Mercurial > hg > orthanc-wsi
annotate Framework/Outputs/HierarchicalTiffWriter.cpp @ 16:7a88c614be04
preparing for precompiled headers
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Thu, 27 Oct 2016 11:01:26 +0200 |
parents | 4a7a53257c7d |
children | 9621fd6f17c9 |
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:
0
diff
changeset
|
21 #include "../PrecompiledHeadersWSI.h" |
0 | 22 #include "HierarchicalTiffWriter.h" |
23 | |
24 #include "../Orthanc/Core/Logging.h" | |
25 #include "../Orthanc/Core/OrthancException.h" | |
26 #include "../Orthanc/Core/Uuid.h" | |
27 | |
28 namespace OrthancWSI | |
29 { | |
30 class HierarchicalTiffWriter::PendingTile | |
31 { | |
32 private: | |
33 HierarchicalTiffWriter& that_; | |
34 unsigned int level_; | |
35 unsigned int tileX_; | |
36 unsigned int tileY_; | |
37 Orthanc::Toolbox::TemporaryFile file_; | |
38 | |
39 public: | |
40 PendingTile(HierarchicalTiffWriter& that, | |
41 unsigned int level, | |
42 unsigned int tileX, | |
43 unsigned int tileY, | |
44 const std::string& tile) : | |
45 that_(that), | |
46 level_(level), | |
47 tileX_(tileX), | |
48 tileY_(tileY) | |
49 { | |
50 file_.Write(tile); | |
51 } | |
52 | |
53 unsigned int GetLevel() const | |
54 { | |
55 return level_; | |
56 } | |
57 | |
58 unsigned int GetTileX() const | |
59 { | |
60 return tileX_; | |
61 } | |
62 | |
63 unsigned int GetTileY() const | |
64 { | |
65 return tileY_; | |
66 } | |
67 | |
68 void Store(TIFF* tiff) | |
69 { | |
70 std::string tile; | |
71 file_.Read(tile); | |
72 that_.StoreTile(tile, tileX_, tileY_); | |
73 } | |
74 }; | |
75 | |
76 | |
77 struct HierarchicalTiffWriter::Comparator | |
78 { | |
79 inline bool operator() (PendingTile* const& a, | |
80 PendingTile* const& b) | |
81 { | |
82 if (a->GetLevel() < b->GetLevel()) | |
83 { | |
84 return true; | |
85 } | |
86 | |
87 if (a->GetLevel() > b->GetLevel()) | |
88 { | |
89 return false; | |
90 } | |
91 | |
92 if (a->GetTileY() < b->GetTileY()) | |
93 { | |
94 return true; | |
95 } | |
96 | |
97 if (a->GetTileY() > b->GetTileY()) | |
98 { | |
99 return false; | |
100 } | |
101 | |
102 return a->GetTileX() < b->GetTileX(); | |
103 } | |
104 }; | |
105 | |
106 | |
107 static uint8_t GetUint8(const std::string& tile, | |
108 size_t index) | |
109 { | |
110 if (index >= tile.size()) | |
111 { | |
112 return 0; | |
113 } | |
114 else | |
115 { | |
116 return static_cast<uint8_t>(tile[index]); | |
117 } | |
118 } | |
119 | |
120 | |
121 #if 0 | |
122 static uint16_t GetUint16(const std::string& tile, | |
123 size_t index) | |
124 { | |
125 if (index + 1 >= tile.size()) | |
126 { | |
127 return 0; | |
128 } | |
129 else | |
130 { | |
131 return static_cast<uint16_t>(tile[index]) * 256 + static_cast<uint16_t>(tile[index + 1]); | |
132 } | |
133 } | |
134 #endif | |
135 | |
136 | |
137 static void CheckJpegTile(const std::string& tile, | |
138 Orthanc::PixelFormat pixelFormat) | |
139 { | |
140 // Check the sampling by accessing the "Start of Frame" header of JPEG | |
141 | |
142 if (tile.size() < 3 || | |
143 static_cast<uint8_t>(tile[0]) != 0xff || | |
144 static_cast<uint8_t>(tile[1]) != 0xd8 || | |
145 static_cast<uint8_t>(tile[2]) != 0xff) | |
146 { | |
147 LOG(WARNING) << "The source image does not contain JPEG tiles"; | |
148 return; | |
149 } | |
150 | |
151 // Look for the "Start of Frame" header (FF C0) | |
152 for (size_t i = 2; i + 1 < tile.size(); i++) | |
153 { | |
154 if (static_cast<uint8_t>(tile[i]) == 0xff && | |
155 static_cast<uint8_t>(tile[i + 1]) == 0xc0) | |
156 { | |
157 uint8_t numberOfComponents = GetUint8(tile, i + 9); | |
158 | |
159 switch (pixelFormat) | |
160 { | |
161 case Orthanc::PixelFormat_Grayscale8: | |
