Mercurial > hg > orthanc-wsi
annotate ViewerPlugin/Plugin.cpp @ 154:32a94bbb7d05
merge
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Mon, 08 Oct 2018 12:12:39 +0200 |
| parents | b798d200ac90 fb8d4cd2f618 |
| children | 1304498491e4 |
| 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 | |
|
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5 * Copyright (C) 2017-2018 Osimis S.A., Belgium |
| 0 | 6 * |
| 7 * This program is free software: you can redistribute it and/or | |
| 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. | |
| 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 | |
| 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 | |
| 18 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 19 **/ | |
| 20 | |
| 21 | |
|
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22 #include "../Framework/PrecompiledHeadersWSI.h" |
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23 |
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24 #include "DicomPyramidCache.h" |
| 0 | 25 #include "../Framework/Jpeg2000Reader.h" |
| 151 | 26 #include "../Framework/MultiThreading/Semaphore.h" |
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27 |
| 151 | 28 #include <Core/Logging.h> |
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29 #include <Core/Images/ImageProcessing.h> |
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30 #include <Core/Images/PngWriter.h> |
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31 #include <Core/MultiThreading/Semaphore.h> |
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32 #include <Core/OrthancException.h> |
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33 #include <Core/SystemToolbox.h> |
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34 #include <Plugins/Samples/Common/OrthancPluginCppWrapper.h> |
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35 #include <Plugins/Samples/Common/OrthancPluginConnection.h> |
| 0 | 36 |
| 37 #include <EmbeddedResources.h> | |
| 38 | |
| 39 #include <cassert> | |
| 40 | |
| 41 OrthancPluginContext* context_ = NULL; | |
| 42 | |
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43 std::auto_ptr<OrthancPlugins::OrthancPluginConnection> orthanc_; |
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44 std::auto_ptr<OrthancWSI::DicomPyramidCache> cache_; |
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45 std::auto_ptr<Orthanc::Semaphore> transcoderSemaphore_; |
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46 |
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47 |
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48 static void AnswerSparseTile(OrthancPluginRestOutput* output, |
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49 unsigned int tileWidth, |
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50 unsigned int tileHeight) |
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51 { |
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52 Orthanc::Image tile(Orthanc::PixelFormat_RGB24, tileWidth, tileHeight, false); |
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53 |
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54 // Black (TODO parameter) |
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55 uint8_t red = 0; |
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56 uint8_t green = 0; |
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57 uint8_t blue = 0; |
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58 Orthanc::ImageProcessing::Set(tile, red, green, blue, 255); |
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59 |
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60 // TODO Cache the tile |
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61 OrthancPluginCompressAndAnswerPngImage(context_, output, OrthancPluginPixelFormat_RGB24, |
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62 tile.GetWidth(), tile.GetHeight(), |
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63 tile.GetPitch(), tile.GetBuffer()); |
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64 } |
| 0 | 65 |
| 66 | |
| 67 static bool DisplayPerformanceWarning() | |
| 68 { | |
| 69 (void) DisplayPerformanceWarning; // Disable warning about unused function | |
| 70 OrthancPluginLogWarning(context_, "Performance warning in whole-slide imaging: " | |
| 71 "Non-release build, runtime debug assertions are turned on"); | |
| 72 return true; | |
| 73 } | |
| 74 | |
