Mercurial > hg > orthanc-wsi
annotate ViewerPlugin/Plugin.cpp @ 19:9e40b0e8c27f
missing file
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 27 Oct 2016 11:23:31 +0200 |
| parents | 7a88c614be04 |
| children | 91fc9583b2de |
| rev | line source |
|---|---|
| 0 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
| 4 * Department, University Hospital of Liege, Belgium | |
| 5 * | |
| 6 * This program is free software: you can redistribute it and/or | |
| 7 * modify it under the terms of the GNU Affero General Public License | |
| 8 * as published by the Free Software Foundation, either version 3 of | |
| 9 * the License, or (at your option) any later version. | |
| 10 * | |
| 11 * This program is distributed in the hope that it will be useful, but | |
| 12 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 14 * Affero General Public License for more details. | |
| 15 * | |
| 16 * You should have received a copy of the GNU Affero General Public License | |
| 17 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 18 **/ | |
| 19 | |
| 20 | |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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21 #include "../Framework/PrecompiledHeadersWSI.h" |
| 0 | 22 #include "../Framework/Inputs/DicomPyramid.h" |
| 23 #include "../Framework/Jpeg2000Reader.h" | |
| 24 #include "../Framework/Messaging/PluginOrthancConnection.h" | |
| 25 #include "../Framework/Orthanc/Core/Images/PngWriter.h" | |
| 26 #include "../Framework/Orthanc/Core/MultiThreading/Semaphore.h" | |
| 27 #include "../Framework/Orthanc/Core/OrthancException.h" | |
| 28 #include "../Framework/Orthanc/Plugins/Samples/Common/OrthancPluginCppWrapper.h" | |
| 29 | |
| 30 #include <EmbeddedResources.h> | |
| 31 | |
| 32 #include <cassert> | |
| 33 | |
| 34 | |
| 35 | |
| 36 namespace OrthancWSI | |
| 37 { | |
| 38 // TODO Add LRU recycling policy | |
| 39 class DicomPyramidCache : public boost::noncopyable | |
| 40 { | |
| 41 private: | |
| 42 boost::mutex mutex_; | |
| 43 IOrthancConnection& orthanc_; | |
| 44 std::auto_ptr<DicomPyramid> pyramid_; | |
| 45 | |
| 46 DicomPyramid& GetPyramid(const std::string& seriesId) | |
| 47 { | |
| 48 // Mutex is assumed to be locked | |
| 49 | |
| 50 if (pyramid_.get() == NULL || | |
| 51 pyramid_->GetSeriesId() != seriesId) | |
| 52 { | |
| 53 pyramid_.reset(new DicomPyramid(orthanc_, seriesId)); | |
| 54 } | |
| 55 | |
| 56 if (pyramid_.get() == NULL) | |
| 57 { | |
| 58 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 59 } | |
| 60 | |
| 61 return *pyramid_; | |
| 62 } | |
| 63 | |
| 64 public: | |
| 65 DicomPyramidCache(IOrthancConnection& orthanc) : | |
| 66 orthanc_(orthanc) | |
| 67 { | |
| 68 } | |
| 69 | |
| 70 void Invalidate(const std::string& seriesId) | |
| 71 { | |
| 72 boost::mutex::scoped_lock lock(mutex_); | |
| 73 | |
| 74 if (pyramid_.get() != NULL && | |
| 75 pyramid_->GetSeriesId() == seriesId) | |
| 76 { | |
| 77 pyramid_.reset(NULL); | |
| 78 } | |
| 79 } | |
| 80 | |
| 81 class Locker : public boost::noncopyable | |
| 82 { | |
| 83 private: | |
| 84 boost::mutex::scoped_lock lock_; | |
| 85 DicomPyramid& pyramid_; | |
| 86 | |
| 87 public: | |
| 88 Locker(DicomPyramidCache& cache, | |
| 89 const std::string& seriesId) : | |
| 90 lock_(cache.mutex_), | |
| 91 pyramid_(cache.GetPyramid(seriesId)) | |
| 92 { | |
| 93 } | |
| 94 | |
| 95 DicomPyramid& GetPyramid() const | |
| 96 { | |
| 97 return pyramid_; | |
| 98 } | |
| 99 }; | |
| 100 }; | |
| 101 } | |
| 102 | |
| 103 | |
| 104 OrthancPluginContext* context_ = NULL; | |
| 105 | |
| 106 std::auto_ptr<OrthancWSI::PluginOrthancConnection> orthanc_; | |
| 107 std::auto_ptr<OrthancWSI::DicomPyramidCache> cache_; | |
