Mercurial > hg > orthanc-webviewer
annotate Plugin/DecodedImageAdapter.cpp @ 102:21123729ac71 refactoring
simplification
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Mon, 30 Nov 2015 11:02:50 +0100 |
| parents | 2932473a9b19 |
| children | d5396fcd80bb |
| rev | line source |
|---|---|
| 0 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 3 * Copyright (C) 2012-2015 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 | |
| 21 #include "DecodedImageAdapter.h" | |
| 22 | |
| 96 | 23 #include "../Orthanc/Core/Images/ImageBuffer.h" |
| 24 #include "../Orthanc/Core/Images/ImageProcessing.h" | |
| 25 #include "../Orthanc/Core/OrthancException.h" | |
| 102 | 26 #include "../Orthanc/Core/Toolbox.h" |
| 96 | 27 #include "../Orthanc/Plugins/Samples/GdcmDecoder/OrthancImageWrapper.h" |
| 28 #include "../Orthanc/Resources/ThirdParty/base64/base64.h" | |
| 0 | 29 #include "ViewerToolbox.h" |
| 30 | |
| 31 #include <boost/lexical_cast.hpp> | |
| 32 #include <boost/algorithm/string/predicate.hpp> | |
| 33 #include <json/writer.h> | |
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34 #include <boost/regex.hpp> |
| 0 | 35 |
| 36 namespace OrthancPlugins | |
| 37 { | |
| 38 bool DecodedImageAdapter::ParseUri(CompressionType& type, | |
| 39 uint8_t& compressionLevel, | |
| 40 std::string& instanceId, | |
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41 unsigned int& frameIndex, |
| 0 | 42 const std::string& uri) |
| 43 { | |
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44 boost::regex pattern("^([a-z0-9]+)-([a-z0-9-]+)_([0-9]+)$"); |
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45 |
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46 boost::cmatch what; |
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47 if (!regex_match(uri.c_str(), what, pattern)) |
| 0 | 48 { |
| 49 return false; | |
| 50 } | |
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51 |
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52 std::string compression(what[1]); |
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53 instanceId = what[2]; |
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54 frameIndex = boost::lexical_cast<unsigned int>(what[3]); |
| 0 | 55 |
| 56 if (compression == "deflate") | |
| 57 { | |
| 58 type = CompressionType_Deflate; | |
| 59 } | |
| 60 else if (boost::starts_with(compression, "jpeg")) | |
| 61 { | |
| 62 type = CompressionType_Jpeg; | |
| 63 int level = boost::lexical_cast<int>(compression.substr(4)); | |
| 64 if (level <= 0 || level > 100) | |
| 65 { | |
| 66 return false; | |
| 67 } | |
| 68 | |
| 69 compressionLevel = static_cast<uint8_t>(level); | |
| 70 } | |
| 71 else | |
| 72 { | |
| 73 return false; | |
| 74 } | |
| 75 | |
| 76 return true; | |
| 77 } | |
| 78 | |
| 79 | |
| 80 | |
| 81 bool DecodedImageAdapter::Create(std::string& content, | |
| 82 const std::string& uri) | |
| 83 { | |
| 84 std::string message = "Decoding DICOM instance: " + uri; | |
| 85 OrthancPluginLogInfo(context_, message.c_str()); | |
| 86 | |
| 87 CompressionType type; | |
| 88 uint8_t level; | |
| 89 std::string instanceId; | |
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90 unsigned int frameIndex; |
| 0 | 91 |
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92 if (!ParseUri(type, level, instanceId, frameIndex, uri)) |
| 0 | 93 { |
| 94 return false; | |
| 95 } | |
| 96 | |
| 96 | 97 |
| 98 bool ok = false; | |
| 99 | |
| 100 Json::Value tags; | |
| 101 std::string dicom; | |
| 102 if (!GetStringFromOrthanc(dicom, context_, "/instances/" + instanceId + "/file") || | |
| 103 !GetJsonFromOrthanc(tags, context_, "/instances/" + instanceId + "/tags")) | |
| 104 { | |
| 105 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 106 } | |
