanc::DicomPath contourDataPath(DICOM_TAG_ROI_CONTOUR_SEQUENCE, i, |
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560 DICOM_TAG_CONTOUR_SEQUENCE, 0, |
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561 DICOM_TAG_CONTOUR_DATA); |
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562 |
32 | 563 for (size_t j = 0; j < countSlices; j++) |
0 | 564 { |
32 | 565 unsigned int countPoints; |
0 | 566 |
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567 countPointsPath.SetPrefixIndex(1, j); |
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568 if (!reader.GetUnsignedIntegerValue(countPoints, countPointsPath)) |
32 | 569 { |
570 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
571 } | |
572 | |
121
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573 //LOG(INFO) << "Parsing slice containing " << countPoints << " vertices"; |
0 | 574 |
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575 geometricTypePath.SetPrefixIndex(1, j); |
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576 std::string type = reader.GetMandatoryStringValue(geometricTypePath); |
32 | 577 if (type != "CLOSED_PLANAR") |
0 | 578 { |
173
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579 LOG(WARNING) << "Ignoring contour with geometry type: " << type; |
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580 continue; |
0 | 581 } |
582 | |
122
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583 size_t size; |
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584 |
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585 imageSequencePath.SetPrefixIndex(1, j); |
981
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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586 if (!tags.GetSequenceSize(size, imageSequencePath) || size != 1) |
122
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587 { |
981
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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changeset
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588 LOG(ERROR) << "The ContourImageSequence sequence (tag 3006,0016) must be present and contain one entry."; |
0 | 589 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); |
590 } | |
591 | |
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592 referencedInstancePath.SetPrefixIndex(1, j); |
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593 std::string sopInstanceUid = reader.GetMandatoryStringValue(referencedInstancePath); |
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594 |
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595 contourDataPath.SetPrefixIndex(1, j); |
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596 std::string slicesData = reader.GetMandatoryStringValue(contourDataPath); |
0 | 597 |
598 Vector points; | |
1751
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599 |
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600 if (!GenericToolbox::FastParseVector(points, slicesData) || |
32 | 601 points.size() != 3 * countPoints) |
0 | 602 { |
603 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
604 } | |
605 | |
981
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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606 // seen in real world |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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changeset
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607 if(Orthanc::Toolbox::StripSpaces(sopInstanceUid) == "") |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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608 { |
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Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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diff
changeset
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609 LOG(ERROR) << "WARNING. The following Dicom tag (Referenced SOP Instance UID) contains an empty value : // (3006,0039)[" << i << "] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)"; |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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diff
changeset
|
610 } |
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Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
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parents:
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diff
changeset
|
611 |
122
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refactoring DicomStructureSet
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612 Polygon polygon(sopInstanceUid); |
132
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fix rtstruct projections
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613 polygon.Reserve(countPoints); |
0 | 614 |
32 | 615 for (size_t k = 0; k < countPoints; k++) |
0 | 616 { |
617 Vector v(3); | |
618 v[0] = points[3 * k]; | |
619 v[1] = points[3 * k + 1]; | |
620 v[2] = points[3 * k + 2]; | |
122
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621 polygon.AddPoint(v); |
0 | 622 } |
623 | |
624 structures_[i].polygons_.push_back(polygon); | |
625 } | |
626 } | |
1751
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627 #if STONE_TIME_BLOCKING_OPS |
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628 boost::posix_time::ptime timerEnd = boost::posix_time::microsec_clock::universal_time(); |
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changeset
|
629 boost::posix_time::time_duration duration = timerEnd - timerStart; |
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|
630 int64_t durationMs = duration.total_milliseconds(); |
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631 LOG(WARNING) << "DicomStructureSet::Setup took " << durationMs << " ms"; |
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632 #endif |
0 | 633 } |
634 | |
635 | |
1180
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ParsedDicomDataset to speed up loading RT-STRUCT from parsed DICOM files
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|
636 #if ORTHANC_ENABLE_DCMTK == 1 |
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|
637 DicomStructureSet::DicomStructureSet(Orthanc::ParsedDicomFile& instance) |
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ParsedDicomDataset to speed up loading RT-STRUCT from parsed DICOM files
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638 { |
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ParsedDicomDataset to speed up loading RT-STRUCT from parsed DICOM files
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diff
changeset
|
639 ParsedDicomDataset dataset(instance); |
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ParsedDicomDataset to speed up loading RT-STRUCT from parsed DICOM files
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640 Setup(dataset); |
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ParsedDicomDataset to speed up loading RT-STRUCT from parsed DICOM files
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641 } |
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ParsedDicomDataset to speed up loading RT-STRUCT from parsed DICOM files
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642 #endif |
