Mercurial > hg > orthanc-wsi
annotate ViewerPlugin/Plugin.cpp @ 192:f299c191cd76
fix
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 11 Jun 2020 07:41:22 +0200 |
| parents | ce70678d9a9c |
| children | e690c265b315 |
| 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) 2017-2020 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" |
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26 |
| 192 | 27 #include <Logging.h> |
| 28 #include <Images/ImageProcessing.h> | |
| 29 #include <Images/PngWriter.h> | |
| 30 #include <MultiThreading/Semaphore.h> | |
| 31 #include <OrthancException.h> | |
| 32 #include <SystemToolbox.h> | |
| 33 | |
| 34 #include <OrthancPluginCppWrapper.h> | |
| 35 #include <OrthancPluginConnection.h> | |
| 0 | 36 |
| 37 #include <EmbeddedResources.h> | |
| 38 | |
| 39 #include <cassert> | |
| 40 | |
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41 std::auto_ptr<OrthancPlugins::OrthancPluginConnection> orthanc_; |
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42 std::auto_ptr<OrthancWSI::DicomPyramidCache> cache_; |
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43 std::auto_ptr<Orthanc::Semaphore> transcoderSemaphore_; |
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44 |
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45 |
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46 static void AnswerSparseTile(OrthancPluginRestOutput* output, |
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47 unsigned int tileWidth, |
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48 unsigned int tileHeight) |
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49 { |
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50 Orthanc::Image tile(Orthanc::PixelFormat_RGB24, tileWidth, tileHeight, false); |
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51 |
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52 // Black (TODO parameter) |
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53 uint8_t red = 0; |
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54 uint8_t green = 0; |
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55 uint8_t blue = 0; |
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56 Orthanc::ImageProcessing::Set(tile, red, green, blue, 255); |
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57 |
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58 // TODO Cache the tile |
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59 OrthancPluginCompressAndAnswerPngImage(OrthancPlugins::GetGlobalContext(), |
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60 output, OrthancPluginPixelFormat_RGB24, |
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61 tile.GetWidth(), tile.GetHeight(), |
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62 tile.GetPitch(), tile.GetBuffer()); |
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63 } |
| 0 | 64 |
| 65 | |
| 66 static bool DisplayPerformanceWarning() | |
| 67 { | |
| 68 (void) DisplayPerformanceWarning; // Disable warning about unused function | |
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69 OrthancPluginLogWarning(OrthancPlugins::GetGlobalContext(), "Performance warning in whole-slide imaging: " |
| 0 | 70 "Non-release build, runtime debug assertions are turned on"); |
| 71 return true; | |
| 72 } | |
| 73 | |
| 74 | |
| 75 void ServePyramid(OrthancPluginRestOutput* output, | |
| 76 const char* url, | |
| 77 const OrthancPluginHttpRequest* request) | |
| 78 { | |
| 79 std::string seriesId(request->groups[0]); | |
| 80 | |
| 81 char tmp[1024]; | |
| 82 sprintf(tmp, "Accessing whole-slide pyramid of series %s", seriesId.c_str()); | |
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83 OrthancPluginLogInfo(OrthancPlugins::GetGlobalContext(), tmp); |
| 0 | 84 |
| 85 | |
| 86 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 87 | |
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88 unsigned int tileWidth = locker.GetPyramid().GetTileWidth(); |
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89 unsigned int tileHeight = locker.GetPyramid().GetTileHeight(); |
| 0 | 90 unsigned int totalWidth = locker.GetPyramid().GetLevelWidth(0); |
| 91 unsigned int totalHeight = locker.GetPyramid().GetLevelHeight(0); | |
| 92 | |
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93 Json::Value sizes = Json::arrayValue; |
| 0 | 94 Json::Value resolutions = Json::arrayValue; |