| 107 | |
| 102 | 108 std::auto_ptr<OrthancImageWrapper> image(new OrthancImageWrapper(context_, OrthancPluginDecodeDicomImage(context_, dicom.c_str(), dicom.size(), frameIndex))); |
| 96 | 109 |
| 110 Json::Value json; | |
| 111 if (GetCornerstoneMetadata(json, tags, *image)) | |
| 112 { | |
| 113 if (type == CompressionType_Deflate) | |
| 114 { | |
| 115 ok = EncodeUsingDeflate(json, *image, 9); | |
| 116 } | |
| 117 else if (type == CompressionType_Jpeg) | |
| 118 { | |
| 119 ok = EncodeUsingJpeg(json, *image, level); | |
| 120 } | |
| 121 } | |
| 122 | |
| 31 | 123 if (ok) |
| 124 { | |
| 125 Json::FastWriter writer; | |
| 126 content = writer.write(json); | |
| 127 return true; | |
| 0 | 128 } |
| 129 else | |
| 130 { | |
| 31 | 131 char msg[1024]; |
| 132 sprintf(msg, "Unable to decode the following instance: %s", uri.c_str()); | |
| 133 OrthancPluginLogWarning(context_, msg); | |
| 0 | 134 return false; |
| 135 } | |
| 136 } | |
| 96 | 137 |
| 138 | |
| 102 | 139 static bool GetStringTag(std::string& value, |
| 140 const Json::Value& tags, | |
| 141 const std::string& tag) | |
| 96 | 142 { |
| 143 if (tags.type() == Json::objectValue && | |
| 144 tags.isMember(tag) && | |
| 145 tags[tag].type() == Json::objectValue && | |
| 146 tags[tag].isMember("Type") && | |
| 147 tags[tag].isMember("Value") && | |
| 148 tags[tag]["Type"].type() == Json::stringValue && | |
| 149 tags[tag]["Value"].type() == Json::stringValue && | |
| 150 tags[tag]["Type"].asString() == "String") | |
| 151 { | |
| 152 value = tags[tag]["Value"].asString(); | |
| 153 return true; | |
| 154 } | |
| 155 else | |
| 156 { | |
| 157 return false; | |
| 158 } | |
| 159 } | |
| 160 | |
| 161 | |
| 102 | 162 static float GetFloatTag(const Json::Value& tags, |
| 163 const std::string& tag, | |
| 164 float defaultValue) | |
| 165 { | |
| 166 std::string tmp; | |
| 167 if (GetStringTag(tmp, tags, tag)) | |
| 168 { | |
| 169 try | |
| 170 { | |
| 171 return boost::lexical_cast<float>(tmp); | |
| 172 } | |
| 173 catch (boost::bad_lexical_cast&) | |
| 174 { | |
| 175 } | |
| 176 } | |
| 177 | |
| 178 return defaultValue; | |
| 179 } | |
| 180 | |
| 181 | |
| 96 | 182 |
| 183 bool DecodedImageAdapter::GetCornerstoneMetadata(Json::Value& result, | |
| 184 const Json::Value& tags, | |
| 185 OrthancImageWrapper& image) | |
| 186 { | |
| 187 using namespace Orthanc; | |
| 188 | |
| 189 float windowCenter, windowWidth; | |
| 190 | |
| 191 Orthanc::ImageAccessor accessor; | |
| 192 accessor.AssignReadOnly(OrthancPlugins::Convert(image.GetFormat()), image.GetWidth(), | |
| 193 image.GetHeight(), image.GetPitch(), image.GetBuffer()); | |
| 194 | |
| 195 switch (accessor.GetFormat()) | |
| 196 { | |
| 197 case PixelFormat_Grayscale8: | |
| 198 case PixelFormat_Grayscale16: | |
| 199 case PixelFormat_SignedGrayscale16: | |
| 200 { | |
| 201 int64_t a, b; | |
| 202 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor); | |
| 203 result["minPixelValue"] = (a < 0 ? static_cast<int32_t>(a) : 0); | |
| 204 result["maxPixelValue"] = (b > 0 ? static_cast<int32_t>(b) : 1); | |
| 205 result["color"] = false; | |
| 206 | |
| 207 windowCenter = static_cast<float>(a + b) / 2.0f; | |
| 208 | |
| 209 if (a == b) | |
| 210 { | |
| 211 windowWidth = 256.0f; // Arbitrary value | |
| 212 } | |
| 213 else | |
| 214 { | |
| 215 windowWidth = static_cast<float>(b - a) / 2.0f; | |
| 216 } | |
| 217 | |
| 218 break; | |
| 219 } | |
| 220 | |
| 221 case PixelFormat_RGB24: | |
| 222 result["minPixelValue"] = 0; | |
| 223 result["maxPixelValue"] = 255; | |
| 224 result["color"] = true; | |
| 225 windowCenter = 127.5f; | |
| 226 windowWidth = 256.0f; | |
| 227 break; | |
| 228 | |
| 229 default: | |
