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annotate Framework/DicomizerParameters.cpp @ 334:f011fc199b6a default tip
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author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Fri, 18 Oct 2024 15:44:18 +0200 |
parents | a92bb720f90b |
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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 | |
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5 * Copyright (C) 2017-2023 Osimis S.A., Belgium |
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6 * Copyright (C) 2024-2024 Orthanc Team SRL, Belgium |
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7 * Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
0 | 8 * |
9 * This program is free software: you can redistribute it and/or | |
10 * modify it under the terms of the GNU Affero General Public License | |
11 * as published by the Free Software Foundation, either version 3 of | |
12 * the License, or (at your option) any later version. | |
13 * | |
14 * This program is distributed in the hope that it will be useful, but | |
15 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
16 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
17 * Affero General Public License for more details. | |
18 * | |
19 * You should have received a copy of the GNU Affero General Public License | |
20 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
21 **/ | |
22 | |
23 | |
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24 #include "PrecompiledHeadersWSI.h" |
0 | 25 #include "DicomizerParameters.h" |
26 | |
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27 #include "ImageToolbox.h" |
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28 #include "Targets/FolderTarget.h" |
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29 #include "Targets/OrthancTarget.h" |
0 | 30 |
192 | 31 #include <OrthancException.h> |
0 | 32 |
33 #include <boost/thread.hpp> | |
34 #include <boost/lexical_cast.hpp> | |
35 | |
36 namespace OrthancWSI | |
37 { | |
38 static unsigned int ChooseNumberOfThreads() | |
39 { | |
40 unsigned int nthreads = boost::thread::hardware_concurrency(); | |
41 | |
42 if (nthreads % 2 == 0) | |
43 { | |
44 nthreads = nthreads / 2; | |
45 } | |
46 else | |
47 { | |
48 nthreads = nthreads / 2 + 1; | |
49 } | |
50 | |
51 if (nthreads == 0) | |
52 { | |
53 nthreads = 1; | |
54 } | |
55 | |
56 return nthreads; | |
57 } | |
58 | |
59 | |
91 | 60 DicomizerParameters::DicomizerParameters() : |
61 safetyCheck_(false), | |
62 repaintBackground_(false), | |
63 targetCompression_(ImageCompression_Jpeg), | |
64 hasTargetTileSize_(false), | |
65 targetTileWidth_(512), | |
66 targetTileHeight_(512), | |
67 maxDicomFileSize_(10 * 1024 * 1024), // 10MB | |
68 reconstructPyramid_(false), | |
69 pyramidLevelsCount_(0), | |
70 pyramidLowerLevelsCount_(0), | |
71 smooth_(false), | |
72 jpegQuality_(90), | |
73 forceReencode_(false), | |
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74 opticalPath_(OpticalPath_Brightfield), |
246 | 75 isCytomineSource_(false), |
76 cytomineImageInstanceId_(-1), | |
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77 cytomineCompression_(ImageCompression_Png), |
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78 forceOpenSlide_(false), |
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79 padding_(1) |
0 | 80 { |
81 backgroundColor_[0] = 255; | |
82 backgroundColor_[1] = 255; | |
83 backgroundColor_[2] = 255; | |
84 threadsCount_ = ChooseNumberOfThreads(); | |
85 } | |
86 | |
87 | |
88 void DicomizerParameters::SetBackgroundColor(uint8_t red, | |
89 uint8_t green, | |
90 uint8_t blue) | |
91 { | |
92 repaintBackground_ = true; | |
93 backgroundColor_[0] = red; | |
94 backgroundColor_[1] = green; | |
95 backgroundColor_[2] = blue; | |
96 } | |
97 | |
98 | |
99 void DicomizerParameters::SetTargetTileSize(unsigned int width, | |
100 unsigned int height) | |
101 { | |
102 hasTargetTileSize_ = true; | |
103 targetTileWidth_ = width; | |
104 targetTileHeight_ = height; | |
105 } | |
106 | |
107 | |
108 unsigned int DicomizerParameters::GetTargetTileWidth(unsigned int defaultWidth) const | |
109 { | |
110 if (hasTargetTileSize_ && | |
111 targetTileWidth_ != 0) | |
112 { | |
113 return targetTileWidth_; | |
114 } | |
115 else | |
116 { | |
117 return defaultWidth; | |
118 } | |
119 } | |
120 | |
121 | |
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122 unsigned int DicomizerParameters::GetTargetTileWidth(const ITiledPyramid& source) const |
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123 { |
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124 ImageToolbox::CheckConstantTileSize(source); |
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125 return GetTargetTileWidth(source.GetTileWidth(0)); |
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126 } |
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127 |
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128 |
0 | 129 unsigned int DicomizerParameters::GetTargetTileHeight(unsigned int defaultHeight) const |
130 { | |
131 if (hasTargetTileSize_ && | |
132 targetTileHeight_ != 0) | |
133 { | |
134 return targetTileHeight_; | |
135 } | |
136 else | |
137 { | |
138 return defaultHeight; | |
139 } | |
140 } | |
141 | |
142 | |
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143 unsigned int DicomizerParameters::GetTargetTileHeight(const ITiledPyramid& source) const |
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144 { |
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145 ImageToolbox::CheckConstantTileSize(source); |
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146 return GetTargetTileHeight(source.GetTileHeight(0)); |
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147 } |
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148 |
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149 |
0 | 150 void DicomizerParameters::SetThreadsCount(unsigned int threads) |
151 { | |
152 if (threads == 0) | |
153 { | |
154 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
155 } | |
156 | |
157 threadsCount_ = threads; | |
158 } | |
159 | |
160 | |
161 void DicomizerParameters::SetDicomMaxFileSize(unsigned int size) | |
162 { | |
163 maxDicomFileSize_ = size; | |