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|
643 |
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diff
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|
644 |
0 | 645 Vector DicomStructureSet::GetStructureCenter(size_t index) const |
646 { | |
647 const Structure& structure = GetStructure(index); | |
648 | |
649 Vector center; | |
158
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LinearAlgebra toolbox
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|
650 LinearAlgebra::AssignVector(center, 0, 0, 0); |
0 | 651 if (structure.polygons_.empty()) |
652 { | |
653 return center; | |
654 } | |
655 | |
656 double n = static_cast<double>(structure.polygons_.size()); | |
657 | |
658 for (Polygons::const_iterator polygon = structure.polygons_.begin(); | |
659 polygon != structure.polygons_.end(); ++polygon) | |
660 { | |
122
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661 if (!polygon->GetPoints().empty()) |
0 | 662 { |
122
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|
663 center += polygon->GetPoints().front() / n; |
0 | 664 } |
665 } | |
666 | |
667 return center; | |
668 } | |
669 | |
670 | |
671 const std::string& DicomStructureSet::GetStructureName(size_t index) const | |
672 { | |
673 return GetStructure(index).name_; | |
674 } | |
675 | |
676 | |
677 const std::string& DicomStructureSet::GetStructureInterpretation(size_t index) const | |
678 { | |
679 return GetStructure(index).interpretation_; | |
680 } | |
681 | |
682 | |
804
61ba4b504e9a
PolylineSceneLayer now has one color per chain
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diff
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|
683 Color DicomStructureSet::GetStructureColor(size_t index) const |
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PolylineSceneLayer now has one color per chain
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|
684 { |
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|
685 const Structure& s = GetStructure(index); |
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PolylineSceneLayer now has one color per chain
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686 return Color(s.red_, s.green_, s.blue_); |
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|
687 } |
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PolylineSceneLayer now has one color per chain
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diff
changeset
|
688 |
61ba4b504e9a
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diff
changeset
|
689 |
0 | 690 void DicomStructureSet::GetStructureColor(uint8_t& red, |
691 uint8_t& green, | |
692 uint8_t& blue, | |
693 size_t index) const | |
694 { | |
695 const Structure& s = GetStructure(index); | |
696 red = s.red_; | |
697 green = s.green_; | |
698 blue = s.blue_; | |
699 } | |
700 | |
701 | |
122
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refactoring DicomStructureSet
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702 void DicomStructureSet::GetReferencedInstances(std::set<std::string>& instances) |
0 | 703 { |
704 for (Structures::const_iterator structure = structures_.begin(); | |
705 structure != structures_.end(); ++structure) | |
706 { | |
707 for (Polygons::const_iterator polygon = structure->polygons_.begin(); | |
708 polygon != structure->polygons_.end(); ++polygon) | |
709 { | |
122
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710 instances.insert(polygon->GetSopInstanceUid()); |
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711 } |
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|
712 } |
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changeset
|
713 } |
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|
714 |
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715 |
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716 void DicomStructureSet::AddReferencedSlice(const std::string& sopInstanceUid, |
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|
717 const std::string& seriesInstanceUid, |
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718 const CoordinateSystem3D& geometry, |
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719 double thickness) |
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720 { |
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721 if (referencedSlices_.find(sopInstanceUid) != referencedSlices_.end()) |
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722 { |
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changeset
|
723 // This geometry is already known |
956
a7351ad54960
Made IsContextLost automatically set the flag by checking with the emscripten
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diff
changeset
|
724 LOG(ERROR) << "DicomStructureSet::AddReferencedSlice(): (referencedSlices_.find(sopInstanceUid) != referencedSlices_.end()). sopInstanceUid = " << sopInstanceUid; |
981
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Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
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diff
changeset
|
725 |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
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diff
changeset
|
726 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
122
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|
727 } |
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refactoring DicomStructureSet
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|
728 else |
e3433dabfb8d
refactoring DicomStructureSet
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diff
changeset
|
729 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
730 if (thickness < 0) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
731 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
732 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
733 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
734 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
735 if (!referencedSlices_.empty()) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
736 { |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
737 const ReferencedSlice& reference = referencedSlices_.begin()->second; |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
738 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
739 if (reference.seriesInstanceUid_ != seriesInstanceUid) |
0 | 740 { |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
741 LOG(ERROR) << "This RT-STRUCT refers to several different series"; |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
742 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
743 } |
0 | 744 |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
745 if (!GeometryToolbox::IsParallel(reference.geometry_.GetNormal(), geometry.GetNormal())) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
746 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
747 LOG(ERROR) << "The slices in this RT-STRUCT are not parallel"; |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
748 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
749 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
