Mercurial > hg > orthanc-wsi
annotate Framework/Inputs/DicomPyramid.cpp @ 261:c72fbdecdc38 iiif
reorganization
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Mon, 10 Jul 2023 08:59:40 +0200 |
| parents | 20a730889ae2 |
| children | fb689ed55c09 |
| 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 | |
| 254 | 5 * Copyright (C) 2017-2023 Osimis S.A., Belgium |
| 6 * Copyright (C) 2021-2023 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 "DicomPyramid.h" |
| 25 | |
| 26 #include "../DicomToolbox.h" | |
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27 |
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28 #include <Compatibility.h> |
| 192 | 29 #include <Logging.h> |
| 30 #include <OrthancException.h> | |
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31 #include <Toolbox.h> |
| 0 | 32 |
| 33 #include <algorithm> | |
| 34 #include <cassert> | |
| 35 | |
| 36 namespace OrthancWSI | |
| 37 { | |
| 38 struct DicomPyramid::Comparator | |
| 39 { | |
| 40 bool operator() (DicomPyramidInstance* const& a, | |
| 41 DicomPyramidInstance* const& b) const | |
| 42 { | |
| 43 return a->GetTotalWidth() > b->GetTotalWidth(); | |
| 44 } | |
| 45 }; | |
| 46 | |
| 47 | |
| 48 void DicomPyramid::Clear() | |
| 49 { | |
| 50 for (size_t i = 0; i < levels_.size(); i++) | |
| 51 { | |
| 52 if (levels_[i] != NULL) | |
| 53 { | |
| 54 delete levels_[i]; | |
| 55 } | |
| 56 } | |
| 57 | |
| 58 for (size_t i = 0; i < instances_.size(); i++) | |
| 59 { | |
| 60 if (instances_[i] != NULL) | |
| 61 { | |
| 62 delete instances_[i]; | |
| 63 } | |
| 64 } | |
| 65 } | |
| 66 | |
| 67 | |
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68 void DicomPyramid::RegisterInstances(const std::string& seriesId, |
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69 bool useCache) |
| 0 | 70 { |
| 71 Json::Value series; | |
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72 OrthancStone::IOrthancConnection::RestApiGet(series, orthanc_, "/series/" + seriesId); |
| 0 | 73 |
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74 if (series.type() != Json::objectValue || |
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75 !series.isMember("Instances") || |
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76 series["Instances"].type() != Json::arrayValue) |
| 0 | 77 { |
| 78 throw Orthanc::OrthancException(Orthanc::ErrorCode_NetworkProtocol); | |
| 79 } | |
| 80 | |
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81 const Json::Value& instances = series["Instances"]; |
| 0 | 82 instances_.reserve(instances.size()); |
| 83 | |
| 84 for (Json::Value::ArrayIndex i = 0; i < instances.size(); i++) | |
| 85 { | |
| 86 if (instances[i].type() != Json::stringValue) | |
| 87 { | |
| 88 throw Orthanc::OrthancException(Orthanc::ErrorCode_NetworkProtocol); | |
| 89 } | |
| 90 | |
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91 std::string instanceId = instances[i].asString(); |
| 0 | 92 |
| 93 try | |
| 94 { | |
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95 std::unique_ptr<DicomPyramidInstance> instance(new DicomPyramidInstance(orthanc_, instanceId, useCache)); |
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96 |
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97 std::vector<std::string> tokens; |
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98 Orthanc::Toolbox::TokenizeString(tokens, instance->GetImageType(), '\\'); |
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99 |
| 224 | 100 // Don't consider the thumbnail and overview as part of the DICOM pyramid (new in 1.0) |
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101 if (tokens.size() < 2 || |
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102 (tokens[2] != "THUMBNAIL" && |
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103 tokens[2] != "OVERVIEW")) |
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104 { |
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105 instances_.push_back(instance.release()); |
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106 } |
| 0 | 107 } |