| 75 | |
| 76 void ServePyramid(OrthancPluginRestOutput* output, | |
| 77 const char* url, | |
| 78 const OrthancPluginHttpRequest* request) | |
| 79 { | |
| 80 std::string seriesId(request->groups[0]); | |
| 81 | |
| 82 char tmp[1024]; | |
| 83 sprintf(tmp, "Accessing whole-slide pyramid of series %s", seriesId.c_str()); | |
| 84 OrthancPluginLogInfo(context_, tmp); | |
| 85 | |
| 86 | |
| 87 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 88 | |
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89 unsigned int tileWidth = locker.GetPyramid().GetTileWidth(); |
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90 unsigned int tileHeight = locker.GetPyramid().GetTileHeight(); |
| 0 | 91 unsigned int totalWidth = locker.GetPyramid().GetLevelWidth(0); |
| 92 unsigned int totalHeight = locker.GetPyramid().GetLevelHeight(0); | |
| 93 | |
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94 Json::Value sizes = Json::arrayValue; |
| 0 | 95 Json::Value resolutions = Json::arrayValue; |
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96 Json::Value tilesCount = Json::arrayValue; |
| 0 | 97 for (unsigned int i = 0; i < locker.GetPyramid().GetLevelCount(); i++) |
| 98 { | |
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99 unsigned int levelWidth = locker.GetPyramid().GetLevelWidth(i); |
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100 unsigned int levelHeight = locker.GetPyramid().GetLevelHeight(i); |
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101 |
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102 resolutions.append(static_cast<float>(totalWidth) / static_cast<float>(levelWidth)); |
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103 |
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104 Json::Value s = Json::arrayValue; |
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105 s.append(levelWidth); |
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106 s.append(levelHeight); |
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107 sizes.append(s); |
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108 |
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109 s = Json::arrayValue; |
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110 s.append(OrthancWSI::CeilingDivision(levelWidth, tileWidth)); |
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111 s.append(OrthancWSI::CeilingDivision(levelHeight, tileHeight)); |
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112 tilesCount.append(s); |
| 0 | 113 } |
| 114 | |
| 115 Json::Value result; | |
| 116 result["ID"] = seriesId; | |
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117 result["Resolutions"] = resolutions; |
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118 result["Sizes"] = sizes; |
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119 result["TileHeight"] = tileHeight; |
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120 result["TileWidth"] = tileWidth; |
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121 result["TilesCount"] = tilesCount; |
| 0 | 122 result["TotalHeight"] = totalHeight; |
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123 result["TotalWidth"] = totalWidth; |
| 0 | 124 |
| 125 std::string s = result.toStyledString(); | |
| 126 OrthancPluginAnswerBuffer(context_, output, s.c_str(), s.size(), "application/json"); | |
| 127 } | |
| 128 | |
| 129 | |
| 130 void ServeTile(OrthancPluginRestOutput* output, | |
| 131 const char* url, | |
| 132 const OrthancPluginHttpRequest* request) | |
| 133 { | |
| 134 std::string seriesId(request->groups[0]); | |
| 135 int level = boost::lexical_cast<int>(request->groups[1]); | |
| 136 int tileY = boost::lexical_cast<int>(request->groups[3]); | |
| 137 int tileX = boost::lexical_cast<int>(request->groups[2]); | |
| 138 | |
| 139 char tmp[1024]; | |
| 140 sprintf(tmp, "Accessing tile in series %s: (%d,%d) at level %d", seriesId.c_str(), tileX, tileY, level); | |
| 141 OrthancPluginLogInfo(context_, tmp); | |
| 142 | |
| 143 if (level < 0 || | |
| 144 tileX < 0 || | |
| 145 tileY < 0) | |
| 146 { | |
| 147 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 148 } | |
| 149 | |
| 150 // Retrieve the raw tile from the WSI pyramid | |
| 151 OrthancWSI::ImageCompression compression; | |
| 152 Orthanc::PixelFormat format; | |
| 153 std::string tile; | |
| 154 unsigned int tileWidth, tileHeight; | |
| 155 | |
| 156 { | |
