Mercurial > hg > orthanc-wsi
annotate ViewerPlugin/Plugin.cpp @ 325:047b629616db OrthancWSI-1.1
closing OrthancWSI-1.1
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 17 Oct 2024 17:15:32 +0200 |
| parents | 49f647ed1b4c |
| children | 20a730889ae2 |
| 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) 2017-2021 Osimis S.A., Belgium |
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6 * Copyright (C) 2021-2021 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
| 0 | 7 * |
| 8 * This program is free software: you can redistribute it and/or | |
| 9 * modify it under the terms of the GNU Affero General Public License | |
| 10 * as published by the Free Software Foundation, either version 3 of | |
| 11 * the License, or (at your option) any later version. | |
| 12 * | |
| 13 * This program is distributed in the hope that it will be useful, but | |
| 14 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 16 * Affero General Public License for more details. | |
| 17 * | |
| 18 * You should have received a copy of the GNU Affero General Public License | |
| 19 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 20 **/ | |
| 21 | |
| 22 | |
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23 #include "../Framework/PrecompiledHeadersWSI.h" |
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24 |
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25 #include "../Framework/ImageToolbox.h" |
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26 #include "../Framework/Jpeg2000Reader.h" |
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27 #include "DicomPyramidCache.h" |
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28 #include "OrthancPluginConnection.h" |
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29 |
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30 #include <Compatibility.h> // For std::unique_ptr |
| 192 | 31 #include <Logging.h> |
| 32 #include <Images/ImageProcessing.h> | |
| 33 #include <Images/PngWriter.h> | |
| 34 #include <MultiThreading/Semaphore.h> | |
| 35 #include <OrthancException.h> | |
| 36 #include <SystemToolbox.h> | |
| 37 | |
| 194 | 38 #include "../Resources/Orthanc/Plugins/OrthancPluginCppWrapper.h" |
| 0 | 39 |
| 40 #include <EmbeddedResources.h> | |
| 41 | |
| 42 #include <cassert> | |
| 43 | |
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44 std::unique_ptr<OrthancWSI::OrthancPluginConnection> orthanc_; |
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45 std::unique_ptr<OrthancWSI::DicomPyramidCache> cache_; |
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46 std::unique_ptr<Orthanc::Semaphore> transcoderSemaphore_; |
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47 |
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48 |
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49 static void AnswerSparseTile(OrthancPluginRestOutput* output, |
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50 unsigned int tileWidth, |
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51 unsigned int tileHeight) |
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52 { |
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53 Orthanc::Image tile(Orthanc::PixelFormat_RGB24, tileWidth, tileHeight, false); |
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54 |
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55 // Black (TODO parameter) |
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56 uint8_t red = 0; |
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57 uint8_t green = 0; |
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58 uint8_t blue = 0; |
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59 Orthanc::ImageProcessing::Set(tile, red, green, blue, 255); |
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60 |
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61 // TODO Cache the tile |
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62 OrthancPluginCompressAndAnswerPngImage(OrthancPlugins::GetGlobalContext(), |
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63 output, OrthancPluginPixelFormat_RGB24, |
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64 tile.GetWidth(), tile.GetHeight(), |
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65 tile.GetPitch(), tile.GetBuffer()); |
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66 } |
| 0 | 67 |
| 68 | |
| 69 static bool DisplayPerformanceWarning() | |
| 70 { | |
| 71 (void) DisplayPerformanceWarning; // Disable warning about unused function | |
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72 OrthancPluginLogWarning(OrthancPlugins::GetGlobalContext(), "Performance warning in whole-slide imaging: " |
| 0 | 73 "Non-release build, runtime debug assertions are turned on"); |
| 74 return true; | |
| 75 } | |
| 76 | |
| 77 | |
| 78 void ServePyramid(OrthancPluginRestOutput* output, | |
| 79 const char* url, | |
| 80 const OrthancPluginHttpRequest* request) | |
| 81 { | |
| 82 std::string seriesId(request->groups[0]); | |
| 83 | |
| 84 char tmp[1024]; | |
| 85 sprintf(tmp, "Accessing whole-slide pyramid of series %s", seriesId.c_str()); | |
