Mercurial > hg > orthanc-wsi
annotate Framework/Inputs/OpenSlideLibrary.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 "../PrecompiledHeadersWSI.h" |
| 0 | 24 #include "OpenSlideLibrary.h" |
| 25 | |
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26 #include <Compatibility.h> // For std::unique_ptr |
| 192 | 27 #include <Logging.h> |
| 28 #include <Images/Image.h> | |
| 29 #include <OrthancException.h> | |
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30 |
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31 #include <memory> |
| 0 | 32 |
| 33 namespace OrthancWSI | |
| 34 { | |
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35 static std::unique_ptr<OpenSlideLibrary> globalLibrary_; |
| 0 | 36 |
| 37 | |
| 38 OpenSlideLibrary::OpenSlideLibrary(const std::string& path) : | |
| 39 library_(path) | |
| 40 { | |
| 41 close_ = (FunctionClose) library_.GetFunction("openslide_close"); | |
| 42 getLevelCount_ = (FunctionGetLevelCount) library_.GetFunction("openslide_get_level_count"); | |
| 43 getLevelDimensions_ = (FunctionGetLevelDimensions) library_.GetFunction("openslide_get_level_dimensions"); | |
| 44 getLevelDownsample_ = (FunctionGetLevelDownsample) library_.GetFunction("openslide_get_level_downsample"); | |
| 45 open_ = (FunctionOpen) library_.GetFunction("openslide_open"); | |
| 46 readRegion_ = (FunctionReadRegion) library_.GetFunction("openslide_read_region"); | |
| 47 } | |
| 48 | |
| 49 | |
| 50 OpenSlideLibrary::Image::Level::Level() : | |
| 51 width_(0), | |
| 52 height_(0), | |
| 53 downsample_(1) | |
| 54 { | |
| 55 } | |
| 56 | |
| 57 | |
| 58 OpenSlideLibrary::Image::Level::Level(int64_t width, | |
| 59 int64_t height, | |
| 60 double downsample) : | |
| 61 width_(static_cast<unsigned int>(width)), | |
| 62 height_(static_cast<unsigned int>(height)), | |
| 63 downsample_(downsample) | |
| 64 { | |
| 65 if (width < 0 || | |
| 66 height < 0 || | |
| 67 downsample <= 0) | |
| 68 { | |
| 69 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 70 } | |
| 71 | |
| 72 if (static_cast<int64_t>(width_) != width || | |
| 73 static_cast<int64_t>(height_) != height) | |
| 74 { | |
| 75 LOG(ERROR) << "The whole-slide image is too large"; | |
| 76 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 77 } | |
| 78 } | |
| 79 | |
| 80 | |
| 81 void OpenSlideLibrary::Image::Initialize(const std::string& path) | |
| 82 { | |
| 83 handle_ = that_.open_(path.c_str()); | |
| 84 if (handle_ == NULL) | |
| 85 { | |
| 86 LOG(ERROR) << "Cannot open an image with OpenSlide: " << path; | |
| 87 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 88 } | |
| 89 | |
| 90 try | |
| 91 { | |
| 92 LOG(INFO) << "Opening an image with OpenSlide: " << path; | |
| 93 | |
| 94 int32_t tmp = that_.getLevelCount_(handle_); | |
| 95 if (tmp <= 0) | |
| 96 { | |
| 97 LOG(ERROR) << "Image with no pyramid level"; | |
| 98 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 99 } | |
| 100 | |
| 101 levels_.resize(tmp); | |
| 102 | |
| 103 for (int32_t level = 0; level < tmp; level++) | |
| 104 { | |
| 105 int64_t width, height; | |
| 106 that_.getLevelDimensions_(handle_, level, &width, &height); | |
| 107 | |
| 108 double downsample = that_.getLevelDownsample_(handle_, level); | |
| 109 | |
| 110 levels_[level] = Level(width, height, downsample); | |
| 111 } | |
| 112 | |
| 113 for (size_t i = 1; i < levels_.size(); i++) | |
| 114 { | |
| 115 if (levels_[i].width_ >= levels_[i - 1].width_ || | |
| 116 levels_[i].height_ >= levels_[i - 1].height_) | |
| 117 { | |
| 118 // This is not a pyramid with levels of decreasing sizes | |
