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annotate OrthancStone/Sources/Toolbox/DicomInstanceParameters.cpp @ 1634:a4418a489e86

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improving robustness of DicomInstanceParameters
author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 10 Nov 2020 11:11:28 +0100
parents 8563ea5d8ae4
children 1a714e21ea7c
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1 /**
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2 * Stone of Orthanc
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2020 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU Lesser General Public License
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Lesser General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Lesser General Public
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18 * License along with this program. If not, see
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19 * <http://www.gnu.org/licenses/>.
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20 **/
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21
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22
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23 #include "DicomInstanceParameters.h"
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24
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25 #include "../Scene2D/ColorTextureSceneLayer.h"
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26 #include "../Scene2D/FloatTextureSceneLayer.h"
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27 #include "../Toolbox/GeometryToolbox.h"
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28 #include "../Toolbox/ImageToolbox.h"
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29
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30 #include <Images/Image.h>
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31 #include <Images/ImageProcessing.h>
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32 #include <Logging.h>
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33 #include <OrthancException.h>
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34 #include <Toolbox.h>
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35
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36
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37 namespace OrthancStone
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38 {
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39 void DicomInstanceParameters::Data::ExtractFrameOffsets(const Orthanc::DicomMap& dicom)
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40 {
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41 // http://dicom.nema.org/medical/Dicom/2016a/output/chtml/part03/sect_C.8.8.3.2.html
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42
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43 std::string increment;
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44
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45 if (dicom.LookupStringValue(increment, Orthanc::DICOM_TAG_FRAME_INCREMENT_POINTER, false))
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46 {
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47 Orthanc::Toolbox::ToUpperCase(increment);
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48 if (increment != "3004,000C") // This is the "Grid Frame Offset Vector" tag (DICOM_TAG_GRID_FRAME_OFFSET_VECTOR)
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49 {
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50 LOG(WARNING) << "Bad value for the FrameIncrementPointer tags in a multiframe image";
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51 return;
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52 }
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53 }
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54
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55 if (!LinearAlgebra::ParseVector(frameOffsets_, dicom, Orthanc::DICOM_TAG_GRID_FRAME_OFFSET_VECTOR) ||
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56 frameOffsets_.size() != imageInformation_.GetNumberOfFrames())
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57 {
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58 LOG(INFO) << "The frame offset information is missing in a multiframe image";
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59 frameOffsets_.clear();
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60 }
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61 }
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62
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63
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64 DicomInstanceParameters::Data::Data(const Orthanc::DicomMap& dicom) :
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65 imageInformation_(dicom)
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66 {
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67 if (imageInformation_.GetNumberOfFrames() == 0)
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68 {
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69 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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70 }
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71
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72 if (!dicom.LookupStringValue(studyInstanceUid_, Orthanc::DICOM_TAG_STUDY_INSTANCE_UID, false) ||
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73 !dicom.LookupStringValue(seriesInstanceUid_, Orthanc::DICOM_TAG_SERIES_INSTANCE_UID, false) ||
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74 !dicom.LookupStringValue(sopInstanceUid_, Orthanc::DICOM_TAG_SOP_INSTANCE_UID, false))
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75 {
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76 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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77 }
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78
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79 std::string s;
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80 if (!dicom.LookupStringValue(s, Orthanc::DICOM_TAG_SOP_CLASS_UID, false))
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81 {
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82 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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83 }
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84 else
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85 {
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86 sopClassUid_ = StringToSopClassUid(s);
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87 }
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88
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89 if (!dicom.ParseDouble(sliceThickness_, Orthanc::DICOM_TAG_SLICE_THICKNESS))
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90 {
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91 sliceThickness_ = 100.0 * std::numeric_limits<double>::epsilon();
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92 }
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93
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94 GeometryToolbox::GetPixelSpacing(pixelSpacingX_, pixelSpacingY_, dicom);
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95
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96 std::string position, orientation;
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97 if (dicom.LookupStringValue(position, Orthanc::DICOM_TAG_IMAGE_POSITION_PATIENT, false) &&
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98 dicom.LookupStringValue(orientation, Orthanc::DICOM_TAG_IMAGE_ORIENTATION_PATIENT, false))
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99 {
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100 geometry_ = CoordinateSystem3D(position, orientation);
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101 }
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102
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103 ExtractFrameOffsets(dicom);
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104
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105 if (sopClassUid_ == SopClassUid_RTDose)
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106 {
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107 static const Orthanc::DicomTag DICOM_TAG_DOSE_UNITS(0x3004, 0x0002);
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108
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109 if (!dicom.LookupStringValue(doseUnits_, DICOM_TAG_DOSE_UNITS, false))
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110 {
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111 LOG(ERROR) << "Tag DoseUnits (0x3004, 0x0002) is missing in " << sopInstanceUid_;
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112 doseUnits_.clear();
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113 }
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114 }
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115
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116 isColor_ = (imageInformation_.GetPhotometricInterpretation() != Orthanc::PhotometricInterpretation_Monochrome1 &&