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86 OrthancPluginLogInfo(OrthancPlugins::GetGlobalContext(), tmp); |
| 0 | 87 |
| 88 | |
| 89 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 90 | |
| 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; |
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97 Json::Value tilesSizes = Json::arrayValue; |
| 0 | 98 for (unsigned int i = 0; i < locker.GetPyramid().GetLevelCount(); i++) |
| 99 { | |
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100 const unsigned int levelWidth = locker.GetPyramid().GetLevelWidth(i); |
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101 const unsigned int levelHeight = locker.GetPyramid().GetLevelHeight(i); |
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102 const unsigned int tileWidth = locker.GetPyramid().GetTileWidth(i); |
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103 const unsigned int tileHeight = locker.GetPyramid().GetTileHeight(i); |
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104 |
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105 resolutions.append(static_cast<float>(totalWidth) / static_cast<float>(levelWidth)); |
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106 |
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107 Json::Value s = Json::arrayValue; |
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108 s.append(levelWidth); |
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109 s.append(levelHeight); |
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110 sizes.append(s); |
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111 |
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112 s = Json::arrayValue; |
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113 s.append(OrthancWSI::CeilingDivision(levelWidth, tileWidth)); |
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114 s.append(OrthancWSI::CeilingDivision(levelHeight, tileHeight)); |
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115 tilesCount.append(s); |
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116 |
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117 s = Json::arrayValue; |
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118 s.append(tileWidth); |
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119 s.append(tileHeight); |
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120 tilesSizes.append(s); |
| 0 | 121 } |
| 122 | |
| 123 Json::Value result; | |
| 124 result["ID"] = seriesId; | |
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125 result["Resolutions"] = resolutions; |
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126 result["Sizes"] = sizes; |
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127 result["TilesCount"] = tilesCount; |
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128 result["TilesSizes"] = tilesSizes; |
| 0 | 129 result["TotalHeight"] = totalHeight; |
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130 result["TotalWidth"] = totalWidth; |
| 0 | 131 |
| 132 std::string s = result.toStyledString(); | |
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133 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, s.c_str(), s.size(), "application/json"); |
| 0 | 134 } |
| 135 | |
| 136 | |
| 137 void ServeTile(OrthancPluginRestOutput* output, | |
| 138 const char* url, | |
| 139 const OrthancPluginHttpRequest* request) | |
| 140 { | |
| 141 std::string seriesId(request->groups[0]); | |
| 142 int level = boost::lexical_cast<int>(request->groups[1]); | |
| 143 int tileY = boost::lexical_cast<int>(request->groups[3]); | |
| 144 int tileX = boost::lexical_cast<int>(request->groups[2]); | |
| 145 | |
| 146 char tmp[1024]; | |
| 147 sprintf(tmp, "Accessing tile in series %s: (%d,%d) at level %d", seriesId.c_str(), tileX, tileY, level); | |
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148 OrthancPluginLogInfo(OrthancPlugins::GetGlobalContext(), tmp); |
| 0 | 149 |
| 150 if (level < 0 || | |
| 151 tileX < 0 || | |
| 152 tileY < 0) | |
| 153 { | |
| 154 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 155 } | |
| 156 | |
| 157 // Retrieve the raw tile from the WSI pyramid | |
| 158 OrthancWSI::ImageCompression compression; | |
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159 Orthanc::PhotometricInterpretation photometric; |
| 0 | 160 Orthanc::PixelFormat format; |
| 161 std::string tile; | |
| 162 unsigned int tileWidth, tileHeight; | |
| 163 | |
| 164 { | |
| 165 OrthancWSI::DicomPyramidCache::Locker locker(*cache_, seriesId); | |
| 166 | |
| 167 format = locker.GetPyramid().GetPixelFormat(); | |
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168 tileWidth = locker.GetPyramid().GetTileWidth(level); |
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169 tileHeight = locker.GetPyramid().GetTileHeight(level); |
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170 photometric = locker.GetPyramid().GetPhotometricInterpretation(); |
| 0 | 171 |
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172 if (!locker.GetPyramid().ReadRawTile(tile, compression, |
| 0 | 173 static_cast<unsigned int>(level), |
