annotate Framework/Toolbox/SliceGeometry.cpp @ 79:4e21f6b3aa0d wasm

cleaning up
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 24 May 2017 21:23:29 +0200
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1 /**
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2 * Stone of Orthanc
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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7207a407bcd8 shared copyright with osimis
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5 * Copyright (C) 2017 Osimis, Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU Affero General Public License
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Affero General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Affero General Public License
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18 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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19 **/
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22 #include "SliceGeometry.h"
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24 #include "GeometryToolbox.h"
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26 #include "../../Resources/Orthanc/Core/Logging.h"
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27 #include "../../Resources/Orthanc/Core/Toolbox.h"
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28 #include "../../Resources/Orthanc/Core/OrthancException.h"
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30 namespace OrthancStone
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31 {
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32 void SliceGeometry::CheckAndComputeNormal()
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33 {
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34 // DICOM expects normal vectors to define the axes: "The row and
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35 // column direction cosine vectors shall be normal, i.e., the dot
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36 // product of each direction cosine vector with itself shall be
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37 // unity."
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38 // http://dicom.nema.org/medical/dicom/current/output/chtml/part03/sect_C.7.6.2.html
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39 if (!GeometryToolbox::IsNear(boost::numeric::ublas::norm_2(axisX_), 1.0) ||
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40 !GeometryToolbox::IsNear(boost::numeric::ublas::norm_2(axisY_), 1.0))
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41 {
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42 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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43 }
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45 // The vectors within "Image Orientation Patient" must be
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46 // orthogonal, according to the DICOM specification: "The row and
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47 // column direction cosine vectors shall be orthogonal, i.e.,
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48 // their dot product shall be zero."
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49 // http://dicom.nema.org/medical/dicom/current/output/chtml/part03/sect_C.7.6.2.html
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50 if (!GeometryToolbox::IsCloseToZero(boost::numeric::ublas::inner_prod(axisX_, axisY_)))
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51 {
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52 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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53 }
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55 GeometryToolbox::CrossProduct(normal_, axisX_, axisY_);
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56
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57 // Just a sanity check, it should be useless by construction
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58 assert(GeometryToolbox::IsNear(boost::numeric::ublas::norm_2(normal_), 1.0));
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59 }
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62 void SliceGeometry::SetupCanonical()
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63 {
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64 GeometryToolbox::AssignVector(origin_, 0, 0, 0);
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65 GeometryToolbox::AssignVector(axisX_, 1, 0, 0);
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66 GeometryToolbox::AssignVector(axisY_, 0, 1, 0);
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67 CheckAndComputeNormal();
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68 }
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71 SliceGeometry::SliceGeometry(const Vector& origin,
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72 const Vector& axisX,
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73 const Vector& axisY) :
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74 origin_(origin),
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75 axisX_(axisX),
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76 axisY_(axisY)
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77 {
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78 CheckAndComputeNormal();
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79 }
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82 void SliceGeometry::Setup(const std::string& imagePositionPatient,
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83 const std::string& imageOrientationPatient)
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84 {
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85 std::string tmpPosition = Orthanc::Toolbox::StripSpaces(imagePositionPatient);
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86 std::string tmpOrientation = Orthanc::Toolbox::StripSpaces(imageOrientationPatient);
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87
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88 Vector orientation;
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89 if (!GeometryToolbox::ParseVector(origin_, tmpPosition) ||
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90 !GeometryToolbox::ParseVector(orientation, tmpOrientation) ||
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91 origin_.size() != 3 ||
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92 orientation.size() != 6)
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93 {
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94 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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95 }
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96
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97 axisX_.resize(3);
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98 axisX_[0] = orientation[0];
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99 axisX_[1] = orientation[1];
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100 axisX_[2] = orientation[2];
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101
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102 axisY_.resize(3);
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103 axisY_[0] = orientation[3];
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104 axisY_[1] = orientation[4];
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105 axisY_[2] = orientation[5];
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106
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107 CheckAndComputeNormal();
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108 }
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110
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111 SliceGeometry::SliceGeometry(const OrthancPlugins::IDicomDataset& dicom)
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112 {
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113 std::string a, b;
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114
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115 if (dicom.GetStringValue(a, OrthancPlugins::DICOM_TAG_IMAGE_POSITION_PATIENT) &&
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116 dicom.GetStringValue(b, OrthancPlugins::DICOM_TAG_IMAGE_ORIENTATION_PATIENT))
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117 {
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118 Setup(a, b);
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119 }
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120 else
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121 {
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122 SetupCanonical();
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123 }
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124 }
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125
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126
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127 Vector SliceGeometry::MapSliceToWorldCoordinates(double x,
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128 double y) const
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129 {
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130 return origin_ + x * axisX_ + y * axisY_;
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131 }
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132
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133
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134 double SliceGeometry::ProjectAlongNormal(const Vector& point) const
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135 {
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136 return boost::numeric::ublas::inner_prod(point, normal_);
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137 }
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138
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139
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140 void SliceGeometry::ProjectPoint(double& offsetX,
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141 double& offsetY,
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142 const Vector& point) const
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143 {
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144 // Project the point onto the slice
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145 Vector projection;
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146 GeometryToolbox::ProjectPointOntoPlane(projection, point, normal_, origin_);
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147
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148 // As the axes are orthonormal vectors thanks to
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149 // CheckAndComputeNormal(), the following dot products give the
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150 // offset of the origin of the slice wrt. the origin of the
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151 // reference plane https://en.wikipedia.org/wiki/Vector_projection
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152 offsetX = boost::numeric::ublas::inner_prod(axisX_, projection - origin_);
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153 offsetY = boost::numeric::ublas::inner_prod(axisY_, projection - origin_);
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154 }
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155
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156
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157 bool SliceGeometry::IsSamePlane(const SliceGeometry& other,
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158 double sliceThickness) const
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159 {
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160 return (GeometryToolbox::IsParallel(GetNormal(), other.GetNormal()) &&
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161 GeometryToolbox::IsNear(ProjectAlongNormal(other.GetOrigin()),
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162 ProjectAlongNormal(GetOrigin()),
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163 sliceThickness / 2.0));
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164 }
0
351ab0da0150 initial commit
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165 }