annotate Framework/Toolbox/DicomInstanceParameters.cpp @ 1303:83af7e562b45 broker

IGeometryProvider interface for deprecated loaders (required for AB testing in older app)
author Benjamin Golinvaux <bgo@osimis.io>
date Wed, 04 Mar 2020 09:44:09 +0100
parents 7ec8fea061b9
children 6ab03e429f06
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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 Affero General Public License
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Affero General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Affero General Public License
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18 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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19 **/
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20
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21
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22 #include "DicomInstanceParameters.h"
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23
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24 #include "../Scene2D/ColorTextureSceneLayer.h"
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25 #include "../Scene2D/FloatTextureSceneLayer.h"
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26 #include "../Toolbox/GeometryToolbox.h"
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27
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28 #include <Core/Images/Image.h>
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29 #include <Core/Images/ImageProcessing.h>
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30 #include <Core/Logging.h>
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31 #include <Core/OrthancException.h>
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32 #include <Core/Toolbox.h>
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33
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34
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35 namespace OrthancStone
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36 {
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37 void DicomInstanceParameters::Data::ComputeDoseOffsets(const Orthanc::DicomMap& dicom)
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38 {
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39 // http://dicom.nema.org/medical/Dicom/2016a/output/chtml/part03/sect_C.8.8.3.2.html
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40
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41 {
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42 std::string increment;
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43
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44 if (dicom.LookupStringValue(increment, Orthanc::DICOM_TAG_FRAME_INCREMENT_POINTER, false))
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45 {
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46 Orthanc::Toolbox::ToUpperCase(increment);
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47 if (increment != "3004,000C") // This is the "Grid Frame Offset Vector" tag (DICOM_TAG_GRID_FRAME_OFFSET_VECTOR)
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48 {
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49 LOG(ERROR) << "RT-DOSE: Bad value for the \"FrameIncrementPointer\" tag";
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50 return;
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51 }
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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(ERROR) << "RT-DOSE: No information about the 3D location of some slice(s)";
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59 frameOffsets_.clear();
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60 }
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61 else
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62 {
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63 if (frameOffsets_.size() >= 2)
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64 {
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65 thickness_ = std::abs(frameOffsets_[1] - frameOffsets_[0]);
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66 }
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67 }
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68 }
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69
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70
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71 DicomInstanceParameters::Data::Data(const Orthanc::DicomMap& dicom) :
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72 imageInformation_(dicom)
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73 {
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74 if (imageInformation_.GetNumberOfFrames() <= 0)
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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 if (!dicom.LookupStringValue(studyInstanceUid_, Orthanc::DICOM_TAG_STUDY_INSTANCE_UID, false) ||
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80 !dicom.LookupStringValue(seriesInstanceUid_, Orthanc::DICOM_TAG_SERIES_INSTANCE_UID, false) ||
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81 !dicom.LookupStringValue(sopInstanceUid_, Orthanc::DICOM_TAG_SOP_INSTANCE_UID, false))
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82 {
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83 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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84 }
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85
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86 std::string s;
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87 if (!dicom.LookupStringValue(s, Orthanc::DICOM_TAG_SOP_CLASS_UID, false))
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88 {
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89 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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90 }
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91 else
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92 {
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93 sopClassUid_ = StringToSopClassUid(s);
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94 }
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95
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96 if (!dicom.ParseDouble(thickness_, Orthanc::DICOM_TAG_SLICE_THICKNESS))
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97 {
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98 thickness_ = 100.0 * std::numeric_limits<double>::epsilon();
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99 }
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100
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101 GeometryToolbox::GetPixelSpacing(pixelSpacingX_, pixelSpacingY_, dicom);
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102
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103 std::string position, orientation;
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104 if (dicom.LookupStringValue(position, Orthanc::DICOM_TAG_IMAGE_POSITION_PATIENT, false) &&
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105 dicom.LookupStringValue(orientation, Orthanc::DICOM_TAG_IMAGE_ORIENTATION_PATIENT, false))
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106 {
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107 geometry_ = CoordinateSystem3D(position, orientation);
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108 }
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109
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110 if (sopClassUid_ == SopClassUid_RTDose)
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111 {
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112 ComputeDoseOffsets(dicom);
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113
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114 static const Orthanc::DicomTag DICOM_TAG_DOSE_UNITS(0x3004, 0x0002);
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115
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116 if (!dicom.LookupStringValue(doseUnits_, DICOM_TAG_DOSE_UNITS, false))
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117 {
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118 LOG(ERROR) << "Tag DoseUnits (0x3004, 0x0002) is missing in " << sopInstanceUid_;
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119 doseUnits_ = "";
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120 }
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121 }
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122
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123 isColor_ = (imageInformation_.GetPhotometricInterpretation() != Orthanc::PhotometricInterpretation_Monochrome1 &&
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124 imageInformation_.GetPhotometricInterpretation() != Orthanc::PhotometricInterpretation_Monochrome2);
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125
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126 if (dicom.ParseDouble(rescaleIntercept_, Orthanc::DICOM_TAG_RESCALE_INTERCEPT) &&
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127 dicom.ParseDouble(rescaleSlope_, Orthanc::DICOM_TAG_RESCALE_SLOPE))
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128 {
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129 if (sopClassUid_ == SopClassUid_RTDose)
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130 {
