Mercurial > hg > orthanc-stone
annotate Framework/Volumes/VolumeImage.cpp @ 87:4a541cd4fa83 wasm
OrthancVolumeImageLoader
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Fri, 26 May 2017 15:31:58 +0200 |
| parents | f5f54ed8d307 |
| children | 81f73efd81a1 |
| rev | line source |
|---|---|
| 0 | 1 /** |
| 2 * Stone of Orthanc | |
| 3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
| 4 * Department, University Hospital of Liege, Belgium | |
|
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shared copyright with osimis
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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changeset
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5 * Copyright (C) 2017 Osimis, Belgium |
| 0 | 6 * |
| 7 * This program is free software: you can redistribute it and/or | |
| 47 | 8 * modify it under the terms of the GNU Affero General Public License |
| 9 * as published by the Free Software Foundation, either version 3 of | |
| 10 * the License, or (at your option) any later version. | |
| 0 | 11 * |
| 12 * This program is distributed in the hope that it will be useful, but | |
| 13 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 47 | 14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
| 15 * Affero General Public License for more details. | |
| 16 * | |
| 17 * You should have received a copy of the GNU Affero General Public License | |
| 0 | 18 * along with this program. If not, see <http://www.gnu.org/licenses/>. |
| 19 **/ | |
| 20 | |
| 21 | |
| 22 #include "VolumeImage.h" | |
| 23 | |
| 16 | 24 #include "../../Resources/Orthanc/Core/Logging.h" |
| 0 | 25 #include "../Layers/FrameRenderer.h" |
| 26 | |
| 27 namespace OrthancStone | |
| 28 { | |
| 29 void VolumeImage::StoreUpdateTime() | |
| 30 { | |
| 31 lastUpdate_ = MessagingToolbox::Timestamp(); | |
| 32 } | |
| 33 | |
| 34 | |
| 35 void VolumeImage::NotifyChange(bool force) | |
| 36 { | |
| 37 bool go = false; | |
| 38 | |
| 39 if (force) | |
| 40 { | |
| 41 go = true; | |
| 42 } | |
| 43 else | |
| 44 { | |
| 45 // Don't notify the observers more than 5 times per second | |
| 46 MessagingToolbox::Timestamp now; | |
| 47 go = (now.GetMillisecondsSince(lastUpdate_) > 200); | |
| 48 } | |
| 49 | |
| 50 if (go) | |
| 51 { | |
| 52 StoreUpdateTime(); | |
| 53 observers_.NotifyChange(this); | |
| 54 } | |
| 55 } | |
| 56 | |
| 57 | |
| 58 void VolumeImage::LoadThread(VolumeImage* that) | |
| 59 { | |
| 60 while (that->continue_) | |
| 61 { | |
| 62 bool complete = false; | |
| 63 bool done = that->policy_->DownloadStep(complete); | |
| 64 | |
| 65 if (complete) | |
| 66 { | |
| 67 that->loadingComplete_ = true; | |
| 68 } | |
| 69 | |
| 70 if (done) | |
| 71 { | |
| 72 break; | |
| 73 } | |
| 74 else | |
| 75 { | |
| 76 that->NotifyChange(false); | |
| 77 } | |
| 78 } | |
| 79 | |
| 80 that->NotifyChange(true); | |
| 81 } | |
| 82 | |
| 83 | |
| 84 VolumeImage::VolumeImage(ISeriesLoader* loader) : // Takes ownership | |
| 85 loader_(loader), | |
| 86 threads_(1), | |
| 87 started_(false), | |
| 88 continue_(false), | |
| 89 loadingComplete_(false) | |
| 90 { | |
| 91 if (loader == NULL) | |
| 92 { | |