162 if (numberOfComponents != 3) | |
163 { | |
164 LOG(WARNING) << "The source image does not contain a grayscale image as expected"; | |
165 } | |
166 break; | |
167 | |
168 case Orthanc::PixelFormat_RGB24: | |
169 { | |
170 if (numberOfComponents != 3) | |
171 { | |
172 LOG(WARNING) << "The source image does not contain a RGB24 color image as expected"; | |
173 } | |
174 | |
175 // Read the header corresponding to the first component | |
176 const size_t component = 0; | |
177 const size_t offset = i + 10 + component * 3; | |
178 const uint8_t sampling = GetUint8(tile, offset + 1); | |
179 const int samplingH = sampling / 16; | |
180 const int samplingV = sampling % 16; | |
181 | |
182 LOG(WARNING) << "The source image uses chroma sampling " << samplingH << ":" << samplingV; | |
183 | |
184 if (samplingH != 2 || | |
185 samplingV != 2) | |
186 { | |
187 LOG(WARNING) << "The source image has not a chroma sampling of 2:2, " | |
188 << "you should consider using option \"--reencode\""; | |
189 } | |
190 | |
191 break; | |
192 } | |
193 | |
194 default: | |
195 break; | |
196 } | |
197 } | |
198 } | |
199 } | |
200 | |
201 | |
202 | |
203 void HierarchicalTiffWriter::StoreTile(const std::string& tile, | |
204 unsigned int tileX, | |
205 unsigned int tileY) | |
206 { | |
207 // Get the index of the tile | |
208 ttile_t index = TIFFComputeTile(tiff_, tileX * GetTileWidth(), tileY * GetTileHeight(), 0 /*z*/, 0 /*sample*/); | |
209 | |
210 if (TIFFWriteRawTile(tiff_, index, tile.size() ? const_cast<char*>(&tile[0]) : NULL, tile.size()) != | |
211 static_cast<tsize_t>(tile.size())) | |
212 { | |
213 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
214 } | |
215 | |
216 if (isFirst_ && | |
217 GetImageCompression() == ImageCompression_Jpeg) | |
218 { | |
219 CheckJpegTile(tile, GetPixelFormat()); | |
220 } | |
221 | |
222 isFirst_ = false; | |
223 } | |
224 | |
225 | |
226 void HierarchicalTiffWriter::ConfigureLevel(const Level& level, | |
227 bool createLevel) | |
228 { | |
229 if (createLevel && TIFFWriteDirectory(tiff_) != 1) | |
230 { | |
231 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
232 } | |
233 | |
234 if (TIFFFlush(tiff_) != 1) | |
235 { | |
236 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
237 } | |
238 | |
239 currentLevel_ = level.z_; | |
240 nextX_ = 0; | |
241 nextY_ = 0; | |
242 | |
243 switch (GetImageCompression()) | |
244 { | |
245 case ImageCompression_Jpeg: | |
246 { | |
247 uint16_t c = COMPRESSION_JPEG; | |
248 | |
249 if (TIFFSetField(tiff_, TIFFTAG_COMPRESSION, c) != 1) | |
250 { | |
251 Close(); | |
252 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
253 } | |
254 | |
255 break; | |
256 } | |
257 | |
258 default: | |
259 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); | |
260 } | |
261 | |
262 | |
263 switch (GetPixelFormat()) | |
264 { | |
265 case Orthanc::PixelFormat_RGB24: | |
266 { | |
267 uint16_t samplesPerPixel = 3; | |
268 uint16_t photometric = PHOTOMETRIC_YCBCR; | |
269 uint16_t planar = PLANARCONFIG_CONTIG; // Interleaved RGB | |
270 uint16_t bpp = 8; | |
271 uint16_t subsampleHorizontal = 2; | |
272 uint16_t subsampleVertical = 2; | |
273 | |
274 if (TIFFSetField(tiff_, TIFFTAG_SAMPLESPERPIXEL, samplesPerPixel) != 1 || | |
275 TIFFSetField(tiff_, TIFFTAG_PHOTOMETRIC, photometric) != 1 || | |
276 TIFFSetField(tiff_, TIFFTAG_BITSPERSAMPLE, bpp) != 1 || | |
277 TIFFSetField(tiff_, TIFFTAG_PLANARCONFIG, planar) != 1 || | |
278 TIFFSetField(tiff_, TIFFTAG_YCBCRSUBSAMPLING, subsampleHorizontal, subsampleVertical) != 1) | |
279 { | |
280 Close(); | |
281 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
282 } | |
283 | |
284 break; | |