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117 imageInformation_.GetPhotometricInterpretation() != Orthanc::PhotometricInterpretation_Monochrome2);
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118
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119 if (dicom.ParseDouble(rescaleIntercept_, Orthanc::DICOM_TAG_RESCALE_INTERCEPT) &&
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120 dicom.ParseDouble(rescaleSlope_, Orthanc::DICOM_TAG_RESCALE_SLOPE))
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121 {
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122 if (sopClassUid_ == SopClassUid_RTDose)
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123 {
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124 LOG(INFO) << "DOSE HAS Rescale*: rescaleIntercept_ = " << rescaleIntercept_ << " rescaleSlope_ = " << rescaleSlope_;
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125 // WE SHOULD NOT TAKE THE RESCALE VALUE INTO ACCOUNT IN THE CASE OF DOSES
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126 hasRescale_ = false;
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127 }
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128 else
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129 {
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130 hasRescale_ = true;
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131 }
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132
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133 }
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134 else
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135 {
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136 hasRescale_ = false;
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137 }
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parents:
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138
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139 if (dicom.ParseDouble(doseGridScaling_, Orthanc::DICOM_TAG_DOSE_GRID_SCALING))
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140 {
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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141 if (sopClassUid_ == SopClassUid_RTDose)
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142 {
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143 LOG(INFO) << "DOSE HAS DoseGridScaling: doseGridScaling_ = " << doseGridScaling_;
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144 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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145 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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146 else
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147 {
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148 doseGridScaling_ = 1.0;
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149 if (sopClassUid_ == SopClassUid_RTDose)
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150 {
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151 LOG(ERROR) << "Tag DoseGridScaling (0x3004, 0x000e) is missing in " << sopInstanceUid_ << " doseGridScaling_ will be set to 1.0";
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152 }
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153 }
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154
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155 Vector c, w;
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156 if (LinearAlgebra::ParseVector(c, dicom, Orthanc::DICOM_TAG_WINDOW_CENTER) &&
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157 LinearAlgebra::ParseVector(w, dicom, Orthanc::DICOM_TAG_WINDOW_WIDTH) &&
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158 c.size() > 0 &&
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159 w.size() > 0)
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160 {
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161 hasDefaultWindowing_ = true;
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162 defaultWindowingCenter_ = static_cast<float>(c[0]);
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163 defaultWindowingWidth_ = static_cast<float>(w[0]);
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164 }
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165 else
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166 {
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167 hasDefaultWindowing_ = false;
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168 defaultWindowingCenter_ = 0;
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169 defaultWindowingWidth_ = 0;
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170 }
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171
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172 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale16; // Rough guess
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173
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174 if (sopClassUid_ == SopClassUid_RTDose)
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175 {
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176 switch (imageInformation_.GetBitsStored())
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177 {
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178 case 16:
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179 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale16;
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180 break;
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181
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182 case 32:
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183 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale32;
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184 break;
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185
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186 default:
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187 break;
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188 }
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189 }
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190 else if (isColor_)
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191 {
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192 expectedPixelFormat_ = Orthanc::PixelFormat_RGB24;
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193 }
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194 else if (imageInformation_.IsSigned())
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195 {
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196 expectedPixelFormat_ = Orthanc::PixelFormat_SignedGrayscale16;
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197 }
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198
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199 // This computes the "IndexInSeries" metadata from Orthanc (check
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200 // out "Orthanc::ServerIndex::Store()")
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201 hasIndexInSeries_ = (
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202 dicom.ParseUnsignedInteger32(indexInSeries_, Orthanc::DICOM_TAG_INSTANCE_NUMBER) ||
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203 dicom.ParseUnsignedInteger32(indexInSeries_, Orthanc::DICOM_TAG_IMAGE_INDEX));
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204 }
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205
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206
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207 CoordinateSystem3D DicomInstanceParameters::Data::GetFrameGeometry(unsigned int frame) const
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208 {
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209 if (frame == 0)
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210 {
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211 return geometry_;
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212 }
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213 else if (frame >= imageInformation_.GetNumberOfFrames())
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214 {
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215 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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216 }
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217 else if (frameOffsets_.empty())
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218 {
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219 return geometry_;
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220 }
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221 else
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222 {
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223 assert(frameOffsets_.size() == imageInformation_.GetNumberOfFrames());
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224
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225 return CoordinateSystem3D(
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226 geometry_.GetOrigin() + frameOffsets_[frame] * geometry_.GetNormal(),
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227 geometry_.GetAxisX(),
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228 geometry_.GetAxisY());
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229 }