| 93 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 94 } | |
| 95 | |
| 96 const size_t depth = loader_->GetGeometry().GetSliceCount(); | |
| 97 | |
| 98 if (depth < 2) | |
| 99 { | |
| 100 // Empty or flat series | |
| 101 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 102 } | |
| 103 | |
| 104 // TODO Check pixel spacing, slice thickness, and windowing are | |
| 105 // constant across slices | |
| 106 referenceDataset_.reset(loader->DownloadDicom(0)); | |
| 107 | |
| 108 double spacingZ; | |
| 109 | |
| 110 { | |
| 111 // Project the origin of the first and last slices onto the normal | |
| 112 const SliceGeometry& s1 = loader_->GetGeometry().GetSlice(0); | |
| 113 const SliceGeometry& s2 = loader_->GetGeometry().GetSlice(depth - 1); | |
| 114 const Vector& normal = loader_->GetGeometry().GetNormal(); | |
| 115 | |
| 116 double p1 = boost::numeric::ublas::inner_prod(s1.GetOrigin(), normal); | |
| 117 double p2 = boost::numeric::ublas::inner_prod(s2.GetOrigin(), normal); | |
| 118 | |
| 119 spacingZ = fabs(p2 - p1) / static_cast<double>(depth); | |
| 120 | |
| 121 // TODO Check that all slices are evenly distributed | |
| 122 } | |
| 123 | |
| 124 buffer_.reset(new ImageBuffer3D(loader_->GetPixelFormat(), | |
| 125 loader_->GetWidth(), | |
| 126 loader_->GetHeight(), | |
| 127 depth)); | |
| 128 buffer_->Clear(); | |
| 129 buffer_->SetAxialGeometry(loader_->GetGeometry().GetSlice(0)); | |
| 130 | |
| 131 double spacingX, spacingY; | |
| 32 | 132 GeometryToolbox::GetPixelSpacing(spacingX, spacingY, *referenceDataset_); |
| 0 | 133 buffer_->SetVoxelDimensions(spacingX, spacingY, spacingZ); |
| 134 | |
| 135 // These 3 values are only used to speed up the LayerFactory | |
| 136 axialGeometry_.reset(buffer_->GetGeometry(VolumeProjection_Axial)); | |
| 137 coronalGeometry_.reset(buffer_->GetGeometry(VolumeProjection_Coronal)); | |
| 138 sagittalGeometry_.reset(buffer_->GetGeometry(VolumeProjection_Sagittal)); | |
| 139 } | |
| 140 | |
| 141 | |
| 142 VolumeImage::~VolumeImage() | |
| 143 { | |
| 144 Stop(); | |
| 145 | |
| 146 for (size_t i = 0; i < threads_.size(); i++) | |
| 147 { | |
| 148 if (threads_[i] != NULL) | |
| 149 { | |
| 150 delete threads_[i]; | |
| 151 } | |
| 152 } | |
| 153 } | |
| 154 | |
| 155 | |
| 156 void VolumeImage::SetDownloadPolicy(IDownloadPolicy* policy) // Takes ownership | |
| 157 { | |
| 158 if (started_) | |
| 159 { | |
| 160 LOG(ERROR) << "Cannot change the number of threads after a call to Start()"; | |
| 161 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); | |
| 162 } | |
| 163 | |
| 164 policy_.reset(policy); | |
| 165 } | |
| 166 | |
| 167 | |
| 168 void VolumeImage::SetThreadCount(size_t count) | |
| 169 { | |
| 170 if (started_) | |
| 171 { | |
| 172 LOG(ERROR) << "Cannot change the number of threads after a call to Start()"; | |
| 173 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); | |
| 174 } | |
| 175 | |
| 176 if (count <= 0) | |
| 177 { | |
| 178 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 179 } | |
| 180 | |
| 181 threads_.resize(count); | |
| 182 } | |
| 183 | |
| 184 | |
| 185 void VolumeImage::Register(IChangeObserver& observer) | |
| 186 { | |