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131 LOG(INFO) << "DOSE HAS Rescale*: rescaleIntercept_ = " << rescaleIntercept_ << " rescaleSlope_ = " << rescaleSlope_;
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132 // WE SHOULD NOT TAKE THE RESCALE VALUE INTO ACCOUNT IN THE CASE OF DOSES
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133 hasRescale_ = false;
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134 }
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135 else
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136 {
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137 hasRescale_ = true;
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parents: 1091
diff changeset
138 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
139
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parents:
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140 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
141 else
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
142 {
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parents:
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143 hasRescale_ = false;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
144 }
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parents:
diff changeset
145
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parents: 1091
diff changeset
146 if (dicom.ParseDouble(doseGridScaling_, Orthanc::DICOM_TAG_DOSE_GRID_SCALING))
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parents: 1091
diff changeset
147 {
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
148 if (sopClassUid_ == SopClassUid_RTDose)
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parents: 1091
diff changeset
149 {
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
150 LOG(INFO) << "DOSE HAS DoseGridScaling: doseGridScaling_ = " << doseGridScaling_;
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parents: 1091
diff changeset
151 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
Benjamin Golinvaux <bgo@osimis.io>
parents: 1091
diff changeset
152 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
153 else
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parents: 1091
diff changeset
154 {
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
155 doseGridScaling_ = 1.0;
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parents: 1091
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156 if (sopClassUid_ == SopClassUid_RTDose)
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
157 {
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
158 LOG(ERROR) << "Tag DoseGridScaling (0x3004, 0x000e) is missing in " << sopInstanceUid_ << " doseGridScaling_ will be set to 1.0";
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parents: 1091
diff changeset
159 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
160 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
161
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162 Vector c, w;
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163 if (LinearAlgebra::ParseVector(c, dicom, Orthanc::DICOM_TAG_WINDOW_CENTER) &&
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164 LinearAlgebra::ParseVector(w, dicom, Orthanc::DICOM_TAG_WINDOW_WIDTH) &&
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165 c.size() > 0 &&
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166 w.size() > 0)
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parents:
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167 {
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168 hasDefaultWindowing_ = true;
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169 defaultWindowingCenter_ = static_cast<float>(c[0]);
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170 defaultWindowingWidth_ = static_cast<float>(w[0]);
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parents:
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171 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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172 else
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parents:
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173 {
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parents:
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174 hasDefaultWindowing_ = false;
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175 defaultWindowingCenter_ = 0;
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176 defaultWindowingWidth_ = 0;
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177 }
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parents:
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178
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179 if (sopClassUid_ == SopClassUid_RTDose)
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parents:
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180 {
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181 switch (imageInformation_.GetBitsStored())
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parents:
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182 {
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183 case 16:
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184 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale16;
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185 break;
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186
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187 case 32:
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188 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale32;
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189 break;
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parents:
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190
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191 default:
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192 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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193 }
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parents:
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194 }
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parents:
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195 else if (isColor_)
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196 {
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197 expectedPixelFormat_ = Orthanc::PixelFormat_RGB24;
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198 }
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parents:
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199 else if (imageInformation_.IsSigned())
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parents:
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200 {
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201 expectedPixelFormat_ = Orthanc::PixelFormat_SignedGrayscale16;
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parents:
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202 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
203 else
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parents:
diff changeset
204 {
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parents:
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205 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale16;
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parents:
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206 }
980
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
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207
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208 // This computes the "IndexInSeries" metadata from Orthanc (check
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209 // out "Orthanc::ServerIndex::Store()")
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210 hasIndexInSeries_ = (
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211 dicom.ParseUnsignedInteger32(indexInSeries_, Orthanc::DICOM_TAG_INSTANCE_NUMBER) ||
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212 dicom.ParseUnsignedInteger32(indexInSeries_, Orthanc::DICOM_TAG_IMAGE_INDEX));
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213 }
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parents:
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214
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parents:
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215
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216 CoordinateSystem3D DicomInstanceParameters::Data::GetFrameGeometry(unsigned int frame) const
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217 {
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218 if (frame == 0)
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parents:
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219 {
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220 return geometry_;
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parents:
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221 }
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parents:
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222 else if (frame >= imageInformation_.GetNumberOfFrames())
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parents:
diff changeset
223 {
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224 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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225 }
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parents:
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226 else if (sopClassUid_ == SopClassUid_RTDose)
