Mercurial > hg > orthanc-stone
annotate OrthancStone/Sources/Toolbox/DicomInstanceParameters.cpp @ 1635:1a714e21ea7c
start refactoring DicomInstanceParameters
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Tue, 10 Nov 2020 16:08:44 +0100 |
parents | a4418a489e86 |
children | d1e0b08b809d |
rev | line source |
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746 | 1 /** |
2 * Stone of Orthanc | |
3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
4 * Department, University Hospital of Liege, Belgium | |
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5 * Copyright (C) 2017-2020 Osimis S.A., Belgium |
746 | 6 * |
7 * This program is free software: you can redistribute it and/or | |
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8 * modify it under the terms of the GNU Lesser General Public License |
746 | 9 * as published by the Free Software Foundation, either version 3 of |
10 * the License, or (at your option) any later version. | |
11 * | |
12 * This program is distributed in the hope that it will be useful, but | |
13 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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15 * Lesser General Public License for more details. |
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16 * |
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17 * You should have received a copy of the GNU Lesser General Public |
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18 * License along with this program. If not, see |
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19 * <http://www.gnu.org/licenses/>. |
746 | 20 **/ |
21 | |
22 | |
23 #include "DicomInstanceParameters.h" | |
24 | |
25 #include "../Scene2D/ColorTextureSceneLayer.h" | |
26 #include "../Scene2D/FloatTextureSceneLayer.h" | |
27 #include "../Toolbox/GeometryToolbox.h" | |
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28 #include "../Toolbox/ImageToolbox.h" |
746 | 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> |
746 | 35 |
36 | |
37 namespace OrthancStone | |
38 { | |
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39 void DicomInstanceParameters::Data::ExtractFrameOffsets(const Orthanc::DicomMap& dicom) |
746 | 40 { |
41 // http://dicom.nema.org/medical/Dicom/2016a/output/chtml/part03/sect_C.8.8.3.2.html | |
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)) |
746 | 46 { |
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47 Orthanc::Toolbox::ToUpperCase(increment); |
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48 |
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49 // This is the "Grid Frame Offset Vector" tag (DICOM_TAG_GRID_FRAME_OFFSET_VECTOR) |
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50 if (increment != "3004,000C") |
746 | 51 { |
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52 LOG(WARNING) << "Bad value for the FrameIncrementPointer tags in a multiframe image"; |
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53 frameOffsets_.resize(0); |
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54 return; |
746 | 55 } |
56 } | |
57 | |
58 if (!LinearAlgebra::ParseVector(frameOffsets_, dicom, Orthanc::DICOM_TAG_GRID_FRAME_OFFSET_VECTOR) || | |
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59 frameOffsets_.size() != numberOfFrames_) |
746 | 60 { |
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61 LOG(INFO) << "The frame offset information is missing in a multiframe image"; |
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62 |
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63 // DO NOT use ".clear()" here, as the "Vector" class doesn't behave like std::vector! |
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64 frameOffsets_.resize(0); |
746 | 65 } |
66 } | |
67 | |
68 | |
69 DicomInstanceParameters::Data::Data(const Orthanc::DicomMap& dicom) : | |
70 imageInformation_(dicom) | |
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)) |
746 | 75 { |
76 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
77 } | |
78 | |
79 std::string s; | |
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80 if (dicom.LookupStringValue(s, Orthanc::DICOM_TAG_SOP_CLASS_UID, false)) |
746 | 81 { |
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82 sopClassUid_ = StringToSopClassUid(s); |
746 | 83 } |
84 else | |
85 { | |
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86 sopClassUid_ = SopClassUid_Other; |
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87 } |
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88 |
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89 uint32_t n; |
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90 if (dicom.ParseUnsignedInteger32(n, Orthanc::DICOM_TAG_NUMBER_OF_FRAMES)) |
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91 { |
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92 numberOfFrames_ = n; |
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93 } |
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94 else |
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95 { |
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96 numberOfFrames_ = 1; |
746 | 97 } |
98 | |
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99 if (!dicom.HasTag(Orthanc::DICOM_TAG_COLUMNS) || |
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100 !dicom.GetValue(Orthanc::DICOM_TAG_COLUMNS).ParseFirstUnsignedInteger(width_)) |
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101 { |
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102 width_ = 0; |
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103 } |
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104 |
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105 if (!dicom.HasTag(Orthanc::DICOM_TAG_ROWS) || |
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106 !dicom.GetValue(Orthanc::DICOM_TAG_ROWS).ParseFirstUnsignedInteger(height_)) |
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107 { |
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108 height_ = 0; |
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109 } |
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110 |