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95 Json::Value tilesCount = Json::arrayValue; |
| 0 | 96 for (unsigned int i = 0; i < locker.GetPyramid().GetLevelCount(); i++) |
| 97 { | |
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98 unsigned int levelWidth = locker.GetPyramid().GetLevelWidth(i); |
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99 unsigned int levelHeight = locker.GetPyramid().GetLevelHeight(i); |
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100 |
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101 resolutions.append(static_cast<float>(totalWidth) / static_cast<float>(levelWidth)); |
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102 |
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103 Json::Value s = Json::arrayValue; |
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104 s.append(levelWidth); |
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105 s.append(levelHeight); |
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106 sizes.append(s); |
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107 |
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108 s = Json::arrayValue; |
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109 s.append(OrthancWSI::CeilingDivision(levelWidth, tileWidth)); |
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110 s.append(OrthancWSI::CeilingDivision(levelHeight, tileHeight)); |
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111 tilesCount.append(s); |
| 0 | 112 } |
| 113 | |
| 114 Json::Value result; | |
| 115 result["ID"] = seriesId; | |
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116 result["Resolutions"] = resolutions; |
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117 result["Sizes"] = sizes; |
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118 result["TileHeight"] = tileHeight; |
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119 result["TileWidth"] = tileWidth; |
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120 result["TilesCount"] = tilesCount; |
| 0 | 121 result["TotalHeight"] = totalHeight; |
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122 result["TotalWidth"] = totalWidth; |
| 0 | 123 |
| 124 std::string s = result.toStyledString(); | |
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125 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, s.c_str(), s.size(), "application/json"); |
| 0 | 126 } |
| 127 | |
| 128 | |
| 129 void ServeTile(OrthancPluginRestOutput* output, | |
| 130 const char* url, | |
| 131 const OrthancPluginHttpRequest* request) | |
| 132 { | |
| 133 std::string seriesId(request->groups[0]); | |
| 134 int level = boost::lexical_cast<int>(request->groups[1]); | |
| 135 int tileY = boost::lexical_cast<int>(request->groups[3]); | |
| 136 int tileX = boost::lexical_cast<int>(request->groups[2]); | |
| 137 | |
| 138 char tmp[1024]; | |
| 139 sprintf(tmp, "Accessing tile in series %s: (%d,%d) at level %d", seriesId.c_str(), tileX, tileY, level); | |
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140 OrthancPluginLogInfo(OrthancPlugins::GetGlobalContext(), tmp); |
| 0 | 141 |
| 142 if (level < 0 || | |
| 143 tileX < 0 || | |
| 144 tileY < 0) | |
| 145 { | |
| 146 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 147 } | |
| 148 | |
| 149 // Retrieve the raw tile from the WSI pyramid | |
| 150 OrthancWSI::ImageCompression compression; | |
| 151 Orthanc::PixelFormat format; | |
| 152 std::string tile; | |
| 153 unsigned int tileWidth, tileHeight; | |
| 154 | |
| 155 { | |
| 156 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 157 | |
| 158 format = locker.GetPyramid().GetPixelFormat(); | |
| 159 tileWidth = locker.GetPyramid().GetTileWidth(); | |
| 160 tileHeight = locker.GetPyramid().GetTileHeight(); | |
| 161 | |
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162 if (!locker.GetPyramid().ReadRawTile(tile, compression, |
| 0 | 163 static_cast<unsigned int>(level), |
| 164 static_cast<unsigned int>(tileX), | |
| 165 static_cast<unsigned int>(tileY))) | |
| 166 { | |
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167 // Handling of missing tile (for sparse tiling): TODO parameter? |
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168 // AnswerSparseTile(output, tileWidth, tileHeight); return; |
| 0 | 169 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); |
| 170 } | |
| 171 } | |
| 172 | |
| 173 | |
| 174 // Test whether the tile is a JPEG image. In such a case, we can | |