| 174 static_cast<unsigned int>(tileX), | |
| 175 static_cast<unsigned int>(tileY))) | |
| 176 { | |
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177 // Handling of missing tile (for sparse tiling): TODO parameter? |
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178 // AnswerSparseTile(output, tileWidth, tileHeight); return; |
| 0 | 179 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); |
| 180 } | |
| 181 } | |
| 182 | |
| 183 | |
| 184 // Test whether the tile is a JPEG image. In such a case, we can | |
| 185 // serve it as such, because any Web browser can handle JPEG | |
| 186 | |
| 187 if (compression == OrthancWSI::ImageCompression_Jpeg) | |
| 188 { | |
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189 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, tile.c_str(), tile.size(), "image/jpeg"); |
| 0 | 190 return; // We're done |
| 191 } | |
| 192 | |
| 193 | |
| 194 // The tile does not come from a DICOM-JPEG instance, we need to | |
| 195 // decompress the raw tile | |
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196 std::unique_ptr<Orthanc::ImageAccessor> decoded; |
| 0 | 197 |
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198 Orthanc::Semaphore::Locker locker(*transcoderSemaphore_); |
| 0 | 199 |
| 200 switch (compression) | |
| 201 { | |
| 202 case OrthancWSI::ImageCompression_Jpeg2000: | |
| 203 decoded.reset(new OrthancWSI::Jpeg2000Reader); | |
| 204 dynamic_cast<OrthancWSI::Jpeg2000Reader&>(*decoded).ReadFromMemory(tile); | |
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217
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205 |
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206 if (photometric == Orthanc::PhotometricInterpretation_YBR_ICT) |
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207 { |
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208 OrthancWSI::ImageToolbox::ConvertJpegYCbCrToRgb(*decoded); |
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209 } |
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210 |
| 0 | 211 break; |
| 212 | |
| 213 case OrthancWSI::ImageCompression_None: | |
| 214 { | |
| 215 unsigned int bpp = Orthanc::GetBytesPerPixel(format); | |
| 216 if (bpp * tileWidth * tileHeight != tile.size()) | |
| 217 { | |
| 218 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 219 } | |
| 220 | |
| 221 decoded.reset(new Orthanc::ImageAccessor); | |
| 222 decoded->AssignReadOnly(format, tileWidth, tileHeight, bpp * tileWidth, tile.c_str()); | |
| 223 break; | |
| 224 } | |
| 225 | |
| 226 default: | |
| 227 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); | |
| 228 } | |
| 229 | |
| 230 | |
| 231 // This is a lossless frame (coming from a JPEG2000 or uncompressed | |
| 232 // DICOM instance), serve it as a PNG image so as to prevent lossy | |
| 233 // compression | |
| 234 | |
| 235 std::string png; | |
| 236 Orthanc::PngWriter writer; | |
| 211 | 237 Orthanc::IImageWriter::WriteToMemory(writer, png, *decoded); |
| 0 | 238 |
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239 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, png.c_str(), png.size(), "image/png"); |
| 0 | 240 } |
| 241 | |
| 242 | |
| 243 OrthancPluginErrorCode OnChangeCallback(OrthancPluginChangeType changeType, | |
| 244 OrthancPluginResourceType resourceType, | |
| 245 const char *resourceId) | |
| 246 { | |
| 247 if (resourceType == OrthancPluginResourceType_Series && | |
| 248 changeType == OrthancPluginChangeType_NewChildInstance) | |
| 249 { | |
| 250 char tmp[1024]; | |
| 251 sprintf(tmp, "New instance has been added to series %s, invalidating it", resourceId); | |
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252 OrthancPluginLogInfo(OrthancPlugins::GetGlobalContext(), tmp); |
| 0 | 253 |
| 254 cache_->Invalidate(resourceId); | |
| 255 } | |
| 256 | |
| 257 return OrthancPluginErrorCode_Success; | |
| 258 } | |
| 259 | |
| 260 | |
| 261 | |
| 262 void ServeFile(OrthancPluginRestOutput* output, | |
| 263 const char* url, | |
| 264 const OrthancPluginHttpRequest* request) | |
| 265 { | |
| 266 Orthanc::EmbeddedResources::FileResourceId resource; | |
| 267 | |
| 268 std::string f(request->groups[0]); | |
| 269 std::string mime; | |
| 270 | |
| 271 if (f == "viewer.html") | |
| 272 { | |
| 273 resource = Orthanc::EmbeddedResources::VIEWER_HTML; | |
| 274 mime = "text/html"; | |
| 275 } | |
| 276 else if (f == "viewer.js") | |
| 277 { | |
| 278 resource = Orthanc::EmbeddedResources::VIEWER_JS; | |
| 279 mime = "application/javascript"; | |
| 280 } | |
| 281 else if (f == "ol.js") | |
| 282 { | |
| 283 resource = Orthanc::EmbeddedResources::OPENLAYERS_JS; | |
| 284 mime = "application/javascript"; | |
| 285 } | |
| 286 else if (f == "ol.css") | |
| 287 { | |
| 288 resource = Orthanc::EmbeddedResources::OPENLAYERS_CSS; | |
| 289 mime = "text/css"; | |
| 290 } | |
| 291 else | |
| 292 { | |
| 293 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 294 } | |
| 295 | |
| 296 std::string content; | |
| 297 Orthanc::EmbeddedResources::GetFileResource(content, resource); | |
| 298 | |