164 } | |
165 | |
166 | |
167 void DicomizerParameters::SetPyramidLevelsCount(unsigned int count) | |
168 { | |
91 | 169 if (count == 0) |
0 | 170 { |
171 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
172 } | |
173 | |
174 pyramidLevelsCount_ = count; | |
175 } | |
176 | |
177 | |
178 unsigned int DicomizerParameters::GetPyramidLevelsCount(const IPyramidWriter& target, | |
179 const ITiledPyramid& source) const | |
180 { | |
181 if (pyramidLevelsCount_ != 0) | |
182 { | |
183 return pyramidLevelsCount_; | |
184 } | |
185 | |
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186 ImageToolbox::CheckConstantTileSize(source); |
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187 |
0 | 188 // By default, the number of levels for the pyramid is taken so that |
189 // the upper level is reduced either to 1 column of tiles, or to 1 | |
190 // row of tiles. | |
191 unsigned int totalWidth = source.GetLevelWidth(0); | |
192 unsigned int totalHeight = source.GetLevelHeight(0); | |
193 | |
194 unsigned int countLevels = 1; | |
195 for (;;) | |
196 { | |
197 unsigned int zoom = 1 << (countLevels - 1); | |
198 | |
199 if (CeilingDivision(totalWidth, zoom) <= target.GetTileWidth() || | |
200 CeilingDivision(totalHeight, zoom) <= target.GetTileHeight()) | |
201 { | |
202 break; | |
203 } | |
204 | |
205 countLevels += 1; | |
206 } | |
207 | |
208 return countLevels; | |
209 } | |
210 | |
211 | |
212 void DicomizerParameters::SetPyramidLowerLevelsCount(unsigned int count) | |
213 { | |
91 | 214 if (count == 0) |
0 | 215 { |
216 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
217 } | |
218 | |
219 pyramidLowerLevelsCount_ = count; | |
220 } | |
221 | |
222 | |
223 unsigned int DicomizerParameters::GetPyramidLowerLevelsCount(const IPyramidWriter& target, | |
224 const ITiledPyramid& source) const | |
225 { | |
226 if (pyramidLowerLevelsCount_ != 0) | |
227 { | |
228 return pyramidLowerLevelsCount_; | |
229 } | |
230 | |
231 unsigned int fullNumberOfTiles = ( | |
217
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232 CeilingDivision(source.GetLevelWidth(0), source.GetTileWidth(0)) * |
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233 CeilingDivision(source.GetLevelHeight(0), source.GetTileHeight(0))); |
0 | 234 |
235 // By default, the number of lower levels in the pyramid is chosen | |
236 // as a compromise between the number of tasks (there should not be | |
237 // too few tasks, otherwise multithreading would not be efficient) | |
238 // and memory consumption (maximum 64MB of RAM due to the decoding | |
239 // of the tiles of the source image per thread: cf. PyramidReader). | |
240 unsigned int result = 1; | |
241 for (;;) | |
242 { | |
243 unsigned int zoom = 1 << (result - 1); | |
244 unsigned int numberOfTiles = CeilingDivision(fullNumberOfTiles, zoom * zoom); | |
245 | |
246 if (result + 1 > target.GetLevelCount() || | |
247 numberOfTiles < 4 * GetThreadsCount() || | |
248 zoom * target.GetTileWidth() > 4096 || | |
249 zoom * target.GetTileHeight() > 4096) | |
250 { | |
251 break; | |
252 } | |
253 | |
254 result += 1; | |
255 } | |
256 | |
257 return result - 1; | |
258 } | |
259 | |
260 | |
261 void DicomizerParameters::SetJpegQuality(int quality) | |
262 { | |
263 if (quality <= 0 || | |
264 quality > 100) | |
265 { | |
266 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
267 } | |
268 | |
269 jpegQuality_ = quality; | |
270 } | |
271 | |
272 | |
273 IFileTarget* DicomizerParameters::CreateTarget() const | |
274 { | |
275 if (folder_.empty() || | |
276 folderPattern_.empty()) | |
277 { | |
278 return new OrthancTarget(orthanc_); | |
279 } | |
280 else | |
281 { | |
282 return new FolderTarget(folder_ + "/" + folderPattern_); | |
283 } | |
284 } | |
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285 |
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286 |
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287 void DicomizerParameters::SetCytomineSource(const std::string& url, |
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288 const std::string& publicKey, |
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289 const std::string& privateKey, |
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290 int imageInstanceId, |
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291 ImageCompression cytomineCompression) |
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292 { |
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293 isCytomineSource_ = true; |
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294 cytomineServer_.SetUrl(url); |
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295 cytominePublicKey_ = publicKey; |
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296 cytominePrivateKey_ = privateKey; |
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297 cytomineImageInstanceId_ = imageInstanceId; |
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298 cytomineCompression_ = cytomineCompression; |
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299 } |
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300 |
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301 |
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302 const Orthanc::WebServiceParameters& DicomizerParameters::GetCytomineServer() const |
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303 { |
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304 if (isCytomineSource_) |
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305 { |
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306 return cytomineServer_; |
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307 } |
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308 else |
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309 { |
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310 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
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311 } |
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312 } |
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313 |
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314 |
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315 const std::string& DicomizerParameters::GetCytominePublicKey() const |