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parents:
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230 }
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parents:
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231
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232
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233 bool DicomInstanceParameters::Data::IsPlaneWithinSlice(unsigned int frame,
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234 const CoordinateSystem3D& plane) const
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235 {
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236 if (frame >= imageInformation_.GetNumberOfFrames())
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237 {
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238 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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239 }
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240
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241 CoordinateSystem3D tmp = geometry_;
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242
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243 if (frame != 0)
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244 {
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245 tmp = GetFrameGeometry(frame);
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246 }
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247
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248 double distance;
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249
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250 return (CoordinateSystem3D::ComputeDistance(distance, tmp, plane) &&
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251 distance <= sliceThickness_ / 2.0);
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252 }
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253
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254 void DicomInstanceParameters::Data::ApplyRescaleAndDoseScaling(Orthanc::ImageAccessor& image,
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255 bool useDouble) const
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256 {
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257 if (image.GetFormat() != Orthanc::PixelFormat_Float32)
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258 {
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259 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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260 }
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261
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262 double factor = doseGridScaling_;
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263 double offset = 0.0;
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264
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265 if (hasRescale_)
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266 {
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267 factor *= rescaleSlope_;
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268 offset = rescaleIntercept_;
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269 }
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270
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271 if (!LinearAlgebra::IsNear(factor, 1) ||
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272 !LinearAlgebra::IsNear(offset, 0))
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273 {
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274 const unsigned int width = image.GetWidth();
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275 const unsigned int height = image.GetHeight();
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276
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277 for (unsigned int y = 0; y < height; y++)
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278 {
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279 float* p = reinterpret_cast<float*>(image.GetRow(y));
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280
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281 if (useDouble)
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parents:
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282 {
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283 // Slower, accurate implementation using double
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parents:
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284 for (unsigned int x = 0; x < width; x++, p++)
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parents:
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285 {
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286 double value = static_cast<double>(*p);
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287 *p = static_cast<float>(value * factor + offset);
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288 }
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289 }
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Sebastien Jodogne <s.jodogne@gmail.com>
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290 else
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291 {
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292 // Fast, approximate implementation using float
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293 for (unsigned int x = 0; x < width; x++, p++)
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294 {
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295 *p = (*p) * static_cast<float>(factor) + static_cast<float>(offset);
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296 }
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297 }
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298 }
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parents:
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299 }
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parents:
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300 }
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parents:
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301
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302 double DicomInstanceParameters::GetRescaleIntercept() const
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303 {
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304 if (data_.hasRescale_)
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parents:
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305 {
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306 return data_.rescaleIntercept_;
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307 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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308 else
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parents:
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309 {
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parents: 949
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310 LOG(ERROR) << "DicomInstanceParameters::GetRescaleIntercept(): !data_.hasRescale_";
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311 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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312 }
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313 }
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314
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315
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316 double DicomInstanceParameters::GetRescaleSlope() const
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317 {
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318 if (data_.hasRescale_)
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319 {
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320 return data_.rescaleSlope_;
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321 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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322 else
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parents:
diff changeset
323 {
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parents: 949
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324 LOG(ERROR) << "DicomInstanceParameters::GetRescaleSlope(): !data_.hasRescale_";
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325 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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326 }
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parents:
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327 }
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parents:
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328
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parents:
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329
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330 float DicomInstanceParameters::GetDefaultWindowingCenter() const
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331 {
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332 if (data_.hasDefaultWindowing_)
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parents:
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333 {
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334 return data_.defaultWindowingCenter_;