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299 OrthancPluginAnswerBuffer(OrthancPlugins::GetGlobalContext(), output, content.c_str(), content.size(), mime.c_str()); |
| 0 | 300 } |
| 301 | |
| 302 | |
| 303 | |
| 304 extern "C" | |
| 305 { | |
| 306 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* context) | |
| 307 { | |
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308 OrthancPlugins::SetGlobalContext(context); |
| 0 | 309 assert(DisplayPerformanceWarning()); |
| 310 | |
| 311 /* Check the version of the Orthanc core */ | |
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312 if (OrthancPluginCheckVersion(OrthancPlugins::GetGlobalContext()) == 0) |
| 0 | 313 { |
| 314 char info[1024]; | |
| 315 sprintf(info, "Your version of Orthanc (%s) must be above %d.%d.%d to run this plugin", | |
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316 OrthancPlugins::GetGlobalContext()->orthancVersion, |
| 0 | 317 ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER, |
| 318 ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER, | |
| 319 ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER); | |
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320 OrthancPluginLogError(OrthancPlugins::GetGlobalContext(), info); |
| 0 | 321 return -1; |
| 322 } | |
| 323 | |
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324 if (!OrthancPlugins::CheckMinimalOrthancVersion(1, 1, 0)) |
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325 { |
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326 // We need the "/instances/.../frames/.../raw" URI that was introduced in Orthanc 1.1.0 |
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327 return -1; |
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328 } |
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329 |
| 206 | 330 #if ORTHANC_FRAMEWORK_VERSION_IS_ABOVE(1, 7, 2) |
| 191 | 331 Orthanc::Logging::InitializePluginContext(context); |
| 193 | 332 #else |
| 333 Orthanc::Logging::Initialize(context); | |
| 334 #endif | |
| 151 | 335 |
| 0 | 336 // Limit the number of PNG transcoders to the number of available |
| 337 // hardware threads (e.g. number of CPUs or cores or | |
| 338 // hyperthreading units) | |
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339 unsigned int threads = Orthanc::SystemToolbox::GetHardwareConcurrency(); |
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340 transcoderSemaphore_.reset(new Orthanc::Semaphore(threads)); |
| 0 | 341 |
| 342 char info[1024]; | |
| 145 | 343 sprintf(info, "The whole-slide imaging plugin will use at most %u threads to transcode the tiles", threads); |
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344 OrthancPluginLogWarning(OrthancPlugins::GetGlobalContext(), info); |
| 0 | 345 |
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346 OrthancPluginSetDescription(context, "Provides a Web viewer of whole-slide microscopic images within Orthanc."); |
| 0 | 347 |
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348 orthanc_.reset(new OrthancWSI::OrthancPluginConnection); |
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349 cache_.reset(new OrthancWSI::DicomPyramidCache(*orthanc_, 10 /* Number of pyramids to be cached - TODO parameter */)); |
| 0 | 350 |
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351 OrthancPluginRegisterOnChangeCallback(OrthancPlugins::GetGlobalContext(), OnChangeCallback); |
| 0 | 352 |
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353 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(ol.css)", true); |
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354 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(ol.js)", true); |
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355 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(viewer.html)", true); |
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356 OrthancPlugins::RegisterRestCallback<ServeFile>("/wsi/app/(viewer.js)", true); |
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357 OrthancPlugins::RegisterRestCallback<ServePyramid>("/wsi/pyramids/([0-9a-f-]+)", true); |
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358 OrthancPlugins::RegisterRestCallback<ServeTile>("/wsi/tiles/([0-9a-f-]+)/([0-9-]+)/([0-9-]+)/([0-9-]+)", true); |
| 0 | 359 |
| 360 // Extend the default Orthanc Explorer with custom JavaScript for WSI | |
| 361 std::string explorer; | |
| 362 Orthanc::EmbeddedResources::GetFileResource(explorer, Orthanc::EmbeddedResources::ORTHANC_EXPLORER); | |
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363 OrthancPluginExtendOrthancExplorer(OrthancPlugins::GetGlobalContext(), explorer.c_str()); |
| 0 | 364 |
| 365 return 0; | |
| 366 } | |
| 367 | |
| 368 | |
| 369 ORTHANC_PLUGINS_API void OrthancPluginFinalize() | |
| 370 { | |
| 371 cache_.reset(NULL); | |
| 372 orthanc_.reset(NULL); | |
| 373 transcoderSemaphore_.reset(NULL); | |
| 374 } | |
| 375 | |
| 376 | |
| 377 ORTHANC_PLUGINS_API const char* OrthancPluginGetName() | |
| 378 { | |
| 379 return "wsi"; | |
| 380 } | |
| 381 | |
| 382 | |
| 383 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion() | |
| 384 { | |
| 385 return ORTHANC_WSI_VERSION; | |
| 386 } | |
| 387 } |