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111 if (!dicom.ParseDouble(sliceThickness_, Orthanc::DICOM_TAG_SLICE_THICKNESS)) |
746 | 112 { |
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113 sliceThickness_ = 100.0 * std::numeric_limits<double>::epsilon(); |
746 | 114 } |
115 | |
116 GeometryToolbox::GetPixelSpacing(pixelSpacingX_, pixelSpacingY_, dicom); | |
117 | |
118 std::string position, orientation; | |
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119 if (dicom.LookupStringValue(position, Orthanc::DICOM_TAG_IMAGE_POSITION_PATIENT, false) && |
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120 dicom.LookupStringValue(orientation, Orthanc::DICOM_TAG_IMAGE_ORIENTATION_PATIENT, false)) |
746 | 121 { |
122 geometry_ = CoordinateSystem3D(position, orientation); | |
123 } | |
124 | |
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125 // Must be AFTER setting "numberOfFrames_" |
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126 ExtractFrameOffsets(dicom); |
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127 |
746 | 128 if (sopClassUid_ == SopClassUid_RTDose) |
129 { | |
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130 static const Orthanc::DicomTag DICOM_TAG_DOSE_UNITS(0x3004, 0x0002); |
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131 |
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132 if (!dicom.LookupStringValue(doseUnits_, DICOM_TAG_DOSE_UNITS, false)) |
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133 { |
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134 LOG(ERROR) << "Tag DoseUnits (0x3004, 0x0002) is missing in " << sopInstanceUid_; |
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135 doseUnits_.clear(); |
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136 } |
746 | 137 } |
138 | |
139 isColor_ = (imageInformation_.GetPhotometricInterpretation() != Orthanc::PhotometricInterpretation_Monochrome1 && | |
140 imageInformation_.GetPhotometricInterpretation() != Orthanc::PhotometricInterpretation_Monochrome2); | |
141 | |
142 if (dicom.ParseDouble(rescaleIntercept_, Orthanc::DICOM_TAG_RESCALE_INTERCEPT) && | |
143 dicom.ParseDouble(rescaleSlope_, Orthanc::DICOM_TAG_RESCALE_SLOPE)) | |
144 { | |
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145 if (sopClassUid_ == SopClassUid_RTDose) |
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146 { |
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147 LOG(INFO) << "DOSE HAS Rescale*: rescaleIntercept_ = " << rescaleIntercept_ << " rescaleSlope_ = " << rescaleSlope_; |
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148 // WE SHOULD NOT TAKE THE RESCALE VALUE INTO ACCOUNT IN THE CASE OF DOSES |
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149 hasRescale_ = false; |
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150 } |
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151 else |
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152 { |
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153 hasRescale_ = true; |
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154 } |
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155 |
746 | 156 } |
157 else | |
158 { | |
159 hasRescale_ = false; | |
160 } | |
161 | |
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162 if (dicom.ParseDouble(doseGridScaling_, Orthanc::DICOM_TAG_DOSE_GRID_SCALING)) |
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163 { |
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164 if (sopClassUid_ == SopClassUid_RTDose) |
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165 { |
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166 LOG(INFO) << "DOSE HAS DoseGridScaling: doseGridScaling_ = " << doseGridScaling_; |
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167 } |
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168 } |
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169 else |
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170 { |
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171 doseGridScaling_ = 1.0; |
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172 if (sopClassUid_ == SopClassUid_RTDose) |
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173 { |
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174 LOG(ERROR) << "Tag DoseGridScaling (0x3004, 0x000e) is missing in " << sopInstanceUid_ << " doseGridScaling_ will be set to 1.0"; |
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175 } |
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176 } |
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177 |
746 | 178 Vector c, w; |
179 if (LinearAlgebra::ParseVector(c, dicom, Orthanc::DICOM_TAG_WINDOW_CENTER) && | |
180 LinearAlgebra::ParseVector(w, dicom, Orthanc::DICOM_TAG_WINDOW_WIDTH) && | |
181 c.size() > 0 && | |
182 w.size() > 0) | |
183 { | |
184 hasDefaultWindowing_ = true; | |
185 defaultWindowingCenter_ = static_cast<float>(c[0]); | |
186 defaultWindowingWidth_ = static_cast<float>(w[0]); | |
187 } | |
188 else | |
189 { | |
190 hasDefaultWindowing_ = false; | |
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191 defaultWindowingCenter_ = 0; |
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192 defaultWindowingWidth_ = 0; |
746 | 193 } |
194 | |
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195 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale16; // Rough guess |
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196 |
746 | 197 if (sopClassUid_ == SopClassUid_RTDose) |
198 { | |
199 switch (imageInformation_.GetBitsStored()) | |
200 { | |
201 case 16: | |
202 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale16; | |
203 break; | |
204 | |
205 case 32: | |
206 expectedPixelFormat_ = Orthanc::PixelFormat_Grayscale32; | |
207 break; | |
208 | |
209 default: | |
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210 break; |
746 | 211 } |
212 } | |
213 else if (isColor_) | |
214 { | |
215 expectedPixelFormat_ = Orthanc::PixelFormat_RGB24; | |
216 } | |
217 else if (imageInformation_.IsSigned()) | |
218 { | |
219 expectedPixelFormat_ = Orthanc::PixelFormat_SignedGrayscale16; | |
220 } | |
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221 |