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parents:
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335 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
336 else
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parents:
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337 {
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parents: 1455
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338 LOG(ERROR) << "DicomInstanceParameters::GetDefaultWindowingCenter(): no default windowing";
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339 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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340 }
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parents:
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341 }
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parents:
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342
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parents:
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343
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344 float DicomInstanceParameters::GetDefaultWindowingWidth() const
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345 {
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346 if (data_.hasDefaultWindowing_)
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parents:
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347 {
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348 return data_.defaultWindowingWidth_;
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parents:
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349 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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350 else
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parents:
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351 {
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parents: 1455
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352 LOG(ERROR) << "DicomInstanceParameters::GetDefaultWindowingWidth(): no default windowing";
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353 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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354 }
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parents:
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355 }
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parents:
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356
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357
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358 Orthanc::ImageAccessor* DicomInstanceParameters::ConvertToFloat(const Orthanc::ImageAccessor& pixelData) const
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parents: 762
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359 {
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parents: 1291
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360 std::unique_ptr<Orthanc::Image> converted(new Orthanc::Image(Orthanc::PixelFormat_Float32,
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361 pixelData.GetWidth(),
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parents: 1598
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362 pixelData.GetHeight(),
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parents: 1598
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363 false));
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364 Orthanc::ImageProcessing::Convert(*converted, pixelData);
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parents: 762
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365
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parents: 1270
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366
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367 // Correct rescale slope/intercept if need be
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parents: 1091
diff changeset
368 //data_.ApplyRescaleAndDoseScaling(*converted, (pixelData.GetFormat() == Orthanc::PixelFormat_Grayscale32));
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diff changeset
369 data_.ApplyRescaleAndDoseScaling(*converted, false);
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370
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371 return converted.release();
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parents: 762
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372 }
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parents: 762
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373
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parents: 762
diff changeset
374
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parents: 762
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375 TextureBaseSceneLayer* DicomInstanceParameters::CreateTexture
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376 (const Orthanc::ImageAccessor& pixelData) const
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parents:
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377 {
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378 // {
af65bce18951 Dummy commented debug block
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379 // const Orthanc::ImageAccessor& source = pixelData;
af65bce18951 Dummy commented debug block
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380 // const void* sourceBuffer = source.GetConstBuffer();
af65bce18951 Dummy commented debug block
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381 // intptr_t sourceBufferInt = reinterpret_cast<intptr_t>(sourceBuffer);
af65bce18951 Dummy commented debug block
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382 // int sourceWidth = source.GetWidth();
af65bce18951 Dummy commented debug block
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parents: 1300
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383 // int sourceHeight = source.GetHeight();
af65bce18951 Dummy commented debug block
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parents: 1300
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384 // int sourcePitch = source.GetPitch();
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parents: 1300
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385
af65bce18951 Dummy commented debug block
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386 // // TODO: turn error into trace below
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387 // LOG(ERROR) << "ConvertGrayscaleToFloat | source:"
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388 // << " W = " << sourceWidth << " H = " << sourceHeight
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389 // << " P = " << sourcePitch << " B = " << sourceBufferInt
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parents: 1300
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390 // << " B % 4 == " << sourceBufferInt % 4;
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391 // }
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parents: 1300
diff changeset
392
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393 assert(sizeof(float) == 4);
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parents:
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394
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395 Orthanc::PixelFormat sourceFormat = pixelData.GetFormat();
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parents:
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396
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parents:
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397 if (sourceFormat != GetExpectedPixelFormat())
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parents:
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398 {
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parents:
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399 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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parents:
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400 }
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parents:
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401
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parents:
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402 if (sourceFormat == Orthanc::PixelFormat_RGB24)
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parents:
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403 {
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parents:
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404 // This is the case of a color image. No conversion has to be done.
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parents:
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405 return new ColorTextureSceneLayer(pixelData);
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parents:
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406 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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407 else
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parents:
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408 {
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409 // This is the case of a grayscale frame. Convert it to Float32.
