Mercurial > hg > orthanc-wsi
annotate Framework/Inputs/OpenSlideLibrary.cpp @ 184:3317e3a4bb48 OrthancWSI-0.3
closing OrthancWSI-0.3
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Tue, 26 May 2020 17:15:42 +0200 |
parents | 7a3853d51c45 |
children | ff0ef01c332c |
rev | line source |
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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 | |
16
7a88c614be04
preparing for precompiled headers
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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21 #include "../PrecompiledHeadersWSI.h" |
0 | 22 #include "OpenSlideLibrary.h" |
23 | |
59
7a3853d51c45
Move "Framework/Orthanc/" as "Resources/Orthanc/"
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
32
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24 #include "../../Resources/Orthanc/Core/Logging.h" |
7a3853d51c45
Move "Framework/Orthanc/" as "Resources/Orthanc/"
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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25 #include "../../Resources/Orthanc/Core/Images/Image.h" |
0 | 26 |
27 namespace OrthancWSI | |
28 { | |
29 static std::auto_ptr<OpenSlideLibrary> globalLibrary_; | |
30 | |
31 | |
32 OpenSlideLibrary::OpenSlideLibrary(const std::string& path) : | |
33 library_(path) | |
34 { | |
35 close_ = (FunctionClose) library_.GetFunction("openslide_close"); | |
36 getLevelCount_ = (FunctionGetLevelCount) library_.GetFunction("openslide_get_level_count"); | |
37 getLevelDimensions_ = (FunctionGetLevelDimensions) library_.GetFunction("openslide_get_level_dimensions"); | |
38 getLevelDownsample_ = (FunctionGetLevelDownsample) library_.GetFunction("openslide_get_level_downsample"); | |
39 open_ = (FunctionOpen) library_.GetFunction("openslide_open"); | |
40 readRegion_ = (FunctionReadRegion) library_.GetFunction("openslide_read_region"); | |
41 } | |
42 | |
43 | |
44 OpenSlideLibrary::Image::Level::Level() : | |
45 width_(0), | |
46 height_(0), | |
47 downsample_(1) | |
48 { | |
49 } | |
50 | |
51 | |
52 OpenSlideLibrary::Image::Level::Level(int64_t width, | |
53 int64_t height, | |
54 double downsample) : | |
55 width_(static_cast<unsigned int>(width)), | |
56 height_(static_cast<unsigned int>(height)), | |
57 downsample_(downsample) | |
58 { | |
59 if (width < 0 || | |
60 height < 0 || | |
61 downsample <= 0) | |
62 { | |
63 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
64 } | |
65 | |
66 if (static_cast<int64_t>(width_) != width || | |
67 static_cast<int64_t>(height_) != height) | |
68 { | |
69 LOG(ERROR) << "The whole-slide image is too large"; | |
70 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
71 } | |
72 } | |
73 | |
74 | |
75 void OpenSlideLibrary::Image::Initialize(const std::string& path) | |
76 { | |
77 handle_ = that_.open_(path.c_str()); | |
78 if (handle_ == NULL) | |
79 { | |
80 LOG(ERROR) << "Cannot open an image with OpenSlide: " << path; | |
81 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
82 } | |
83 | |
84 try | |
85 { | |
86 LOG(INFO) << "Opening an image with OpenSlide: " << path; | |
87 | |
88 int32_t tmp = that_.getLevelCount_(handle_); | |
89 if (tmp <= 0) | |
90 { | |
91 LOG(ERROR) << "Image with no pyramid level"; | |
92 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
93 } | |
94 | |
95 levels_.resize(tmp); | |
96 | |
97 for (int32_t level = 0; level < tmp; level++) | |
98 { | |
99 int64_t width, height; | |
100 that_.getLevelDimensions_(handle_, level, &width, &height); | |
101 | |
102 double downsample = that_.getLevelDownsample_(handle_, level); | |
103 | |
104 levels_[level] = Level(width, height, downsample); | |