| 187 observers_.Register(observer); | |
| 188 } | |
| 189 | |
| 190 | |
| 191 void VolumeImage::Unregister(IChangeObserver& observer) | |
| 192 { | |
| 193 observers_.Unregister(observer); | |
| 194 } | |
| 195 | |
| 196 | |
| 197 void VolumeImage::Start() | |
| 198 { | |
| 199 if (started_) | |
| 200 { | |
| 201 LOG(ERROR) << "Cannot call Start() twice"; | |
| 202 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); | |
| 203 } | |
| 204 | |
| 205 started_ = true; | |
| 206 StoreUpdateTime(); | |
| 207 | |
| 208 if (policy_.get() != NULL && | |
| 209 threads_.size() > 0) | |
| 210 { | |
| 211 continue_ = true; | |
| 212 policy_->Initialize(*buffer_, *loader_); | |
| 213 | |
| 214 for (size_t i = 0; i < threads_.size(); i++) | |
| 215 { | |
| 216 assert(threads_[i] == NULL); | |
| 217 threads_[i] = new boost::thread(LoadThread, this); | |
| 218 } | |
| 219 } | |
| 220 } | |
| 221 | |
| 222 | |
| 223 void VolumeImage::Stop() | |
| 224 { | |
| 225 if (!started_) | |
| 226 { | |
| 227 LOG(ERROR) << "Cannot call Stop() without calling Start() beforehand"; | |
| 228 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); | |
| 229 } | |
| 230 | |
| 231 if (continue_) | |
| 232 { | |
| 233 continue_ = false; | |
| 234 | |
| 235 for (size_t i = 0; i < threads_.size(); i++) | |
| 236 { | |
| 237 if (threads_[i]->joinable()) | |
| 238 { | |
| 239 threads_[i]->join(); | |
| 240 } | |
| 241 } | |
| 242 | |
| 243 assert(policy_.get() != NULL); | |
| 244 policy_->Finalize(); | |
| 245 } | |
| 246 } | |
| 247 | |
| 248 | |
| 249 ParallelSlices* VolumeImage::GetGeometry(VolumeProjection projection, | |
| 250 bool reverse) | |
| 251 { | |
| 252 std::auto_ptr<ParallelSlices> slices(buffer_->GetGeometry(projection)); | |
| 253 | |
| 254 if (reverse) | |
| 255 { | |
| 256 return slices->Reverse(); | |
| 257 } | |
| 258 else | |
| 259 { | |
| 260 return slices.release(); | |
| 261 } | |
| 262 } | |
| 263 | |
| 264 | |
| 265 bool VolumeImage::DetectProjection(VolumeProjection& projection, | |
| 266 bool& reverse, | |
| 267 const SliceGeometry& viewportSlice) | |
| 268 { | |
| 269 if (GeometryToolbox::IsParallelOrOpposite(reverse, viewportSlice.GetNormal(), axialGeometry_->GetNormal())) | |
| 270 { | |
| 271 projection = VolumeProjection_Axial; | |
| 272 return true; | |
| 273 } | |
| 274 else if (GeometryToolbox::IsParallelOrOpposite(reverse, viewportSlice.GetNormal(), sagittalGeometry_->GetNormal())) | |
| 275 { | |
| 276 projection = VolumeProjection_Sagittal; | |
| 277 return true; | |
| 278 } | |
| 279 else if (GeometryToolbox::IsParallelOrOpposite(reverse, viewportSlice.GetNormal(), coronalGeometry_->GetNormal())) | |
| 280 { | |
| 281 projection = VolumeProjection_Coronal; | |
| 282 return true; | |
| 283 } | |
| 284 else | |
| 285 { | |
| 286 return false; | |
| 287 } | |
| 288 } | |
| 289 | |
| 290 | |
| 291 const ParallelSlices& VolumeImage::GetGeometryInternal(VolumeProjection projection) | |
| 292 { | |
| 293 switch (projection) | |
| 294 { | |
| 295 case VolumeProjection_Axial: | |
| 296 return *axialGeometry_; | |
| 297 | |
| 298 case VolumeProjection_Sagittal: | |
| 299 return *sagittalGeometry_; | |
| 300 | |
| 301 case VolumeProjection_Coronal: | |