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parents:
diff changeset
227 {
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parents:
diff changeset
228 if (frame >= frameOffsets_.size())
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
229 {
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parents:
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230 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
231 }
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parents:
diff changeset
232
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parents:
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233 return CoordinateSystem3D(
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parents:
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234 geometry_.GetOrigin() + frameOffsets_[frame] * geometry_.GetNormal(),
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parents:
diff changeset
235 geometry_.GetAxisX(),
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parents:
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236 geometry_.GetAxisY());
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
237 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
238 else
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parents:
diff changeset
239 {
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parents:
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240 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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parents:
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241 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
242 }
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parents:
diff changeset
243
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parents:
diff changeset
244
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parents:
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245 bool DicomInstanceParameters::Data::IsPlaneWithinSlice(unsigned int frame,
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246 const CoordinateSystem3D& plane) const
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parents:
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247 {
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parents:
diff changeset
248 if (frame >= imageInformation_.GetNumberOfFrames())
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parents:
diff changeset
249 {
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parents:
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250 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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parents:
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251 }
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parents:
diff changeset
252
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253 CoordinateSystem3D tmp = geometry_;
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parents:
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254
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parents:
diff changeset
255 if (frame != 0)
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parents:
diff changeset
256 {
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parents:
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257 tmp = GetFrameGeometry(frame);
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parents:
diff changeset
258 }
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parents:
diff changeset
259
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260 double distance;
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parents:
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261
757
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parents: 746
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262 return (CoordinateSystem3D::ComputeDistance(distance, tmp, plane) &&
746
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263 distance <= thickness_ / 2.0);
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parents:
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264 }
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parents:
diff changeset
265
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parents:
diff changeset
266
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parents: 1091
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267 void DicomInstanceParameters::Data::ApplyRescaleAndDoseScaling(Orthanc::ImageAccessor& image,
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acb399643945 DicomInstanceParameters::ApplyRescale()
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parents: 1141
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268 bool useDouble) const
746
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269 {
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parents:
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270 if (image.GetFormat() != Orthanc::PixelFormat_Float32)
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parents:
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271 {
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272 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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273 }
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274
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275 double factor = doseGridScaling_;
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276 double offset = 0.0;
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parents: 1091
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277
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diff changeset
278 if (hasRescale_)
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parents:
diff changeset
279 {
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280 factor *= rescaleSlope_;
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281 offset = rescaleIntercept_;
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parents: 1091
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282 }
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
diff changeset
283
7681f3943748 Changed handling of DoseGridScaling: before this commit, rescaleSlope was set to
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parents: 1091
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284 if ( (factor != 1.0) || (offset != 0.0) )
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285 {
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286 const unsigned int width = image.GetWidth();
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287 const unsigned int height = image.GetHeight();
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288
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289 for (unsigned int y = 0; y < height; y++)
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290 {
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291 float* p = reinterpret_cast<float*>(image.GetRow(y));
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292
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293 if (useDouble)
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parents:
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294 {
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295 // Slower, accurate implementation using double
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296 for (unsigned int x = 0; x < width; x++, p++)
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297 {
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298 double value = static_cast<double>(*p);
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299 *p = static_cast<float>(value * factor + offset);
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300 }
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Sebastien Jodogne <s.jodogne@gmail.com>
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301 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
302 else
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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303 {
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parents:
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304 // Fast, approximate implementation using float
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parents:
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305 for (unsigned int x = 0; x < width; x++, p++)
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parents:
diff changeset
306 {
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diff changeset
307 *p = (*p) * static_cast<float>(factor) + static_cast<float>(offset);
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308 }
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parents:
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309 }
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parents:
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310 }
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parents:
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311 }
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parents:
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312 }
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313
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314 double DicomInstanceParameters::GetRescaleIntercept() const
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315 {
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316 if (data_.hasRescale_)
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parents:
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317 {
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318 return data_.rescaleIntercept_;
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319 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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320 else
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parents:
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321 {
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322 LOG(ERROR) << "DicomInstanceParameters::GetRescaleIntercept(): !data_.hasRescale_";
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323 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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324 }
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parents:
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325 }
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parents:
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326
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327
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328 double DicomInstanceParameters::GetRescaleSlope() const
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329 {
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330 if (data_.hasRescale_)
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331 {
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332 return data_.rescaleSlope_;
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333 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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334 else
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parents:
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335 {
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parents: 949
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336 LOG(ERROR) << "DicomInstanceParameters::GetRescaleSlope(): !data_.hasRescale_";
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337 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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338 }
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parents:
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339 }
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340
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341
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342 float DicomInstanceParameters::GetDefaultWindowingCenter() const
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343 {
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344 if (data_.hasDefaultWindowing_)
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345 {
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346 return data_.defaultWindowingCenter_;
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parents:
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347 }
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parents:
diff changeset
348 else
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parents:
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349 {
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parents: 949
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350 LOG(ERROR) << "DicomInstanceParameters::GetDefaultWindowingCenter(): !data_.hasRescale_";
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351 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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352 }
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parents:
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353 }
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parents:
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354
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parents:
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355
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356 float DicomInstanceParameters::GetDefaultWindowingWidth() const
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357 {
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358 if (data_.hasDefaultWindowing_)
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parents:
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359 {
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360 return data_.defaultWindowingWidth_;
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parents:
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361 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
362 else
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parents:
diff changeset
363 {
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parents: 949
diff changeset
364 LOG(ERROR) << "DicomInstanceParameters::GetDefaultWindowingWidth(): !data_.hasRescale_";
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365 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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parents:
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366 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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367 }
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parents:
diff changeset
368
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parents:
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369
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370 Orthanc::ImageAccessor* DicomInstanceParameters::ConvertToFloat(const Orthanc::ImageAccessor& pixelData) const
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371 {
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parents: 762
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372 std::auto_ptr<Orthanc::Image> converted(new Orthanc::Image(Orthanc::PixelFormat_Float32,
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373 pixelData.GetWidth(),
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parents: 762
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374 pixelData.GetHeight(),
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parents: 762
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375 false));
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parents: 762
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376 Orthanc::ImageProcessing::Convert(*converted, pixelData);
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parents: 762
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377
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parents: 762
diff changeset
378 // Correct rescale slope/intercept if need be
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parents: 1091
diff changeset
379 //data_.ApplyRescaleAndDoseScaling(*converted, (pixelData.GetFormat() == Orthanc::PixelFormat_Grayscale32));
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diff changeset
380 data_.ApplyRescaleAndDoseScaling(*converted, false);
768
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381
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382 return converted.release();
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parents: 762
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383 }
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parents: 762
diff changeset
384
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parents: 762
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385
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386 TextureBaseSceneLayer* DicomInstanceParameters::CreateTexture
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387 (const Orthanc::ImageAccessor& pixelData) const
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parents:
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388 {
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389 assert(sizeof(float) == 4);
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parents:
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390
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391 Orthanc::PixelFormat sourceFormat = pixelData.GetFormat();
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parents:
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392
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parents:
diff changeset
393 if (sourceFormat != GetExpectedPixelFormat())
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
394 {
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395 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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396 }
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parents:
diff changeset
397
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parents:
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398 if (sourceFormat == Orthanc::PixelFormat_RGB24)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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399 {
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parents:
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400 // This is the case of a color image. No conversion has to be done.
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parents:
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401 return new ColorTextureSceneLayer(pixelData);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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402 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
403 else
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parents:
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404 {
768
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405 // This is the case of a grayscale frame. Convert it to Float32.