| 230 return false; | |
| 231 } | |
| 232 | |
| 102 | 233 float slope = GetFloatTag(tags, "0028,1053", 1.0f); |
| 234 float intercept = GetFloatTag(tags, "0028,1052", 1.0f); | |
| 235 | |
| 236 result["slope"] = slope; | |
| 237 result["intercept"] = intercept; | |
| 96 | 238 result["rows"] = image.GetHeight(); |
| 239 result["columns"] = image.GetWidth(); | |
| 240 result["height"] = image.GetHeight(); | |
| 241 result["width"] = image.GetWidth(); | |
| 242 | |
| 102 | 243 bool ok = false; |
| 244 std::string pixelSpacing; | |
| 245 if (GetStringTag(pixelSpacing, tags, "0028,0030")) | |
| 96 | 246 { |
| 102 | 247 std::vector<std::string> tokens; |
| 248 Orthanc::Toolbox::TokenizeString(tokens, pixelSpacing, '\\'); | |
| 249 | |
| 250 if (tokens.size() >= 2) | |
| 96 | 251 { |
| 102 | 252 try |
| 253 { | |
| 254 result["columnPixelSpacing"] = boost::lexical_cast<float>(tokens[1]); | |
| 255 result["rowPixelSpacing"] = boost::lexical_cast<float>(tokens[0]); | |
| 256 ok = true; | |
| 257 } | |
| 258 catch (boost::bad_lexical_cast&) | |
| 259 { | |
| 260 } | |
| 96 | 261 } |
| 262 } | |
| 102 | 263 |
| 264 if (!ok) | |
| 96 | 265 { |
| 102 | 266 result["columnPixelSpacing"] = 1.0f; |
| 267 result["rowPixelSpacing"] = 1.0f; | |
| 96 | 268 } |
| 269 | |
| 102 | 270 result["windowCenter"] = GetFloatTag(tags, "0028,1050", windowCenter * slope + intercept); |
| 271 result["windowWidth"] = GetFloatTag(tags, "0028,1051", windowWidth * slope); | |
| 272 | |
| 96 | 273 return true; |
| 274 } | |
| 275 | |
| 276 | |
| 277 | |
| 278 bool DecodedImageAdapter::EncodeUsingDeflate(Json::Value& result, | |
| 279 OrthancImageWrapper& image, | |
| 280 uint8_t compressionLevel /* between 0 and 9 */) | |
| 281 { | |
| 282 Orthanc::ImageAccessor accessor; | |
| 283 accessor.AssignReadOnly(OrthancPlugins::Convert(image.GetFormat()), image.GetWidth(), | |
| 284 image.GetHeight(), image.GetPitch(), image.GetBuffer()); | |
| 285 | |
| 286 Orthanc::ImageBuffer buffer; | |
| 287 buffer.SetMinimalPitchForced(true); | |
| 288 | |
| 289 Orthanc::ImageAccessor converted; | |
| 290 | |
| 291 switch (accessor.GetFormat()) | |
| 292 { | |
| 293 case Orthanc::PixelFormat_RGB24: | |
| 294 converted = accessor; | |
| 295 break; | |
| 296 | |
| 297 case Orthanc::PixelFormat_Grayscale8: | |
| 298 case Orthanc::PixelFormat_Grayscale16: | |
| 299 buffer.SetFormat(Orthanc::PixelFormat_SignedGrayscale16); | |
| 300 buffer.SetWidth(accessor.GetWidth()); | |
| 301 buffer.SetHeight(accessor.GetHeight()); | |
| 302 converted = buffer.GetAccessor(); | |
| 303 Orthanc::ImageProcessing::Convert(converted, accessor); | |
| 304 break; | |
| 305 | |
| 306 case Orthanc::PixelFormat_SignedGrayscale16: | |
| 307 converted = accessor; | |
| 308 break; | |
| 309 | |
| 310 default: | |
| 311 // Unsupported pixel format | |
| 312 return false; | |
| 313 } | |
| 314 | |
| 315 // Sanity check: The pitch must be minimal | |
| 316 assert(converted.GetSize() == converted.GetWidth() * converted.GetHeight() * | |
| 317 GetBytesPerPixel(converted.GetFormat())); | |
| 318 result["Orthanc"]["Compression"] = "Deflate"; | |
| 319 result["sizeInBytes"] = converted.GetSize(); | |
| 320 | |
| 321 std::string z; | |
| 322 CompressUsingDeflate(z, image.GetContext(), converted.GetConstBuffer(), converted.GetSize()); | |
| 323 | |
| 324 result["Orthanc"]["PixelData"] = base64_encode(z); | |
| 325 | |
| 326 return true; | |
| 327 } | |
| 328 | |
| 329 | |
| 330 | |
| 331 template <typename TargetType, typename SourceType> | |
| 332 static void ChangeDynamics(Orthanc::ImageAccessor& target, | |
| 333 const Orthanc::ImageAccessor& source, | |
| 334 SourceType source1, TargetType target1, | |
| 335 SourceType source2, TargetType target2) | |