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222 // This computes the "IndexInSeries" metadata from Orthanc (check |
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223 // out "Orthanc::ServerIndex::Store()") |
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224 hasIndexInSeries_ = ( |
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225 dicom.ParseUnsignedInteger32(indexInSeries_, Orthanc::DICOM_TAG_INSTANCE_NUMBER) || |
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226 dicom.ParseUnsignedInteger32(indexInSeries_, Orthanc::DICOM_TAG_IMAGE_INDEX)); |
746 | 227 } |
228 | |
229 | |
230 CoordinateSystem3D DicomInstanceParameters::Data::GetFrameGeometry(unsigned int frame) const | |
231 { | |
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232 if (frame >= numberOfFrames_) |
746 | 233 { |
234 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
235 } | |
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236 else if (frameOffsets_.empty()) |
746 | 237 { |
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238 return geometry_; |
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239 } |
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240 else |
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241 { |
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242 assert(frameOffsets_.size() == numberOfFrames_); |
746 | 243 |
244 return CoordinateSystem3D( | |
245 geometry_.GetOrigin() + frameOffsets_[frame] * geometry_.GetNormal(), | |
246 geometry_.GetAxisX(), | |
247 geometry_.GetAxisY()); | |
248 } | |
249 } | |
250 | |
251 | |
252 bool DicomInstanceParameters::Data::IsPlaneWithinSlice(unsigned int frame, | |
253 const CoordinateSystem3D& plane) const | |
254 { | |
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255 if (frame >= numberOfFrames_) |
746 | 256 { |
257 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
258 } | |
259 | |
260 CoordinateSystem3D tmp = geometry_; | |
261 | |
262 if (frame != 0) | |
263 { | |
264 tmp = GetFrameGeometry(frame); | |
265 } | |
266 | |
267 double distance; | |
268 | |
757 | 269 return (CoordinateSystem3D::ComputeDistance(distance, tmp, plane) && |
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270 distance <= sliceThickness_ / 2.0); |
746 | 271 } |
272 | |
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273 void DicomInstanceParameters::Data::ApplyRescaleAndDoseScaling(Orthanc::ImageAccessor& image, |
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274 bool useDouble) const |
746 | 275 { |
276 if (image.GetFormat() != Orthanc::PixelFormat_Float32) | |
277 { | |
278 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat); | |
279 } | |
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280 |
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281 double factor = doseGridScaling_; |
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282 double offset = 0.0; |
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283 |
746 | 284 if (hasRescale_) |
285 { | |
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286 factor *= rescaleSlope_; |
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287 offset = rescaleIntercept_; |
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288 } |
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289 |
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290 if (!LinearAlgebra::IsNear(factor, 1) || |
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291 !LinearAlgebra::IsNear(offset, 0)) |
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292 { |
746 | 293 const unsigned int width = image.GetWidth(); |
294 const unsigned int height = image.GetHeight(); | |
295 | |
296 for (unsigned int y = 0; y < height; y++) | |
297 { | |
298 float* p = reinterpret_cast<float*>(image.GetRow(y)); | |
299 | |
300 if (useDouble) | |
301 { | |
302 // Slower, accurate implementation using double | |
303 for (unsigned int x = 0; x < width; x++, p++) | |
304 { | |
305 double value = static_cast<double>(*p); | |
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306 *p = static_cast<float>(value * factor + offset); |
746 | 307 } |
308 } | |
309 else | |
310 { | |
311 // Fast, approximate implementation using float | |
312 for (unsigned int x = 0; x < width; x++, p++) | |
313 { | |
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314 *p = (*p) * static_cast<float>(factor) + static_cast<float>(offset); |
746 | 315 } |
316 } | |
317 } | |
318 } | |
319 } | |
320 | |
321 double DicomInstanceParameters::GetRescaleIntercept() const | |
322 { | |
323 if (data_.hasRescale_) | |
324 { | |
325 return data_.rescaleIntercept_; | |
326 } | |
327 else | |
328 { | |
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329 LOG(ERROR) << "DicomInstanceParameters::GetRescaleIntercept(): !data_.hasRescale_"; |
746 | 330 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
331 } | |
332 } | |
333 | |
334 | |
335 double DicomInstanceParameters::GetRescaleSlope() const | |
336 { | |
337 if (data_.hasRescale_) | |
338 { | |
339 return data_.rescaleSlope_; | |
340 } | |
341 else | |
342 { | |
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343 LOG(ERROR) << "DicomInstanceParameters::GetRescaleSlope(): !data_.hasRescale_"; |
746 | 344 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
345 } | |
346 } | |
347 | |
348 | |
349 float DicomInstanceParameters::GetDefaultWindowingCenter() const | |
350 { | |
351 if (data_.hasDefaultWindowing_) | |
352 { | |
353 return data_.defaultWindowingCenter_; | |
354 } | |
355 else | |
356 { | |
1481 | 357 LOG(ERROR) << "DicomInstanceParameters::GetDefaultWindowingCenter(): no default windowing"; |
746 | 358 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
359 } | |
360 } | |
361 | |
362 | |
363 float DicomInstanceParameters::GetDefaultWindowingWidth() const | |
364 { | |
365 if (data_.hasDefaultWindowing_) | |
366 { | |
367 return data_.defaultWindowingWidth_; | |
368 } | |
369 else | |
370 { | |
1481 | 371 LOG(ERROR) << "DicomInstanceParameters::GetDefaultWindowingWidth(): no default windowing"; |
746 | 372 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
373 } | |
374 } | |
375 | |
376 | |
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377 Orthanc::ImageAccessor* DicomInstanceParameters::ConvertToFloat(const Orthanc::ImageAccessor& pixelData) const |