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406 std::auto_ptr<FloatTextureSceneLayer> texture;
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parents:
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407
768
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parents: 762
diff changeset
408 if (pixelData.GetFormat() == Orthanc::PixelFormat_Float32)
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parents:
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409 {
768
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410 texture.reset(new FloatTextureSceneLayer(pixelData));
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parents: 762
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411 }
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parents: 762
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412 else
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parents: 762
diff changeset
413 {
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parents: 762
diff changeset
414 std::auto_ptr<Orthanc::ImageAccessor> converted(ConvertToFloat(pixelData));
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415 texture.reset(new FloatTextureSceneLayer(*converted));
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
416 }
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parents:
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417
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418 if (data_.hasDefaultWindowing_)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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419 {
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420 texture->SetCustomWindowing(data_.defaultWindowingCenter_,
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parents:
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421 data_.defaultWindowingWidth_);
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parents:
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422 }
1206
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parents: 1141
diff changeset
423
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parents: 1141
diff changeset
424
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parents: 1141
diff changeset
425 if (data_.imageInformation_.GetPhotometricInterpretation()
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parents: 1141
diff changeset
426 == Orthanc::PhotometricInterpretation_Monochrome1)
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parents: 1141
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427 {
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parents: 1141
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428 texture->SetInverted(true);
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parents: 1141
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429 }
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parents: 1141
diff changeset
430 else if (data_.imageInformation_.GetPhotometricInterpretation()
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parents: 1141
diff changeset
431 == Orthanc::PhotometricInterpretation_Monochrome2)
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parents: 1141
diff changeset
432 {
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parents: 1141
diff changeset
433 texture->SetInverted(false);
c93a6218f0cd Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents: 1141
diff changeset
434 }
c93a6218f0cd Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents: 1141
diff changeset
435
746
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
436 return texture.release();
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
437 }
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
438 }
768
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
439
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
440
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
441 LookupTableTextureSceneLayer* DicomInstanceParameters::CreateLookupTableTexture
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
442 (const Orthanc::ImageAccessor& pixelData) const
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
443 {
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
444 std::auto_ptr<FloatTextureSceneLayer> texture;
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 if (pixelData.GetFormat() == Orthanc::PixelFormat_Float32)
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
447 {
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
448 return new LookupTableTextureSceneLayer(pixelData);
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
449 }
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
450 else
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 std::auto_ptr<Orthanc::ImageAccessor> converted(ConvertToFloat(pixelData));
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
453 return new LookupTableTextureSceneLayer(*converted);
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
454 }
55411e7da2f7 LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 762
diff changeset
455 }
980
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
456
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
457
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
458 unsigned int DicomInstanceParameters::GetIndexInSeries() const
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
459 {
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
460 if (data_.hasIndexInSeries_)
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
461 {
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
462 return data_.indexInSeries_;
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 else
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 LOG(ERROR) << "DicomInstanceParameters::GetIndexInSeries(): !data_.hasIndexInSeries_";
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
467 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
468 }
8e497a4e3d96 DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 956
diff changeset
469 }
1159
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
470
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
471
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
472 double DicomInstanceParameters::Data::ApplyRescale(double value) const
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
473 {
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
474 double factor = doseGridScaling_;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
475 double offset = 0.0;
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 if (hasRescale_)
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
478 {
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
479 factor *= rescaleSlope_;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
480 offset = rescaleIntercept_;
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
481 }
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 return (value * factor + offset);
acb399643945 DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1141
diff changeset
484 }
1161
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
485
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
486
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
487 bool DicomInstanceParameters::Data::ComputeRegularSpacing(double& spacing) const
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
488 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
489 if (frameOffsets_.size() == 0) // Not a RT-DOSE
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
490 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
491 return false;
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 else if (frameOffsets_.size() == 1)
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 spacing = 1; // Edge case: RT-DOSE with one single frame
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
496 return true;
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
497 }
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
498 else
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
499 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
500 spacing = std::abs(frameOffsets_[1] - frameOffsets_[0]);
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
501
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
502 for (size_t i = 1; i + 1 < frameOffsets_.size(); i++)
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 double s = frameOffsets_[i + 1] - frameOffsets_[i];
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
505 if (!LinearAlgebra::IsNear(spacing, s, 0.001))
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
506 {
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
507 return false;
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
508 }
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
19b1c8caade4 fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1159
diff changeset
511 return true;
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 }
746
d716bfb3e07c reorganization
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
514 }