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410 std::unique_ptr<FloatTextureSceneLayer> texture;
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parents:
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411
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parents: 762
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412 if (pixelData.GetFormat() == Orthanc::PixelFormat_Float32)
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parents:
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413 {
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parents: 762
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414 texture.reset(new FloatTextureSceneLayer(pixelData));
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parents: 762
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415 }
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parents: 762
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416 else
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parents: 762
diff changeset
417 {
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parents: 1291
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418 std::unique_ptr<Orthanc::ImageAccessor> converted(ConvertToFloat(pixelData));
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419 texture.reset(new FloatTextureSceneLayer(*converted));
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parents:
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420 }
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parents:
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421
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422 if (data_.hasDefaultWindowing_)
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parents:
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423 {
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424 texture->SetCustomWindowing(data_.defaultWindowingCenter_,
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parents:
diff changeset
425 data_.defaultWindowingWidth_);
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
426 }
1206
c93a6218f0cd Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents: 1141
diff changeset
427
1634
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
428 switch (data_.imageInformation_.GetPhotometricInterpretation())
1206
c93a6218f0cd Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents: 1141
diff changeset
429 {
1634
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
430 case Orthanc::PhotometricInterpretation_Monochrome1:
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
431 texture->SetInverted(true);
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
432 break;
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
433
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
434 case Orthanc::PhotometricInterpretation_Monochrome2:
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
435 texture->SetInverted(false);
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
436 break;
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
437
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
438 default:
a4418a489e86 improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1598
diff changeset
439 break;
1206
c93a6218f0cd Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents: 1141
diff changeset
440 }
c93a6218f0cd Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents: 1141
diff changeset
441
746
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
442 return texture.release();
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
443 }
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
444 }
768
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
445
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
446
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
447 LookupTableTextureSceneLayer* DicomInstanceParameters::CreateLookupTableTexture
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
448 (const Orthanc::ImageAccessor& pixelData) const
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
449 {
1298
8a0a62189f46 replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1291
diff changeset
450 std::unique_ptr<FloatTextureSceneLayer> texture;
768
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
451
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
452 if (pixelData.GetFormat() == Orthanc::PixelFormat_Float32)
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
453 {
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
454 return new LookupTableTextureSceneLayer(pixelData);
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
455 }
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
456 else
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
457 {
1298
8a0a62189f46 replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1291
diff changeset
458 std::unique_ptr<Orthanc::ImageAccessor> converted(ConvertToFloat(pixelData));
768
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
459 return new LookupTableTextureSceneLayer(*converted);
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
460 }
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
461 }
980
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
462
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
463
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
464 unsigned int DicomInstanceParameters::GetIndexInSeries() const
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
465 {
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
466 if (data_.hasIndexInSeries_)
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
467 {
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
468 return data_.indexInSeries_;
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
469 }
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
470 else
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
471 {
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
472 LOG(ERROR) << "DicomInstanceParameters::GetIndexInSeries(): !data_.hasIndexInSeries_";
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
473 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
474 }
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
475 }
1159
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
476
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
477
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
478 double DicomInstanceParameters::Data::ApplyRescale(double value) const
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
479 {
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
480 double factor = doseGridScaling_;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
481 double offset = 0.0;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
482
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
483 if (hasRescale_)
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
484 {
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
485 factor *= rescaleSlope_;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
486 offset = rescaleIntercept_;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
487 }
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
488
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
489 return (value * factor + offset);
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
490 }
1161
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
491
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
492
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
493 bool DicomInstanceParameters::Data::ComputeRegularSpacing(double& spacing) const
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
494 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
495 if (frameOffsets_.size() == 0) // Not a RT-DOSE
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
496 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
497 return false;
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
498 }
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
499 else if (frameOffsets_.size() == 1)
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
500 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
501 spacing = 1; // Edge case: RT-DOSE with one single frame
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
502 return true;
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
503 }
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
504 else
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
505 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
506 spacing = std::abs(frameOffsets_[1] - frameOffsets_[0]);
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
507
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
508 for (size_t i = 1; i + 1 < frameOffsets_.size(); i++)
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
509 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
510 double s = frameOffsets_[i + 1] - frameOffsets_[i];
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
511 if (!LinearAlgebra::IsNear(spacing, s, 0.001))
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
512 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
513 return false;
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
514 }
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
515 }
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
516
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
517 return true;
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
518 }
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
519 }
746
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
520 }