| 175 // serve it as such, because any Web browser can handle JPEG | |
| 176 | |
| 177 if (compression == OrthancWSI::ImageCompression_Jpeg) | |
| 178 { | |
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179 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, tile.c_str(), tile.size(), "image/jpeg"); |
| 0 | 180 return; // We're done |
| 181 } | |
| 182 | |
| 183 | |
| 184 // The tile does not come from a DICOM-JPEG instance, we need to | |
| 185 // decompress the raw tile | |
| 186 std::auto_ptr<Orthanc::ImageAccessor> decoded; | |
| 187 | |
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188 Orthanc::Semaphore::Locker locker(*transcoderSemaphore_); |
| 0 | 189 |
| 190 switch (compression) | |
| 191 { | |
| 192 case OrthancWSI::ImageCompression_Jpeg2000: | |
| 193 decoded.reset(new OrthancWSI::Jpeg2000Reader); | |
| 194 dynamic_cast<OrthancWSI::Jpeg2000Reader&>(*decoded).ReadFromMemory(tile); | |
| 195 break; | |
| 196 | |
| 197 case OrthancWSI::ImageCompression_None: | |
| 198 { | |
| 199 unsigned int bpp = Orthanc::GetBytesPerPixel(format); | |
| 200 if (bpp * tileWidth * tileHeight != tile.size()) | |
| 201 { | |
| 202 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 203 } | |
| 204 | |
| 205 decoded.reset(new Orthanc::ImageAccessor); | |
| 206 decoded->AssignReadOnly(format, tileWidth, tileHeight, bpp * tileWidth, tile.c_str()); | |
| 207 break; | |
| 208 } | |
| 209 | |
| 210 default: | |
| 211 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); | |
| 212 } | |
| 213 | |
| 214 | |
| 215 // This is a lossless frame (coming from a JPEG2000 or uncompressed | |
| 216 // DICOM instance), serve it as a PNG image so as to prevent lossy | |
| 217 // compression | |
| 218 | |
| 219 std::string png; | |
| 220 Orthanc::PngWriter writer; | |
| 221 writer.WriteToMemory(png, *decoded); | |
| 222 | |
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223 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, png.c_str(), png.size(), "image/png"); |
| 0 | 224 } |
| 225 | |
| 226 | |
| 227 OrthancPluginErrorCode OnChangeCallback(OrthancPluginChangeType changeType, | |
| 228 OrthancPluginResourceType resourceType, | |
| 229 const char *resourceId) | |
| 230 { | |
| 231 if (resourceType == OrthancPluginResourceType_Series && | |
| 232 changeType == OrthancPluginChangeType_NewChildInstance) | |
| 233 { | |
| 234 char tmp[1024]; | |
| 235 sprintf(tmp, "New instance has been added to series %s, invalidating it", resourceId); | |
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236 OrthancPluginLogInfo(OrthancPlugins::GetGlobalContext(), tmp); |
| 0 | 237 |
| 238 cache_->Invalidate(resourceId); | |
| 239 } | |
| 240 | |
| 241 return OrthancPluginErrorCode_Success; | |
| 242 } | |
| 243 | |
| 244 | |
| 245 | |
| 246 void ServeFile(OrthancPluginRestOutput* output, | |
| 247 const char* url, | |
| 248 const OrthancPluginHttpRequest* request) | |
| 249 { | |
| 250 Orthanc::EmbeddedResources::FileResourceId resource; | |
| 251 | |
| 252 std::string f(request->groups[0]); | |
| 253 std::string mime; | |
| 254 | |
| 255 if (f == "viewer.html") | |
| 256 { | |
| 257 resource = Orthanc::EmbeddedResources::VIEWER_HTML; | |
| 258 mime = "text/html"; | |
| 259 } | |
| 260 else if (f == "viewer.js") | |
| 261 { | |
| 262 resource = Orthanc::EmbeddedResources::VIEWER_JS; | |
| 263 mime = "application/javascript"; | |
| 264 } | |
| 265 else if (f == "ol.js") | |
| 266 { | |
| 267 resource = Orthanc::EmbeddedResources::OPENLAYERS_JS; | |
| 268 mime = "application/javascript"; | |
| 269 } | |
| 270 else if (f == "ol.css") | |
| 271 { | |
| 272 resource = Orthanc::EmbeddedResources::OPENLAYERS_CSS; | |
| 273 mime = "text/css"; | |
| 274 } | |
| 275 else | |
| 276 { | |
| 277 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 278 } | |
| 279 | |
| 280 std::string content; | |
| 281 Orthanc::EmbeddedResources::GetFileResource(content, resource); | |
| 282 | |
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283 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, content.c_str(), content.size(), mime.c_str()); |
| 0 | 284 } |
| 285 | |
| 286 | |
| 287 | |
| 288 extern "C" | |
| 289 { | |
| 290 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* context) | |
| 291 { | |
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292 OrthancPlugins::SetGlobalContext(context); |
| 0 | 293 assert(DisplayPerformanceWarning()); |
| 294 | |
| 295 /* Check the version of the Orthanc core */ | |