| 157 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 158 | |
| 159 format = locker.GetPyramid().GetPixelFormat(); | |
| 160 tileWidth = locker.GetPyramid().GetTileWidth(); | |
| 161 tileHeight = locker.GetPyramid().GetTileHeight(); | |
| 162 | |
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163 if (!locker.GetPyramid().ReadRawTile(tile, compression, |
| 0 | 164 static_cast<unsigned int>(level), |
| 165 static_cast<unsigned int>(tileX), | |
| 166 static_cast<unsigned int>(tileY))) | |
| 167 { | |
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168 // Handling of missing tile (for sparse tiling): TODO parameter? |
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169 // AnswerSparseTile(output, tileWidth, tileHeight); return; |
| 0 | 170 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); |
| 171 } | |
| 172 } | |
| 173 | |
| 174 | |
| 175 // Test whether the tile is a JPEG image. In such a case, we can | |
| 176 // serve it as such, because any Web browser can handle JPEG | |
| 177 | |
| 178 if (compression == OrthancWSI::ImageCompression_Jpeg) | |
| 179 { | |
| 180 OrthancPluginAnswerBuffer(context_, output, tile.c_str(), tile.size(), "image/jpeg"); | |
| 181 return; // We're done | |
| 182 } | |
| 183 | |
| 184 | |
| 185 // The tile does not come from a DICOM-JPEG instance, we need to | |
| 186 // decompress the raw tile | |
| 187 std::auto_ptr<Orthanc::ImageAccessor> decoded; | |
| 188 | |
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189 Orthanc::Semaphore::Locker locker(*transcoderSemaphore_); |
| 0 | 190 |
| 191 switch (compression) | |
| 192 { | |
| 193 case OrthancWSI::ImageCompression_Jpeg2000: | |
| 194 decoded.reset(new OrthancWSI::Jpeg2000Reader); | |
| 195 dynamic_cast<OrthancWSI::Jpeg2000Reader&>(*decoded).ReadFromMemory(tile); | |
| 196 break; | |
| 197 | |
| 198 case OrthancWSI::ImageCompression_None: | |
| 199 { | |
| 200 unsigned int bpp = Orthanc::GetBytesPerPixel(format); | |
| 201 if (bpp * tileWidth * tileHeight != tile.size()) | |
| 202 { | |
| 203 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 204 } | |
| 205 | |
| 206 decoded.reset(new Orthanc::ImageAccessor); | |
| 207 decoded->AssignReadOnly(format, tileWidth, tileHeight, bpp * tileWidth, tile.c_str()); | |
| 208 break; | |
| 209 } | |
| 210 | |
| 211 default: | |
| 212 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); | |
| 213 } | |
| 214 | |
| 215 | |
| 216 // This is a lossless frame (coming from a JPEG2000 or uncompressed | |
| 217 // DICOM instance), serve it as a PNG image so as to prevent lossy | |
| 218 // compression | |
| 219 | |
| 220 std::string png; | |
| 221 Orthanc::PngWriter writer; | |
| 222 writer.WriteToMemory(png, *decoded); | |
| 223 | |
| 224 OrthancPluginAnswerBuffer(context_, output, png.c_str(), png.size(), "image/png"); | |
| 225 } | |
| 226 | |
| 227 | |
| 228 OrthancPluginErrorCode OnChangeCallback(OrthancPluginChangeType changeType, | |
| 229 OrthancPluginResourceType resourceType, | |
| 230 const char *resourceId) | |
| 231 { | |
| 232 if (resourceType == OrthancPluginResourceType_Series && | |
| 233 changeType == OrthancPluginChangeType_NewChildInstance) | |
| 234 { | |
| 235 char tmp[1024]; | |
| 236 sprintf(tmp, "New instance has been added to series %s, invalidating it", resourceId); | |
| 237 OrthancPluginLogInfo(context_, tmp); | |
| 238 | |
| 239 cache_->Invalidate(resourceId); | |
| 240 } | |
| 241 | |
| 242 return OrthancPluginErrorCode_Success; | |
| 243 } | |
| 244 | |
| 245 | |
| 246 | |
| 247 void ServeFile(OrthancPluginRestOutput* output, | |
| 248 const char* url, | |
| 249 const OrthancPluginHttpRequest* request) | |
| 250 { | |
| 251 Orthanc::EmbeddedResources::FileResourceId resource; | |
| 252 | |
| 253 std::string f(request->groups[0]); | |
| 254 std::string mime; | |
| 255 | |
| 256 if (f == "viewer.html") | |
| 257 { | |
| 258 resource = Orthanc::EmbeddedResources::VIEWER_HTML; | |
| 259 mime = "text/html"; | |
| 260 } | |
| 261 else if (f == "viewer.js") | |
| 262 { | |
| 263 resource = Orthanc::EmbeddedResources::VIEWER_JS; | |
| 264 mime = "application/javascript"; | |
| 265 } | |
| 266 else if (f == "ol.js") | |
| 267 { | |
| 268 resource = Orthanc::EmbeddedResources::OPENLAYERS_JS; | |
| 269 mime = "application/javascript"; | |
| 270 } | |
| 271 else if (f == "ol.css") | |
| 272 { | |
| 273 resource = Orthanc::EmbeddedResources::OPENLAYERS_CSS; | |
| 274 mime = "text/css"; | |