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378 { |
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379 std::unique_ptr<Orthanc::Image> converted(new Orthanc::Image(Orthanc::PixelFormat_Float32, |
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380 pixelData.GetWidth(), |
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381 pixelData.GetHeight(), |
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382 false)); |
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383 Orthanc::ImageProcessing::Convert(*converted, pixelData); |
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384 |
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385 |
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386 // Correct rescale slope/intercept if need be |
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387 //data_.ApplyRescaleAndDoseScaling(*converted, (pixelData.GetFormat() == Orthanc::PixelFormat_Grayscale32)); |
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388 data_.ApplyRescaleAndDoseScaling(*converted, false); |
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389 |
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390 return converted.release(); |
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391 } |
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392 |
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393 |
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394 TextureBaseSceneLayer* DicomInstanceParameters::CreateTexture |
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395 (const Orthanc::ImageAccessor& pixelData) const |
746 | 396 { |
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397 // { |
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398 // const Orthanc::ImageAccessor& source = pixelData; |
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399 // const void* sourceBuffer = source.GetConstBuffer(); |
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400 // intptr_t sourceBufferInt = reinterpret_cast<intptr_t>(sourceBuffer); |
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401 // int sourceWidth = source.GetWidth(); |
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402 // int sourceHeight = source.GetHeight(); |
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403 // int sourcePitch = source.GetPitch(); |
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404 |
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405 // // TODO: turn error into trace below |
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406 // LOG(ERROR) << "ConvertGrayscaleToFloat | source:" |
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407 // << " W = " << sourceWidth << " H = " << sourceHeight |
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408 // << " P = " << sourcePitch << " B = " << sourceBufferInt |
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409 // << " B % 4 == " << sourceBufferInt % 4; |
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410 // } |
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411 |
746 | 412 assert(sizeof(float) == 4); |
413 | |
414 Orthanc::PixelFormat sourceFormat = pixelData.GetFormat(); | |
415 | |
416 if (sourceFormat != GetExpectedPixelFormat()) | |
417 { | |
418 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat); | |
419 } | |
420 | |
421 if (sourceFormat == Orthanc::PixelFormat_RGB24) | |
422 { | |
423 // This is the case of a color image. No conversion has to be done. | |
424 return new ColorTextureSceneLayer(pixelData); | |
425 } | |
426 else | |
427 { | |
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428 // This is the case of a grayscale frame. Convert it to Float32. |
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1291
diff
changeset
|
429 std::unique_ptr<FloatTextureSceneLayer> texture; |
746 | 430 |
768
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
431 if (pixelData.GetFormat() == Orthanc::PixelFormat_Float32) |
746 | 432 { |
768
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
433 texture.reset(new FloatTextureSceneLayer(pixelData)); |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
434 } |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
435 else |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
436 { |
1298
8a0a62189f46
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1291
diff
changeset
|
437 std::unique_ptr<Orthanc::ImageAccessor> converted(ConvertToFloat(pixelData)); |
746 | 438 texture.reset(new FloatTextureSceneLayer(*converted)); |
439 } | |
440 | |
441 if (data_.hasDefaultWindowing_) | |
442 { | |
443 texture->SetCustomWindowing(data_.defaultWindowingCenter_, | |
444 data_.defaultWindowingWidth_); | |
445 } | |
1206
c93a6218f0cd
Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents:
1141
diff
changeset
|
446 |
1634
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
447 switch (data_.imageInformation_.GetPhotometricInterpretation()) |
1206
c93a6218f0cd
Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents:
1141
diff
changeset
|
448 { |
1634
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
449 case Orthanc::PhotometricInterpretation_Monochrome1: |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
450 texture->SetInverted(true); |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
451 break; |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
452 |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
453 case Orthanc::PhotometricInterpretation_Monochrome2: |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
454 texture->SetInverted(false); |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
455 break; |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
456 |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
457 default: |
a4418a489e86
improving robustness of DicomInstanceParameters
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1598
diff
changeset
|
458 break; |
1206
c93a6218f0cd
Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents:
1141
diff
changeset
|
459 } |
c93a6218f0cd
Fixed photometric interpretation in texture creation
Benjamin Golinvaux <bgo@osimis.io>