750 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
751 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
752 referencedSlices_[sopInstanceUid] = ReferencedSlice(seriesInstanceUid, geometry, thickness); |
0 | 753 |
131 | 754 for (Structures::iterator structure = structures_.begin(); |
755 structure != structures_.end(); ++structure) | |
756 { | |
757 for (Polygons::iterator polygon = structure->polygons_.begin(); | |
758 polygon != structure->polygons_.end(); ++polygon) | |
759 { | |
760 polygon->UpdateReferencedSlice(referencedSlices_); | |
761 } | |
762 } | |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
763 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
764 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
765 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
766 |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
767 void DicomStructureSet::AddReferencedSlice(const Orthanc::DicomMap& dataset) |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
768 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
769 CoordinateSystem3D slice(dataset); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
770 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
771 double thickness = 1; // 1 mm by default |
0 | 772 |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
773 std::string s; |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
774 Vector v; |
994
1f74bc3459ba
fix build due to rename in Orthanc::DicomMap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
988
diff
changeset
|
775 if (dataset.LookupStringValue(s, Orthanc::DICOM_TAG_SLICE_THICKNESS, false) && |
158
a053ca7fa5c6
LinearAlgebra toolbox
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
137
diff
changeset
|
776 LinearAlgebra::ParseVector(v, s) && |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
777 v.size() > 0) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
778 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
779 thickness = v[0]; |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
780 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
781 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
782 std::string instance, series; |
994
1f74bc3459ba
fix build due to rename in Orthanc::DicomMap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
988
diff
changeset
|
783 if (dataset.LookupStringValue(instance, Orthanc::DICOM_TAG_SOP_INSTANCE_UID, false) && |
1f74bc3459ba
fix build due to rename in Orthanc::DicomMap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
988
diff
changeset
|
784 dataset.LookupStringValue(series, Orthanc::DICOM_TAG_SERIES_INSTANCE_UID, false)) |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
785 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
786 AddReferencedSlice(instance, series, slice, thickness); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
787 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
788 else |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
789 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
790 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
791 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
792 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
793 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
794 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
795 void DicomStructureSet::CheckReferencedSlices() |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
796 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
797 for (Structures::iterator structure = structures_.begin(); |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
798 structure != structures_.end(); ++structure) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
799 { |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
800 for (Polygons::iterator polygon = structure->polygons_.begin(); |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
801 polygon != structure->polygons_.end(); ++polygon) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
802 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
803 if (!polygon->UpdateReferencedSlice(referencedSlices_)) |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
804 { |
981
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
805 std::string sopInstanceUid = polygon->GetSopInstanceUid(); |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
806 if (Orthanc::Toolbox::StripSpaces(sopInstanceUid) == "") |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
807 { |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
808 LOG(ERROR) << "DicomStructureSet::CheckReferencedSlices(): " |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
809 << " missing information about referenced instance " |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
810 << "(sopInstanceUid is empty!)"; |
981
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
811 } |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
812 else |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
813 { |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
814 LOG(ERROR) << "DicomStructureSet::CheckReferencedSlices(): " |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
815 << " missing information about referenced instance " |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
816 << "(sopInstanceUid = " << sopInstanceUid << ")"; |
981
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
817 } |
c20dbaab360c
Ability to cope with empty "Referenced SOP Instance UID" (dicom path (3006,0039)[i] / (0x3006, 0x0040)[0] / (0x3006, 0x0016)[0] / (0x0008, 0x1155)) + better logs + code formating
Benjamin Golinvaux <bgo@osimis.io>
parents:
959
diff
changeset
|
818 //throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
0 | 819 } |
820 } | |
821 } | |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
822 } |
0 | 823 |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
824 |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
825 Vector DicomStructureSet::GetNormal() const |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
826 { |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
827 if (referencedSlices_.empty()) |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
828 { |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
829 Vector v; |
158
a053ca7fa5c6
LinearAlgebra toolbox
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
137
diff
changeset
|
830 LinearAlgebra::AssignVector(v, 0, 0, 1); |
122
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
831 return v; |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
832 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
833 else |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
834 { |
e3433dabfb8d
refactoring DicomStructureSet
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parents:
121
diff
changeset
|
835 return referencedSlices_.begin()->second.geometry_.GetNormal(); |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
836 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
837 } |
e3433dabfb8d
refactoring DicomStructureSet
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
121
diff
changeset
|
838 |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