| 119 // (level "0" must be the finest level) | |
| 120 LOG(ERROR) << "The pyramid does not have levels of strictly decreasing sizes"; | |
| 121 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 122 } | |
| 123 } | |
| 124 } | |
| 125 catch (Orthanc::OrthancException&) | |
| 126 { | |
| 127 Close(); | |
| 128 throw; | |
| 129 } | |
| 130 } | |
| 131 | |
| 132 | |
| 133 OpenSlideLibrary::Image::Image(OpenSlideLibrary& that, | |
| 134 const std::string& path) : | |
| 135 that_(that), | |
| 136 handle_(NULL) | |
| 137 { | |
| 138 Initialize(path); | |
| 139 } | |
| 140 | |
| 141 | |
| 142 OpenSlideLibrary::Image::Image(const std::string& path) : | |
| 143 that_(OpenSlideLibrary::GetInstance()), | |
| 144 handle_(NULL) | |
| 145 { | |
| 146 Initialize(path); | |
| 147 } | |
| 148 | |
| 149 | |
| 150 void OpenSlideLibrary::Image::Close() | |
| 151 { | |
| 152 if (handle_ != NULL) | |
| 153 { | |
| 154 that_.close_(handle_); | |
| 155 handle_ = NULL; | |
| 156 } | |
| 157 } | |
| 158 | |
| 159 | |
| 160 void OpenSlideLibrary::Image::CheckLevel(unsigned int level) const | |
| 161 { | |
| 162 if (level >= levels_.size()) | |
| 163 { | |
| 164 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 165 } | |
| 166 } | |
| 167 | |
| 168 | |
| 169 double OpenSlideLibrary::Image::GetLevelDownsample(unsigned int level) const | |
| 170 { | |
| 171 CheckLevel(level); | |
| 172 return levels_[level].downsample_; | |
| 173 } | |
| 174 | |
| 175 | |
| 176 unsigned int OpenSlideLibrary::Image::GetLevelWidth(unsigned int level) const | |
| 177 { | |
| 178 CheckLevel(level); | |
| 179 return levels_[level].width_; | |
| 180 } | |
| 181 | |
| 182 | |
| 183 unsigned int OpenSlideLibrary::Image::GetLevelHeight(unsigned int level) const | |
| 184 { | |
| 185 CheckLevel(level); | |
| 186 return levels_[level].height_; | |
| 187 } | |
| 188 | |
| 189 | |
| 190 Orthanc::ImageAccessor* OpenSlideLibrary::Image::ReadRegion(unsigned int level, | |
| 191 uint64_t x, | |
| 192 uint64_t y, | |
| 193 unsigned int width, | |
| 194 unsigned int height) | |
| 195 { | |
| 196 CheckLevel(level); | |
| 197 | |
| 198 // Create a new image, with minimal pitch so as to be compatible with OpenSlide API | |
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199 std::unique_ptr<Orthanc::ImageAccessor> region(new Orthanc::Image(Orthanc::PixelFormat_BGRA32, width, height, true)); |
| 0 | 200 |
| 201 if (region->GetWidth() != 0 && | |
| 202 region->GetHeight() != 0) | |
| 203 { | |
| 204 double zoom = levels_[level].downsample_; | |
| 205 x = static_cast<uint64_t>(zoom * static_cast<double>(x)); | |
| 206 y = static_cast<uint64_t>(zoom * static_cast<double>(y)); | |
| 207 | |
| 208 that_.readRegion_(handle_, reinterpret_cast<uint32_t*>(region->GetBuffer()), | |
| 209 x, y, level, region->GetWidth(), region->GetHeight()); | |
| 210 } | |
| 211 | |
| 212 return region.release(); | |
| 213 } | |
| 214 | |
| 215 | |
| 216 OpenSlideLibrary& OpenSlideLibrary::GetInstance() | |
| 217 { | |
| 218 if (globalLibrary_.get() == NULL) | |
| 219 { | |
| 32 | 220 LOG(ERROR) << "OpenSlide has not been initialized, use the \"--openslide\" command-line option"; |
| 0 | 221 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
| 222 } | |
| 223 else | |
| 224 { | |
| 225 return *globalLibrary_; | |
| 226 } | |
| 227 } | |
| 228 | |
| 229 | |
| 230 void OpenSlideLibrary::Initialize(const std::string& path) | |
| 231 { | |
| 232 globalLibrary_.reset(new OpenSlideLibrary(path)); | |
| 233 } | |
| 234 | |
| 235 | |
| 236 void OpenSlideLibrary::Finalize() | |
| 237 { | |
| 238 globalLibrary_.reset(NULL); | |
| 239 } | |
| 240 } |