parents:
1141
diff
changeset
|
460 |
746 | 461 return texture.release(); |
462 } | |
463 } | |
768
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
464 |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
465 |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
466 LookupTableTextureSceneLayer* DicomInstanceParameters::CreateLookupTableTexture |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
467 (const Orthanc::ImageAccessor& pixelData) const |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
468 { |
1298
8a0a62189f46
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1291
diff
changeset
|
469 std::unique_ptr<FloatTextureSceneLayer> texture; |
768
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
470 |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
471 if (pixelData.GetFormat() == Orthanc::PixelFormat_Float32) |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
472 { |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
473 return new LookupTableTextureSceneLayer(pixelData); |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
474 } |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
475 else |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
476 { |
1298
8a0a62189f46
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1291
diff
changeset
|
477 std::unique_ptr<Orthanc::ImageAccessor> converted(ConvertToFloat(pixelData)); |
768
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
478 return new LookupTableTextureSceneLayer(*converted); |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
479 } |
55411e7da2f7
LookupTableTextureSceneLayer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
762
diff
changeset
|
480 } |
980
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
481 |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
482 |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
483 unsigned int DicomInstanceParameters::GetIndexInSeries() const |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
484 { |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
485 if (data_.hasIndexInSeries_) |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
486 { |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
487 return data_.indexInSeries_; |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
488 } |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
489 else |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
490 { |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
491 LOG(ERROR) << "DicomInstanceParameters::GetIndexInSeries(): !data_.hasIndexInSeries_"; |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
492 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
493 } |
8e497a4e3d96
DicomInstanceParameters::GetIndexInSeries()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
956
diff
changeset
|
494 } |
1159
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
495 |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
496 |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
497 double DicomInstanceParameters::Data::ApplyRescale(double value) const |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
498 { |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
499 double factor = doseGridScaling_; |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
500 double offset = 0.0; |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
501 |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
502 if (hasRescale_) |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
503 { |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
504 factor *= rescaleSlope_; |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
505 offset = rescaleIntercept_; |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
506 } |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
507 |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
508 return (value * factor + offset); |
acb399643945
DicomInstanceParameters::ApplyRescale()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1141
diff
changeset
|
509 } |
1161
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 |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
512 bool DicomInstanceParameters::Data::ComputeRegularSpacing(double& spacing) const |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
513 { |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
514 if (frameOffsets_.size() == 0) // Not a RT-DOSE |
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 return false; |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
517 } |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
518 else if (frameOffsets_.size() == 1) |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
519 { |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
520 spacing = 1; // Edge case: RT-DOSE with one single frame |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
521 return true; |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
522 } |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
523 else |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
524 { |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
525 spacing = std::abs(frameOffsets_[1] - frameOffsets_[0]); |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
526 |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
527 for (size_t i = 1; i + 1 < frameOffsets_.size(); i++) |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
528 { |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
529 double s = frameOffsets_[i + 1] - frameOffsets_[i]; |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
530 if (!LinearAlgebra::IsNear(spacing, s, 0.001)) |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
531 { |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
532 return false; |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
533 } |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
534 } |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
535 |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
536 return true; |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
537 } |
19b1c8caade4
fix sagittal geometry
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1159
diff
changeset
|
538 } |
746 | 539 } |