839 bool DicomStructureSet::ProjectStructure( |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
840 #if USE_BOOST_UNION_FOR_POLYGONS == 1 |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
841 std::vector< std::vector<Point2D> >& polygons, |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
842 #else |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
843 std::vector< std::pair<Point2D, Point2D> >& segments, |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
844 #endif |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
845 const Structure& structure, |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
846 const CoordinateSystem3D& sourceSlice) const |
125 | 847 { |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
848 const CoordinateSystem3D slice = CoordinateSystem3D::NormalizeCuttingPlane(sourceSlice); |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
849 |
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DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
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|
850 #if USE_BOOST_UNION_FOR_POLYGONS == 1 |
125 | 851 polygons.clear(); |
1000
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changed RTSTRUCT rendering from polygons to segments
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|
852 #else |
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|
853 segments.clear(); |
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changed RTSTRUCT rendering from polygons to segments
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|
854 #endif |
125 | 855 |
856 Vector normal = GetNormal(); | |
857 | |
858 bool isOpposite; | |
859 if (GeometryToolbox::IsParallelOrOpposite(isOpposite, normal, slice.GetNormal())) | |
860 { | |
861 // This is an axial projection | |
862 | |
794 | 863 for (Polygons::const_iterator polygon = structure.polygons_.begin(); |
125 | 864 polygon != structure.polygons_.end(); ++polygon) |
865 { | |
866 if (polygon->IsOnSlice(slice)) | |
867 { | |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
868 #if USE_BOOST_UNION_FOR_POLYGONS == 1 |
1000
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changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
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diff
changeset
|
869 polygons.push_back(std::vector<Point2D>()); |
125 | 870 |
871 for (Points::const_iterator p = polygon->GetPoints().begin(); | |
872 p != polygon->GetPoints().end(); ++p) | |
873 { | |
874 double x, y; | |
1013
53cc787bd7bc
- Added an optimized ProjectPoint2 to CoordinateSystem3D. It has *not* replaced
Benjamin Golinvaux <bgo@osimis.io>
parents:
1006
diff
changeset
|
875 slice.ProjectPoint2(x, y, *p); |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
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diff
changeset
|
876 polygons.back().push_back(Point2D(x, y)); |
125 | 877 } |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
878 #else |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
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diff
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|
879 // we need to add all the segments corresponding to this polygon |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
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994
diff
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|
880 const std::vector<Vector>& points3D = polygon->GetPoints(); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
881 if (points3D.size() >= 3) |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
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|
882 { |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
883 Point2D prev2D; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
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|
884 { |
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changed RTSTRUCT rendering from polygons to segments
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diff
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|
885 Vector prev = points3D[0]; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
886 double prevX, prevY; |
1013
53cc787bd7bc
- Added an optimized ProjectPoint2 to CoordinateSystem3D. It has *not* replaced
Benjamin Golinvaux <bgo@osimis.io>
parents:
1006
diff
changeset
|
887 slice.ProjectPoint2(prevX, prevY, prev); |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
888 prev2D = Point2D(prevX, prevY); |
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Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
889 } |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
890 |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
891 size_t pointCount = points3D.size(); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
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994
diff
changeset
|
892 for (size_t ipt = 1; ipt < pointCount; ++ipt) |
50e5acf5553b
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Benjamin Golinvaux <bgo@osimis.io>
parents:
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diff
changeset
|
893 { |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
894 Vector next = points3D[ipt]; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
895 double nextX, nextY; |
1013
53cc787bd7bc
- Added an optimized ProjectPoint2 to CoordinateSystem3D. It has *not* replaced
Benjamin Golinvaux <bgo@osimis.io>
parents:
1006
diff
changeset
|
896 slice.ProjectPoint2(nextX, nextY, next); |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
897 Point2D next2D(nextX, nextY); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
898 segments.push_back(std::pair<Point2D, Point2D>(prev2D, next2D)); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
899 prev2D = next2D; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
900 } |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
901 } |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
902 else |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
903 { |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
904 LOG(ERROR) << "Contour with less than 3 points!"; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
905 // !!! |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
906 } |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
907 #endif |
125 | 908 } |
909 } | |
910 | |
911 return true; | |
912 } | |
913 else if (GeometryToolbox::IsParallelOrOpposite(isOpposite, normal, slice.GetAxisX()) || | |
914 GeometryToolbox::IsParallelOrOpposite(isOpposite, normal, slice.GetAxisY())) | |
915 { | |
132
35c2b85836ce
fix rtstruct projections
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
131
diff
changeset
|
916 #if 1 |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
917 // Sagittal or coronal projection |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
918 |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
919 #if USE_BOOST_UNION_FOR_POLYGONS == 1 |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
920 std::vector<BoostPolygon> projected; |
1162
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
921 |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