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296 if (OrthancPluginCheckVersion(OrthancPlugins::GetGlobalContext()) == 0) |
| 0 | 297 { |
| 298 char info[1024]; | |
| 299 sprintf(info, "Your version of Orthanc (%s) must be above %d.%d.%d to run this plugin", | |
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300 OrthancPlugins::GetGlobalContext()->orthancVersion, |
| 0 | 301 ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER, |
| 302 ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER, | |
| 303 ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER); | |
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304 OrthancPluginLogError(OrthancPlugins::GetGlobalContext(), info); |
| 0 | 305 return -1; |
| 306 } | |
| 307 | |
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308 if (!OrthancPlugins::CheckMinimalOrthancVersion(1, 1, 0)) |
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309 { |
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310 // We need the "/instances/.../frames/.../raw" URI that was introduced in Orthanc 1.1.0 |
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311 return -1; |
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312 } |
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313 |
| 191 | 314 Orthanc::Logging::InitializePluginContext(context); |
| 151 | 315 |
| 0 | 316 // Limit the number of PNG transcoders to the number of available |
| 317 // hardware threads (e.g. number of CPUs or cores or | |
| 318 // hyperthreading units) | |
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319 unsigned int threads = Orthanc::SystemToolbox::GetHardwareConcurrency(); |
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320 transcoderSemaphore_.reset(new Orthanc::Semaphore(threads)); |
| 0 | 321 |
| 322 char info[1024]; | |
| 145 | 323 sprintf(info, "The whole-slide imaging plugin will use at most %u threads to transcode the tiles", threads); |
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324 OrthancPluginLogWarning(OrthancPlugins::GetGlobalContext(), info); |
| 0 | 325 |
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326 OrthancPluginSetDescription(context, "Provides a Web viewer of whole-slide microscopic images within Orthanc."); |
| 0 | 327 |
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328 orthanc_.reset(new OrthancPlugins::OrthancPluginConnection); |
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329 cache_.reset(new OrthancWSI::DicomPyramidCache(*orthanc_, 10 /* Number of pyramids to be cached - TODO parameter */)); |
| 0 | 330 |
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331 OrthancPluginRegisterOnChangeCallback(OrthancPlugins::GetGlobalContext(), OnChangeCallback); |
| 0 | 332 |
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333 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(ol.css)", true); |
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334 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(ol.js)", true); |
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335 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(viewer.html)", true); |
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336 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(viewer.js)", true); |
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337 OrthancPlugins::RegisterRestCallback<ServePyramid>("/wsi/pyramids/([0-9a-f-]+)", true); |
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338 OrthancPlugins::RegisterRestCallback<ServeTile>("/wsi/tiles/([0-9a-f-]+)/([0-9-]+)/([0-9-]+)/([0-9-]+)", true); |
| 0 | 339 |
| 340 // Extend the default Orthanc Explorer with custom JavaScript for WSI | |
| 341 std::string explorer; | |
| 342 Orthanc::EmbeddedResources::GetFileResource(explorer, Orthanc::EmbeddedResources::ORTHANC_EXPLORER); | |
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343 OrthancPluginExtendOrthancExplorer(OrthancPlugins::GetGlobalContext(), explorer.c_str()); |
| 0 | 344 |
| 345 return 0; | |
| 346 } | |
| 347 | |
| 348 | |
| 349 ORTHANC_PLUGINS_API void OrthancPluginFinalize() | |
| 350 { | |
| 351 cache_.reset(NULL); | |
| 352 orthanc_.reset(NULL); | |
| 353 transcoderSemaphore_.reset(NULL); | |
| 354 } | |
| 355 | |
| 356 | |
| 357 ORTHANC_PLUGINS_API const char* OrthancPluginGetName() | |
| 358 { | |
| 359 return "wsi"; | |
| 360 } | |
| 361 | |
| 362 | |
| 363 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion() | |
| 364 { | |
| 365 return ORTHANC_WSI_VERSION; | |
| 366 } | |
| 367 } |