105 } | |
106 | |
107 for (size_t i = 1; i < levels_.size(); i++) | |
108 { | |
109 if (levels_[i].width_ >= levels_[i - 1].width_ || | |
110 levels_[i].height_ >= levels_[i - 1].height_) | |
111 { | |
112 // This is not a pyramid with levels of decreasing sizes | |
113 // (level "0" must be the finest level) | |
114 LOG(ERROR) << "The pyramid does not have levels of strictly decreasing sizes"; | |
115 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
116 } | |
117 } | |
118 } | |
119 catch (Orthanc::OrthancException&) | |
120 { | |
121 Close(); | |
122 throw; | |
123 } | |
124 } | |
125 | |
126 | |
127 OpenSlideLibrary::Image::Image(OpenSlideLibrary& that, | |
128 const std::string& path) : | |
129 that_(that), | |
130 handle_(NULL) | |
131 { | |
132 Initialize(path); | |
133 } | |
134 | |
135 | |
136 OpenSlideLibrary::Image::Image(const std::string& path) : | |
137 that_(OpenSlideLibrary::GetInstance()), | |
138 handle_(NULL) | |
139 { | |
140 Initialize(path); | |
141 } | |
142 | |
143 | |
144 void OpenSlideLibrary::Image::Close() | |
145 { | |
146 if (handle_ != NULL) | |
147 { | |
148 that_.close_(handle_); | |
149 handle_ = NULL; | |
150 } | |
151 } | |
152 | |
153 | |
154 void OpenSlideLibrary::Image::CheckLevel(unsigned int level) const | |
155 { | |
156 if (level >= levels_.size()) | |
157 { | |
158 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
159 } | |
160 } | |
161 | |
162 | |
163 double OpenSlideLibrary::Image::GetLevelDownsample(unsigned int level) const | |
164 { | |
165 CheckLevel(level); | |
166 return levels_[level].downsample_; | |
167 } | |
168 | |
169 | |
170 unsigned int OpenSlideLibrary::Image::GetLevelWidth(unsigned int level) const | |
171 { | |
172 CheckLevel(level); | |
173 return levels_[level].width_; | |
174 } | |
175 | |
176 | |
177 unsigned int OpenSlideLibrary::Image::GetLevelHeight(unsigned int level) const | |
178 { | |
179 CheckLevel(level); | |
180 return levels_[level].height_; | |
181 } | |
182 | |
183 | |
184 Orthanc::ImageAccessor* OpenSlideLibrary::Image::ReadRegion(unsigned int level, | |
185 uint64_t x, | |
186 uint64_t y, | |
187 unsigned int width, | |
188 unsigned int height) | |
189 { | |
190 CheckLevel(level); | |
191 | |
192 // Create a new image, with minimal pitch so as to be compatible with OpenSlide API | |
193 std::auto_ptr<Orthanc::ImageAccessor> region(new Orthanc::Image(Orthanc::PixelFormat_RGBA32, width, height, true)); | |
194 | |
195 if (region->GetWidth() != 0 && | |
196 region->GetHeight() != 0) | |
197 { | |
198 double zoom = levels_[level].downsample_; | |
199 x = static_cast<uint64_t>(zoom * static_cast<double>(x)); | |
200 y = static_cast<uint64_t>(zoom * static_cast<double>(y)); | |
201 | |
202 that_.readRegion_(handle_, reinterpret_cast<uint32_t*>(region->GetBuffer()), | |
203 x, y, level, region->GetWidth(), region->GetHeight()); | |
204 } | |
205 | |
206 return region.release(); | |
207 } | |
208 | |
209 | |
210 OpenSlideLibrary& OpenSlideLibrary::GetInstance() | |
211 { | |
212 if (globalLibrary_.get() == NULL) | |
213 { | |
32 | 214 LOG(ERROR) << "OpenSlide has not been initialized, use the \"--openslide\" command-line option"; |
0 | 215 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
216 } | |
217 else | |
218 { | |
219 return *globalLibrary_; | |
220 } | |
221 } | |
222 | |
223 | |
224 void OpenSlideLibrary::Initialize(const std::string& path) | |
225 { | |
226 globalLibrary_.reset(new OpenSlideLibrary(path)); | |
227 } | |
228 | |
229 | |
230 void OpenSlideLibrary::Finalize() | |
231 { | |
232 globalLibrary_.reset(NULL); | |
233 } | |
234 } |