285 } | |
286 | |
287 default: | |
288 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); | |
289 } | |
290 | |
291 uint32_t w = level.width_; | |
292 uint32_t h = level.height_; | |
293 uint32_t tw = GetTileWidth(); | |
294 uint32_t th = GetTileHeight(); | |
295 | |
296 if (TIFFSetField(tiff_, TIFFTAG_IMAGEWIDTH, w) != 1 || | |
297 TIFFSetField(tiff_, TIFFTAG_IMAGELENGTH, h) != 1 || | |
298 TIFFSetField(tiff_, TIFFTAG_TILEWIDTH, tw) != 1 || | |
299 TIFFSetField(tiff_, TIFFTAG_TILELENGTH, th) != 1) | |
300 { | |
301 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
302 } | |
303 } | |
304 | |
305 | |
306 void HierarchicalTiffWriter::AdvanceToNextTile() | |
307 { | |
308 assert(currentLevel_ < levels_.size()); | |
309 | |
310 nextX_ += 1; | |
311 if (nextX_ >= levels_[currentLevel_].countTilesX_) | |
312 { | |
313 nextX_ = 0; | |
314 nextY_ += 1; | |
315 | |
316 if (nextY_ >= levels_[currentLevel_].countTilesY_) | |
317 { | |
318 currentLevel_ += 1; | |
319 | |
320 if (currentLevel_ < levels_.size()) | |
321 { | |
322 ConfigureLevel(levels_[currentLevel_], true); | |
323 } | |
324 } | |
325 } | |
326 } | |
327 | |
328 | |
329 void HierarchicalTiffWriter::ScanPending() | |
330 { | |
331 std::sort(pending_.begin(), pending_.end(), Comparator()); | |
332 | |
333 while (currentLevel_ < levels_.size() && | |
334 !pending_.empty() && | |
335 pending_.front()->GetLevel() == currentLevel_ && | |
336 pending_.front()->GetTileX() == nextX_ && | |
337 pending_.front()->GetTileY() == nextY_) | |
338 { | |
339 pending_.front()->Store(tiff_); | |
340 delete pending_.front(); | |
341 pending_.pop_front(); | |
342 AdvanceToNextTile(); | |
343 } | |
344 } | |
345 | |
346 | |
347 void HierarchicalTiffWriter::WriteRawTileInternal(const std::string& tile, | |
348 const Level& level, | |
349 unsigned int tileX, | |
350 unsigned int tileY) | |
351 { | |
352 boost::mutex::scoped_lock lock(mutex_); | |
353 | |
354 if (level.z_ == currentLevel_ && | |
355 tileX == nextX_ && | |
356 tileY == nextY_) | |
357 { | |
358 StoreTile(tile, tileX, tileY); | |
359 AdvanceToNextTile(); | |
360 ScanPending(); | |
361 } | |
362 else | |
363 { | |
364 pending_.push_back(new PendingTile(*this, level.z_, tileX, tileY, tile)); | |
365 } | |
366 } | |
367 | |
368 | |
369 void HierarchicalTiffWriter::AddLevelInternal(const Level& level) | |
370 { | |
371 if (level.z_ == 0) | |
372 { | |
373 // Configure the finest level on initialization | |
374 ConfigureLevel(level, false); | |
375 } | |
376 | |
377 levels_.push_back(level); | |
378 } | |
379 | |
380 | |
381 HierarchicalTiffWriter::HierarchicalTiffWriter(const std::string& path, | |
382 Orthanc::PixelFormat pixelFormat, | |
383 ImageCompression compression, | |
384 unsigned int tileWidth, | |
385 unsigned int tileHeight) : | |
386 PyramidWriterBase(pixelFormat, compression, tileWidth, tileHeight), | |
387 currentLevel_(0), | |
388 isFirst_(true) | |
389 { | |
390 tiff_ = TIFFOpen(path.c_str(), "w"); | |
391 if (tiff_ == NULL) | |
392 { | |
393 throw Orthanc::OrthancException(Orthanc::ErrorCode_CannotWriteFile); | |
394 } | |
395 } | |
396 | |
397 | |
398 HierarchicalTiffWriter::~HierarchicalTiffWriter() | |
399 { | |
400 if (pending_.size()) | |
401 { | |
402 LOG(ERROR) << "Some tiles (" << pending_.size() << ") were not written to the TIFF file"; | |
403 } | |
404 | |
405 for (size_t i = 0; i < pending_.size(); i++) | |
406 { | |
407 if (pending_[i]) | |
408 { | |
409 delete pending_[i]; | |
410 } | |
411 } | |
412 | |
413 Close(); | |
414 } | |
415 | |
416 | |
417 void HierarchicalTiffWriter::Flush() | |
418 { | |
419 boost::mutex::scoped_lock lock(mutex_); | |
420 ScanPending(); | |
421 } | |
422 } |