922 for (Polygons::const_iterator polygon = structure.polygons_.begin(); |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
923 polygon != structure.polygons_.end(); ++polygon) |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
924 { |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
925 double x1, y1, x2, y2; |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
926 |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
927 if (polygon->Project(x1, y1, x2, y2, slice)) |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
928 { |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
929 projected.push_back(CreateRectangle(x1, y1, x2, y2)); |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
930 } |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
931 } |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
932 #else |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
933 // this will contain the intersection of the polygon slab with |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
934 // the cutting plane, projected on the cutting plane coord system |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
935 // (that yields a rectangle) + the Z coordinate of the polygon |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
936 // (this is required to group polygons with the same Z later) |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
937 std::vector<std::pair<RtStructRectangleInSlab, double> > projected; |
1162
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
938 |
794 | 939 for (Polygons::const_iterator polygon = structure.polygons_.begin(); |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
940 polygon != structure.polygons_.end(); ++polygon) |
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
941 { |
131 | 942 double x1, y1, x2, y2; |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
943 |
131 | 944 if (polygon->Project(x1, y1, x2, y2, slice)) |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
945 { |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
946 double curZ = polygon->GetGeometryOrigin()[2]; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
947 |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
948 // x1,y1 and x2,y2 are in "slice" coordinates (the cutting plane |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
949 // geometry) |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
950 projected.push_back(std::make_pair(CreateRectangle( |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
951 static_cast<float>(x1), |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
952 static_cast<float>(y1), |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
953 static_cast<float>(x2), |
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
954 static_cast<float>(y2)),curZ)); |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
955 } |
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
956 } |
1162
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
957 #endif |
709aa65aca17
recovery of USE_BOOST_UNION_FOR_POLYGONS
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1013
diff
changeset
|
958 |
1178
3c7cdbf32e2a
DicomStructureSet::ProjectOntoLayer()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1170
diff
changeset
|
959 #if USE_BOOST_UNION_FOR_POLYGONS != 1 |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
960 // projected contains a set of rectangles specified by two opposite |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
961 // corners (x1,y1,x2,y2) |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
962 // we need to merge them |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
963 // each slab yields ONE polygon! |
126
c9e88e7935a4
rt-struct projection
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
125
diff
changeset
|
964 |
1000
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
965 // we need to sorted all the rectangles that originate from the same Z |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
966 // into lanes. To make sure they are grouped together in the array, we |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
967 // sort it. |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
968 std::sort(projected.begin(), projected.end(), CompareRectanglesForProjection); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
969 |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
970 std::vector<RtStructRectanglesInSlab> rectanglesForEachSlab; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
971 rectanglesForEachSlab.reserve(projected.size()); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
972 |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
973 double curZ = 0; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
974 for (size_t i = 0; i < projected.size(); ++i) |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
975 { |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
976 #if 0 |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
977 rectanglesForEachSlab.push_back(RtStructRectanglesInSlab()); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
978 #else |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
979 if (i == 0) |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
980 { |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
981 curZ = projected[i].second; |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
982 rectanglesForEachSlab.push_back(RtStructRectanglesInSlab()); |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
983 } |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
984 else |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
985 { |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
986 // this check is needed to prevent creating a new slab if |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
parents:
994
diff
changeset
|
987 // the new polygon is at the same Z coord than last one |
50e5acf5553b
changed RTSTRUCT rendering from polygons to segments
Benjamin Golinvaux <bgo@osimis.io>
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988 if (!LinearAlgebra::IsNear(curZ, projected[i].second)) |
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989 { |
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990 rectanglesForEachSlab.push_back(RtStructRectanglesInSlab()); |
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991 curZ = projected[i].second; |
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992 } |
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993 } |
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994 #endif |
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995 |
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996 rectanglesForEachSlab.back().push_back(projected[i].first); |
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997 |
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998 // as long as they have the same y, we should put them into the same lane |
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999 // BUT in Sebastien's code, there is only one polygon per lane. |
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1000 |