| 302 return *coronalGeometry_; | |
| 303 | |
| 304 default: | |
| 305 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 306 } | |
| 307 } | |
| 308 | |
| 309 | |
| 310 bool VolumeImage::LayerFactory::GetExtent(double& x1, | |
| 311 double& y1, | |
| 312 double& x2, | |
| 313 double& y2, | |
| 314 const SliceGeometry& viewportSlice) | |
| 315 { | |
| 316 VolumeProjection projection; | |
| 317 bool reverse; | |
| 318 | |
| 319 if (that_.buffer_->GetWidth() == 0 || | |
| 320 that_.buffer_->GetHeight() == 0 || | |
| 321 that_.buffer_->GetDepth() == 0 || | |
| 322 !that_.DetectProjection(projection, reverse, viewportSlice)) | |
| 323 { | |
| 324 return false; | |
| 325 } | |
| 326 else | |
| 327 { | |
| 328 Vector spacing = that_.GetVoxelDimensions(projection); | |
| 329 | |
| 330 unsigned int width, height; | |
| 331 that_.buffer_->GetSliceSize(width, height, projection); | |
| 332 | |
| 333 // As the slices of the volumic image are arranged in a box, | |
| 334 // we only consider one single reference slice (the one with index 0). | |
| 335 const SliceGeometry& volumeSlice = that_.GetGeometryInternal(projection).GetSlice(0); | |
| 336 | |
| 337 return FrameRenderer::ComputeFrameExtent(x1, y1, x2, y2, | |
| 338 viewportSlice, volumeSlice, | |
| 339 width, height, | |
| 340 spacing[0], spacing[1]); | |
| 341 } | |
| 342 } | |
| 343 | |
| 344 | |
| 345 ILayerRenderer* VolumeImage::LayerFactory::CreateLayerRenderer(const SliceGeometry& viewportSlice) | |
| 346 { | |
| 347 VolumeProjection projection; | |
| 348 bool reverse; | |
| 349 | |
| 350 if (that_.buffer_->GetWidth() == 0 || | |
| 351 that_.buffer_->GetHeight() == 0 || | |
| 352 that_.buffer_->GetDepth() == 0 || | |
| 353 !that_.DetectProjection(projection, reverse, viewportSlice)) | |
| 354 { | |
| 355 return NULL; | |
| 356 } | |
| 357 | |
| 358 const ParallelSlices& geometry = that_.GetGeometryInternal(projection); | |
| 359 | |
| 360 size_t closest; | |
| 361 double distance; | |
| 362 | |
| 363 const Vector spacing = that_.GetVoxelDimensions(projection); | |
| 364 const double sliceThickness = spacing[2]; | |
| 365 | |
| 366 if (geometry.ComputeClosestSlice(closest, distance, viewportSlice.GetOrigin()) && | |
| 367 distance <= sliceThickness / 2.0) | |
| 368 { | |
| 369 bool isFullQuality; | |
| 370 | |
| 371 if (projection == VolumeProjection_Axial && | |
| 372 that_.policy_.get() != NULL) | |
| 373 { | |
| 374 isFullQuality = that_.policy_->IsFullQualityAxial(closest); | |
| 375 } | |
| 376 else | |
| 377 { | |
| 378 isFullQuality = that_.IsLoadingComplete(); | |
| 379 } | |
| 380 | |
| 381 std::auto_ptr<Orthanc::Image> frame; | |
| 382 SliceGeometry frameSlice = geometry.GetSlice(closest); | |
| 383 | |
| 384 { | |
| 385 ImageBuffer3D::SliceReader reader(*that_.buffer_, projection, closest); | |
| 386 frame.reset(Orthanc::Image::Clone(reader.GetAccessor())); | |
| 387 } | |
| 388 | |
| 389 return FrameRenderer::CreateRenderer(frame.release(), | |
| 390 frameSlice, | |
| 391 *that_.referenceDataset_, | |
| 392 spacing[0], spacing[1], | |
| 393 isFullQuality); | |
| 394 } | |
| 395 else | |
| 396 { | |
| 397 return NULL; | |
| 398 } | |
| 399 } | |
| 400 } |