| 108 std::auto_ptr<Orthanc::Semaphore> transcoderSemaphore_; | |
| 109 | |
| 110 | |
| 111 static bool DisplayPerformanceWarning() | |
| 112 { | |
| 113 (void) DisplayPerformanceWarning; // Disable warning about unused function | |
| 114 OrthancPluginLogWarning(context_, "Performance warning in whole-slide imaging: " | |
| 115 "Non-release build, runtime debug assertions are turned on"); | |
| 116 return true; | |
| 117 } | |
| 118 | |
| 119 | |
| 120 void ServePyramid(OrthancPluginRestOutput* output, | |
| 121 const char* url, | |
| 122 const OrthancPluginHttpRequest* request) | |
| 123 { | |
| 124 std::string seriesId(request->groups[0]); | |
| 125 | |
| 126 char tmp[1024]; | |
| 127 sprintf(tmp, "Accessing whole-slide pyramid of series %s", seriesId.c_str()); | |
| 128 OrthancPluginLogInfo(context_, tmp); | |
| 129 | |
| 130 | |
| 131 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 132 | |
| 133 unsigned int totalWidth = locker.GetPyramid().GetLevelWidth(0); | |
| 134 unsigned int totalHeight = locker.GetPyramid().GetLevelHeight(0); | |
| 135 | |
| 136 Json::Value resolutions = Json::arrayValue; | |
| 137 for (unsigned int i = 0; i < locker.GetPyramid().GetLevelCount(); i++) | |
| 138 { | |
| 139 resolutions.append(static_cast<float>(totalWidth) / | |
| 140 static_cast<float>(locker.GetPyramid().GetLevelWidth(i))); | |
| 141 } | |
| 142 | |
| 143 Json::Value result; | |
| 144 result["ID"] = seriesId; | |
| 145 result["TotalWidth"] = totalWidth; | |
| 146 result["TotalHeight"] = totalHeight; | |
| 147 result["TileWidth"] = locker.GetPyramid().GetTileWidth(); | |
| 148 result["TileHeight"] = locker.GetPyramid().GetTileHeight(); | |
| 149 result["Resolutions"] = resolutions; | |
| 150 | |
| 151 std::string s = result.toStyledString(); | |
| 152 OrthancPluginAnswerBuffer(context_, output, s.c_str(), s.size(), "application/json"); | |
| 153 } | |
| 154 | |
| 155 | |
| 156 void ServeTile(OrthancPluginRestOutput* output, | |
| 157 const char* url, | |
| 158 const OrthancPluginHttpRequest* request) | |
| 159 { | |
| 160 std::string seriesId(request->groups[0]); | |
| 161 int level = boost::lexical_cast<int>(request->groups[1]); | |
| 162 int tileY = boost::lexical_cast<int>(request->groups[3]); | |
| 163 int tileX = boost::lexical_cast<int>(request->groups[2]); | |
| 164 | |
| 165 char tmp[1024]; | |
| 166 sprintf(tmp, "Accessing tile in series %s: (%d,%d) at level %d", seriesId.c_str(), tileX, tileY, level); | |
| 167 OrthancPluginLogInfo(context_, tmp); | |
| 168 | |
| 169 if (level < 0 || | |
| 170 tileX < 0 || | |
| 171 tileY < 0) | |
| 172 { | |
| 173 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 174 } | |
| 175 | |
| 176 // Retrieve the raw tile from the WSI pyramid | |
| 177 OrthancWSI::ImageCompression compression; | |
| 178 Orthanc::PixelFormat format; | |
| 179 std::string tile; | |
| 180 unsigned int tileWidth, tileHeight; | |
| 181 | |
| 182 { | |
| 183 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 184 | |
| 185 compression = locker.GetPyramid().GetImageCompression(); | |
| 186 format = locker.GetPyramid().GetPixelFormat(); | |
| 187 tileWidth = locker.GetPyramid().GetTileWidth(); | |
| 188 tileHeight = locker.GetPyramid().GetTileHeight(); | |
| 189 | |
| 190 if (!locker.GetPyramid().ReadRawTile(tile, | |
| 191 static_cast<unsigned int>(level), | |
| 192 static_cast<unsigned int>(tileX), | |
| 193 static_cast<unsigned int>(tileY))) | |
| 194 { | |
| 195 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 196 } | |
| 197 } | |
| 198 | |
| 199 | |
| 200 // Test whether the tile is a JPEG image. In such a case, we can | |
| 201 // serve it as such, because any Web browser can handle JPEG | |
| 202 | |
| 203 if (compression == OrthancWSI::ImageCompression_Jpeg) | |