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1001 //std::cout << "rect: xmin = " << rect.xmin << " xmax = " << rect.xmax << " ymin = " << rect.ymin << " ymax = " << rect.ymax << std::endl; |
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1002 } |
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1003 |
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1004 // now we need to sort the slabs in increasing Y order (see ConvertListOfSlabsToSegments) |
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1005 std::sort(rectanglesForEachSlab.begin(), rectanglesForEachSlab.end(), CompareSlabsY); |
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1006 |
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1007 ConvertListOfSlabsToSegments(segments, rectanglesForEachSlab, projected.size()); |
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1008 #else |
126
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1009 BoostMultiPolygon merged; |
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1010 Union(merged, projected); |
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1011 |
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1012 polygons.resize(merged.size()); |
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1013 for (size_t i = 0; i < merged.size(); i++) |
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1014 { |
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1015 const std::vector<BoostPoint>& outer = merged[i].outer(); |
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1016 |
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1017 polygons[i].resize(outer.size()); |
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1018 for (size_t j = 0; j < outer.size(); j++) |
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1019 { |
1000
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1020 polygons[i][j] = Point2D(outer[j].x(), outer[j].y()); |
126
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1021 } |
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1022 } |
1000
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1023 #endif |
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1024 |
132
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1025 #else |
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1026 for (Polygons::iterator polygon = structure.polygons_.begin(); |
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1027 polygon != structure.polygons_.end(); ++polygon) |
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1028 { |
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1029 double x1, y1, x2, y2; |
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1030 if (polygon->Project(x1, y1, x2, y2, slice)) |
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1031 { |
1000
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1032 std::vector<Point2D> p(4); |
132
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1033 p[0] = std::make_pair(x1, y1); |
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1034 p[1] = std::make_pair(x2, y1); |
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1035 p[2] = std::make_pair(x2, y2); |
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1036 p[3] = std::make_pair(x1, y2); |
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1037 polygons.push_back(p); |
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1038 } |
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1039 } |
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1040 #endif |
125 | 1041 |
126
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1042 return true; |
125 | 1043 } |
1044 else | |
1045 { | |
1046 return false; | |
1047 } | |
0 | 1048 } |
1178
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1049 |
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1050 |
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1051 void DicomStructureSet::ProjectOntoLayer(PolylineSceneLayer& layer, |
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1052 const CoordinateSystem3D& plane, |
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1053 size_t structureIndex, |
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1054 const Color& color) const |
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1055 { |
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1056 #if USE_BOOST_UNION_FOR_POLYGONS == 1 |
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1057 std::vector< std::vector<Point2D> > polygons; |
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1058 if (ProjectStructure(polygons, structureIndex, plane)) |
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1059 { |
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1060 for (size_t j = 0; j < polygons.size(); j++) |
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1061 { |
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1062 std::vector<ScenePoint2D> chain; |
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1063 chain.reserve(polygons[j].size()); |
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1064 |
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1065 for (size_t k = 0; k < polygons[j].size(); k++) |
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1066 { |
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1067 chain.push_back(ScenePoint2D(polygons[j][k].x, polygons[j][k].y)); |
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1068 } |
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1069 |
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1070 layer.AddChain(chain, true, color.GetRed(), color.GetGreen(), color.GetBlue()); |
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1071 } |
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1072 } |
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1073 |
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1074 #else |
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1075 std::vector< std::pair<Point2D, Point2D> > segments; |
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1076 |
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1077 if (ProjectStructure(segments, structureIndex, plane)) |
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1078 { |
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1079 for (size_t j = 0; j < segments.size(); j++) |
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1080 { |
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1081 std::vector<ScenePoint2D> chain(2); |
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1082 chain[0] = ScenePoint2D(segments[j].first.x, segments[j].first.y); |
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1083 chain[1] = ScenePoint2D(segments[j].second.x, segments[j].second.y); |
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1084 layer.AddChain(chain, false, color.GetRed(), color.GetGreen(), color.GetBlue()); |
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1085 } |
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|
1086 } |
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|
1087 #endif |
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1088 } |
0 | 1089 } |