| 275 } | |
| 276 else | |
| 277 { | |
| 278 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 279 } | |
| 280 | |
| 281 std::string content; | |
| 282 Orthanc::EmbeddedResources::GetFileResource(content, resource); | |
| 283 | |
| 284 OrthancPluginAnswerBuffer(context_, output, content.c_str(), content.size(), mime.c_str()); | |
| 285 } | |
| 286 | |
| 287 | |
| 288 | |
| 289 extern "C" | |
| 290 { | |
| 291 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* context) | |
| 292 { | |
| 293 context_ = context; | |
| 294 assert(DisplayPerformanceWarning()); | |
| 295 | |
| 296 /* Check the version of the Orthanc core */ | |
| 297 if (OrthancPluginCheckVersion(context_) == 0) | |
| 298 { | |
| 299 char info[1024]; | |
| 300 sprintf(info, "Your version of Orthanc (%s) must be above %d.%d.%d to run this plugin", | |
| 301 context_->orthancVersion, | |
| 302 ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER, | |
| 303 ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER, | |
| 304 ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER); | |
| 305 OrthancPluginLogError(context_, info); | |
| 306 return -1; | |
| 307 } | |
| 308 | |
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309 if (!OrthancPlugins::CheckMinimalOrthancVersion(context_, 1, 1, 0)) |
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310 { |
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311 // We need the "/instances/.../frames/.../raw" URI that was introduced in Orthanc 1.1.0 |
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312 return -1; |
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313 } |
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314 |
| 151 | 315 Orthanc::Logging::Initialize(context); |
| 316 | |
| 0 | 317 // Limit the number of PNG transcoders to the number of available |
| 318 // hardware threads (e.g. number of CPUs or cores or | |
| 319 // hyperthreading units) | |
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320 unsigned int threads = Orthanc::SystemToolbox::GetHardwareConcurrency(); |
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321 transcoderSemaphore_.reset(new Orthanc::Semaphore(threads)); |
| 0 | 322 |
| 323 char info[1024]; | |
| 145 | 324 sprintf(info, "The whole-slide imaging plugin will use at most %u threads to transcode the tiles", threads); |
| 0 | 325 OrthancPluginLogWarning(context_, info); |
| 326 | |
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327 OrthancPluginSetDescription(context, "Provides a Web viewer of whole-slide microscopic images within Orthanc."); |
| 0 | 328 |
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329 orthanc_.reset(new OrthancPlugins::OrthancPluginConnection(context)); |
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330 cache_.reset(new OrthancWSI::DicomPyramidCache(*orthanc_, 10 /* Number of pyramids to be cached - TODO parameter */)); |
| 0 | 331 |
| 332 OrthancPluginRegisterOnChangeCallback(context_, OnChangeCallback); | |
| 333 | |
| 334 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(ol.css)", true); | |
| 335 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(ol.js)", true); | |
| 336 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(viewer.html)", true); | |
| 337 OrthancPlugins::RegisterRestCallback<ServeFile>(context, "/wsi/app/(viewer.js)", true); | |
| 338 OrthancPlugins::RegisterRestCallback<ServePyramid>(context, "/wsi/pyramids/([0-9a-f-]+)", true); | |
| 339 OrthancPlugins::RegisterRestCallback<ServeTile>(context, "/wsi/tiles/([0-9a-f-]+)/([0-9-]+)/([0-9-]+)/([0-9-]+)", true); | |
| 340 | |
| 341 // Extend the default Orthanc Explorer with custom JavaScript for WSI | |
| 342 std::string explorer; | |
| 343 Orthanc::EmbeddedResources::GetFileResource(explorer, Orthanc::EmbeddedResources::ORTHANC_EXPLORER); | |
| 344 OrthancPluginExtendOrthancExplorer(context_, explorer.c_str()); | |
| 345 | |
| 346 return 0; | |
| 347 } | |
| 348 | |
| 349 | |
| 350 ORTHANC_PLUGINS_API void OrthancPluginFinalize() | |
| 351 { | |
| 352 cache_.reset(NULL); | |
| 353 orthanc_.reset(NULL); | |
| 354 transcoderSemaphore_.reset(NULL); | |
| 355 } | |
| 356 | |
| 357 | |
| 358 ORTHANC_PLUGINS_API const char* OrthancPluginGetName() | |
| 359 { | |
| 360 return "wsi"; | |
| 361 } | |
| 362 | |
| 363 | |
| 364 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion() | |
| 365 { | |
| 366 return ORTHANC_WSI_VERSION; | |
| 367 } | |
| 368 } |