| 336 { | |
| 337 if (source.GetWidth() != target.GetWidth() || | |
| 338 source.GetHeight() != target.GetHeight()) | |
| 339 { | |
| 340 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageSize); | |
| 341 } | |
| 342 | |
| 343 float scale = static_cast<float>(target2 - target1) / static_cast<float>(source2 - source1); | |
| 344 float offset = static_cast<float>(target1) - scale * static_cast<float>(source1); | |
| 345 | |
| 346 const float minValue = static_cast<float>(std::numeric_limits<TargetType>::min()); | |
| 347 const float maxValue = static_cast<float>(std::numeric_limits<TargetType>::max()); | |
| 348 | |
| 349 for (unsigned int y = 0; y < source.GetHeight(); y++) | |
| 350 { | |
| 351 const SourceType* p = reinterpret_cast<const SourceType*>(source.GetConstRow(y)); | |
| 352 TargetType* q = reinterpret_cast<TargetType*>(target.GetRow(y)); | |
| 353 | |
| 354 for (unsigned int x = 0; x < source.GetWidth(); x++, p++, q++) | |
| 355 { | |
| 356 float v = (scale * static_cast<float>(*p)) + offset; | |
| 357 | |
| 358 if (v > maxValue) | |
| 359 { | |
| 360 *q = std::numeric_limits<TargetType>::max(); | |
| 361 } | |
| 362 else if (v < minValue) | |
| 363 { | |
| 364 *q = std::numeric_limits<TargetType>::min(); | |
| 365 } | |
| 366 else | |
| 367 { | |
| 101 | 368 //*q = static_cast<TargetType>(boost::math::iround(v)); |
| 369 | |
| 370 // http://stackoverflow.com/a/485546/881731 | |
| 371 *q = static_cast<TargetType>(floor(v + 0.5f)); | |
| 96 | 372 } |
| 373 } | |
| 374 } | |
| 375 } | |
| 376 | |
| 377 | |
| 378 bool DecodedImageAdapter::EncodeUsingJpeg(Json::Value& result, | |
| 379 OrthancImageWrapper& image, | |
| 380 uint8_t quality /* between 0 and 100 */) | |
| 381 { | |
| 382 Orthanc::ImageAccessor accessor; | |
| 383 accessor.AssignReadOnly(OrthancPlugins::Convert(image.GetFormat()), image.GetWidth(), | |
| 384 image.GetHeight(), image.GetPitch(), image.GetBuffer()); | |
| 385 | |
| 386 Orthanc::ImageBuffer buffer; | |
| 387 buffer.SetMinimalPitchForced(true); | |
| 388 | |
| 389 Orthanc::ImageAccessor converted; | |
| 390 | |
| 391 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale8 || | |
| 392 accessor.GetFormat() == Orthanc::PixelFormat_RGB24) | |
| 393 { | |
| 394 result["Orthanc"]["Stretched"] = false; | |
| 395 converted = accessor; | |
| 396 } | |
| 397 else if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16 || | |
| 398 accessor.GetFormat() == Orthanc::PixelFormat_SignedGrayscale16) | |
| 399 { | |
| 400 result["Orthanc"]["Stretched"] = true; | |
| 401 buffer.SetFormat(Orthanc::PixelFormat_Grayscale8); | |
| 402 buffer.SetWidth(accessor.GetWidth()); | |
| 403 buffer.SetHeight(accessor.GetHeight()); | |
| 404 converted = buffer.GetAccessor(); | |
| 405 | |
| 406 int64_t a, b; | |
| 407 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor); | |
| 408 result["Orthanc"]["StretchLow"] = static_cast<int32_t>(a); | |
| 409 result["Orthanc"]["StretchHigh"] = static_cast<int32_t>(b); | |
| 410 | |
| 411 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16) | |
| 412 { | |
| 413 ChangeDynamics<uint8_t, uint16_t>(converted, accessor, a, 0, b, 255); | |
| 414 } | |
| 415 else | |
| 416 { | |
| 417 ChangeDynamics<uint8_t, int16_t>(converted, accessor, a, 0, b, 255); | |
| 418 } | |
| 419 } | |
| 420 else | |
| 421 { | |
| 422 return false; | |
| 423 } | |
| 424 | |
| 425 result["Orthanc"]["Compression"] = "Jpeg"; | |
| 426 result["sizeInBytes"] = converted.GetSize(); | |
| 427 | |
| 428 std::string jpeg; | |
| 429 WriteJpegToMemory(jpeg, image.GetContext(), converted, quality); | |
| 430 | |
| 431 result["Orthanc"]["PixelData"] = base64_encode(jpeg); | |
| 432 return true; | |
| 433 } | |
| 0 | 434 } |