| 204 { | |
| 205 OrthancPluginAnswerBuffer(context_, output, tile.c_str(), tile.size(), "image/jpeg"); | |
| 206 return; // We're done | |
| 207 } | |
| 208 | |
| 209 | |
| 210 // The tile does not come from a DICOM-JPEG instance, we need to | |
| 211 // decompress the raw tile | |
| 212 std::auto_ptr<Orthanc::ImageAccessor> decoded; | |
| 213 | |
| 214 Orthanc::Semaphore::Locker locker(*transcoderSemaphore_); | |
| 215 | |
| 216 switch (compression) | |
| 217 { | |
| 218 case OrthancWSI::ImageCompression_Jpeg2000: | |
| 219 decoded.reset(new OrthancWSI::Jpeg2000Reader); | |
| 220 dynamic_cast<OrthancWSI::Jpeg2000Reader&>(*decoded).ReadFromMemory(tile); | |
| 221 break; | |
| 222 | |
| 223 case OrthancWSI::ImageCompression_None: | |
| 224 { | |
| 225 unsigned int bpp = Orthanc::GetBytesPerPixel(format); | |
| 226 if (bpp * tileWidth * tileHeight != tile.size()) | |
| 227 { | |
| 228 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 229 } | |
| 230 | |
| 231 decoded.reset(new Orthanc::ImageAccessor); | |
| 232 decoded->AssignReadOnly(format, tileWidth, tileHeight, bpp * tileWidth, tile.c_str()); | |
| 233 break; | |
| 234 } | |
| 235 | |
| 236 default: | |
| 237 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); | |
| 238 } | |
| 239 | |
| 240 | |
| 241 // This is a lossless frame (coming from a JPEG2000 or uncompressed | |
| 242 // DICOM instance), serve it as a PNG image so as to prevent lossy | |
| 243 // compression | |
| 244 | |
| 245 std::string png; | |
| 246 Orthanc::PngWriter writer; | |
| 247 writer.WriteToMemory(png, *decoded); | |
| 248 | |
| 249 OrthancPluginAnswerBuffer(context_, output, png.c_str(), png.size(), "image/png"); | |
| 250 } | |
| 251 | |
| 252 | |
| 253 OrthancPluginErrorCode OnChangeCallback(OrthancPluginChangeType changeType, | |
| 254 OrthancPluginResourceType resourceType, | |
| 255 const char *resourceId) | |
| 256 { | |
| 257 if (resourceType == OrthancPluginResourceType_Series && | |
| 258 changeType == OrthancPluginChangeType_NewChildInstance) | |
| 259 { | |
| 260 char tmp[1024]; | |
| 261 sprintf(tmp, "New instance has been added to series %s, invalidating it", resourceId); | |
| 262 OrthancPluginLogInfo(context_, tmp); | |
| 263 | |
| 264 cache_->Invalidate(resourceId); | |
| 265 } | |
| 266 | |
| 267 return OrthancPluginErrorCode_Success; | |
| 268 } | |
| 269 | |
| 270 | |
| 271 | |
| 272 void ServeFile(OrthancPluginRestOutput* output, | |
| 273 const char* url, | |
| 274 const OrthancPluginHttpRequest* request) | |
| 275 { | |
| 276 Orthanc::EmbeddedResources::FileResourceId resource; | |
| 277 | |
| 278 std::string f(request->groups[0]); | |
| 279 std::string mime; | |
| 280 | |
| 281 if (f == "viewer.html") | |
| 282 { | |
| 283 resource = Orthanc::EmbeddedResources::VIEWER_HTML; | |
| 284 mime = "text/html"; | |
| 285 } | |
| 286 else if (f == "viewer.js") | |
| 287 { | |
| 288 resource = Orthanc::EmbeddedResources::VIEWER_JS; | |
| 289 mime = "application/javascript"; | |
| 290 } | |
| 291 else if (f == "ol.js") | |
| 292 { | |
| 293 resource = Orthanc::EmbeddedResources::OPENLAYERS_JS; | |
| 294 mime = "application/javascript"; | |
| 295 } | |
| 296 else if (f == "ol.css") | |
| 297 { | |
| 298 resource = Orthanc::EmbeddedResources::OPENLAYERS_CSS; | |
| 299 mime = "text/css"; | |
| 300 } | |
| 301 else | |
| 302 { | |
| 303 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 304 } | |
| 305 | |
| 306 std::string content; | |
| 307 Orthanc::EmbeddedResources::GetFileResource(content, resource); | |
| 308 | |
| 309 OrthancPluginAnswerBuffer(context_, output, content.c_str(), content.size(), mime.c_str()); | |
| 310 } | |
| 311 | |
| 312 | |
| 313 | |
| 314 extern "C" | |
| 315 { | |