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316 { |
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317 if (isCytomineSource_) |
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318 { |
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319 return cytominePublicKey_; |
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320 } |
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321 else |
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322 { |
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323 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
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324 } |
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325 } |
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326 |
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327 |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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328 const std::string& DicomizerParameters::GetCytominePrivateKey() const |
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329 { |
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330 if (isCytomineSource_) |
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331 { |
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332 return cytominePrivateKey_; |
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333 } |
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334 else |
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335 { |
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336 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
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337 } |
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338 } |
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339 |
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340 |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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341 int DicomizerParameters::GetCytomineImageInstanceId() const |
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342 { |
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343 if (isCytomineSource_) |
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344 { |
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345 return cytomineImageInstanceId_; |
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346 } |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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347 else |
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348 { |
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349 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
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350 } |
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351 } |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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352 |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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353 |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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354 ImageCompression DicomizerParameters::GetCytomineCompression() const |
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355 { |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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356 if (isCytomineSource_) |
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357 { |
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358 return cytomineCompression_; |
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359 } |
4273518c2009
OrthancWSIDicomizer: Support importing of images from Cytomine
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360 else |
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OrthancWSIDicomizer: Support importing of images from Cytomine
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diff
changeset
|
361 { |
4273518c2009
OrthancWSIDicomizer: Support importing of images from Cytomine
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362 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
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diff
changeset
|
363 } |
4273518c2009
OrthancWSIDicomizer: Support importing of images from Cytomine
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364 } |
298
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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diff
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|
365 |
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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366 |
324
a92bb720f90b
renamed option --tiff-alignment as --padding
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367 void DicomizerParameters::SetPadding(unsigned int padding) |
298
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New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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368 { |
324
a92bb720f90b
renamed option --tiff-alignment as --padding
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369 if (padding == 0) |
298
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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370 { |
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New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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371 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); |
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New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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diff
changeset
|
372 } |
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
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parents:
254
diff
changeset
|
373 else |
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
254
diff
changeset
|
374 { |
324
a92bb720f90b
renamed option --tiff-alignment as --padding
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
323
diff
changeset
|
375 padding_ = padding; |
298
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
254
diff
changeset
|
376 } |
fa734a851551
New option: "tiff-alignment" to control deep zoom of plain TIFF over IIIF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
254
diff
changeset
|
377 } |
0 | 378 } |