| 316 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* context) | |
| 317 { | |
| 318 context_ = context; | |
| 319 assert(DisplayPerformanceWarning()); | |
| 320 | |
| 321 /* Check the version of the Orthanc core */ | |
| 322 if (OrthancPluginCheckVersion(context_) == 0) | |
| 323 { | |
| 324 char info[1024]; | |
| 325 sprintf(info, "Your version of Orthanc (%s) must be above %d.%d.%d to run this plugin", | |
| 326 context_->orthancVersion, | |
| 327 ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER, | |
| 328 ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER, | |
| 329 ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER); | |
| 330 OrthancPluginLogError(context_, info); | |
| 331 return -1; | |
| 332 } | |
| 333 | |
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334 if (!OrthancPlugins::CheckMinimalOrthancVersion(context_, 1, 1, 0)) |
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335 { |
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336 // We need the "/instances/.../frames/.../raw" URI that was introduced in Orthanc 1.1.0 |
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337 return -1; |
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338 } |
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339 |
| 0 | 340 // Limit the number of PNG transcoders to the number of available |
| 341 // hardware threads (e.g. number of CPUs or cores or | |
| 342 // hyperthreading units) | |
| 343 unsigned int threads = boost::thread::hardware_concurrency(); | |
| 344 | |
| 345 if (threads <= 0) | |
| 346 { | |
| 347 threads = 1; | |
| 348 } | |
| 349 | |
| 350 transcoderSemaphore_.reset(new Orthanc::Semaphore(threads)); | |
| 351 | |
| 352 char info[1024]; | |
| 353 sprintf(info, "The whole-slide imaging plugin will use at most %d threads to transcode the tiles", threads); | |
| 354 OrthancPluginLogWarning(context_, info); | |
| 355 | |
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356 OrthancPluginSetDescription(context, "Provides a Web viewer of whole-slide microscopic images within Orthanc."); |
| 0 | 357 |
| 358 orthanc_.reset(new OrthancWSI::PluginOrthancConnection(context)); | |
| 359 cache_.reset(new OrthancWSI::DicomPyramidCache(*orthanc_)); | |
| 360 | |
| 361 OrthancPluginRegisterOnChangeCallback(context_, OnChangeCallback); | |
| 362 | |
| 363 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(ol.css)", true); | |
| 364 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(ol.js)", true); | |
| 365 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(viewer.html)", true); | |
| 366 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(viewer.js)", true); | |
| 367 OrthancPlugins::RegisterRestCallback<ServePyramid>(context, "/wsi/pyramids/([0-9a-f-]+)", true); | |
| 368 OrthancPlugins::RegisterRestCallback<ServeTile>(context, "/wsi/tiles/([0-9a-f-]+)/([0-9-]+)/([0-9-]+)/([0-9-]+)", true); | |
| 369 | |
| 370 // Extend the default Orthanc Explorer with custom JavaScript for WSI | |
| 371 std::string explorer; | |
| 372 Orthanc::EmbeddedResources::GetFileResource(explorer, Orthanc::EmbeddedResources::ORTHANC_EXPLORER); | |
| 373 OrthancPluginExtendOrthancExplorer(context_, explorer.c_str()); | |
| 374 | |
| 375 return 0; | |
| 376 } | |
| 377 | |
| 378 | |
| 379 ORTHANC_PLUGINS_API void OrthancPluginFinalize() | |
| 380 { | |
| 381 cache_.reset(NULL); | |
| 382 orthanc_.reset(NULL); | |
| 383 transcoderSemaphore_.reset(NULL); | |
| 384 } | |
| 385 | |
| 386 | |
| 387 ORTHANC_PLUGINS_API const char* OrthancPluginGetName() | |
| 388 { | |
| 389 return "wsi"; | |
| 390 } | |
| 391 | |
| 392 | |
| 393 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion() | |
| 394 { | |
| 395 return ORTHANC_WSI_VERSION; | |
| 396 } | |
| 397 } |