| 108 catch (Orthanc::OrthancException&) | |
| 109 { | |
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110 LOG(ERROR) << "Skipping a DICOM instance that is not part of a whole-slide image: " << instanceId; |
| 0 | 111 } |
| 112 } | |
| 113 } | |
| 114 | |
| 115 | |
| 116 void DicomPyramid::Check(const std::string& seriesId) const | |
| 117 { | |
| 118 if (instances_.empty()) | |
| 119 { | |
| 120 LOG(ERROR) << "This series does not contain a whole-slide image: " << seriesId; | |
| 121 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 122 } | |
| 123 | |
| 124 const DicomPyramidInstance& a = *instances_[0]; | |
| 125 | |
| 126 for (size_t i = 1; i < instances_.size(); i++) | |
| 127 { | |
| 128 const DicomPyramidInstance& b = *instances_[i]; | |
| 129 | |
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130 if (a.GetPixelFormat() != b.GetPixelFormat() || |
| 0 | 131 a.GetTotalWidth() < b.GetTotalWidth() || |
| 132 a.GetTotalHeight() < b.GetTotalHeight()) | |
| 133 { | |
| 134 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat); | |
| 135 } | |
| 136 | |
| 137 if (a.GetTotalWidth() == b.GetTotalWidth() && | |
| 138 a.GetTotalHeight() != b.GetTotalHeight()) | |
| 139 { | |
| 140 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat); | |
| 141 } | |
| 142 } | |
| 143 } | |
| 144 | |
| 145 | |
| 146 void DicomPyramid::CheckLevel(size_t level) const | |
| 147 { | |
| 148 if (level >= levels_.size()) | |
| 149 { | |
| 150 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 151 } | |
| 152 } | |
| 153 | |
| 154 | |
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155 DicomPyramid::DicomPyramid(OrthancStone::IOrthancConnection& orthanc, |
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156 const std::string& seriesId, |
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157 bool useCache) : |
| 0 | 158 orthanc_(orthanc), |
| 159 seriesId_(seriesId) | |
| 160 { | |
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161 RegisterInstances(seriesId, useCache); |
| 0 | 162 |
| 163 // Sort the instances of the pyramid by decreasing total widths | |
| 164 std::sort(instances_.begin(), instances_.end(), Comparator()); | |
| 165 | |
| 166 try | |
| 167 { | |
| 168 Check(seriesId); | |
| 169 } | |
| 170 catch (Orthanc::OrthancException&) | |
| 171 { | |
| 172 Clear(); | |
| 173 throw; | |
| 174 } | |
| 175 | |
| 176 for (size_t i = 0; i < instances_.size(); i++) | |
| 177 { | |
| 178 if (i == 0 || | |
| 179 instances_[i - 1]->GetTotalWidth() != instances_[i]->GetTotalWidth()) | |
| 180 { | |
| 181 levels_.push_back(new DicomPyramidLevel(*instances_[i])); | |
| 182 } | |
| 183 else | |
| 184 { | |
| 185 assert(levels_.back() != NULL); | |
| 186 levels_.back()->AddInstance(*instances_[i]); | |
| 187 } | |
| 188 } | |
| 189 } | |
| 190 | |
| 191 | |
| 192 unsigned int DicomPyramid::GetLevelWidth(unsigned int level) const | |
| 193 { | |
| 194 CheckLevel(level); | |
| 195 return levels_[level]->GetTotalWidth(); | |
| 196 } | |
| 197 | |
| 198 | |
| 199 unsigned int DicomPyramid::GetLevelHeight(unsigned int level) const | |
| 200 { | |
| 201 CheckLevel(level); | |
| 202 return levels_[level]->GetTotalHeight(); | |
| 203 } | |
| 204 | |
| 205 | |
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206 unsigned int DicomPyramid::GetTileWidth(unsigned int level) const |
| 0 | 207 { |
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208 CheckLevel(level); |
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209 return levels_[level]->GetTileWidth(); |
| 0 | 210 } |
| 211 | |
| 212 | |
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213 unsigned int DicomPyramid::GetTileHeight(unsigned int level) const |
| 0 | 214 { |
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215 CheckLevel(level); |
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216 return levels_[level]->GetTileHeight(); |
| 0 | 217 } |
| 218 | |
| 219 | |
| 220 bool DicomPyramid::ReadRawTile(std::string& tile, | |
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221 ImageCompression& compression, |
| 0 | 222 unsigned int level, |
| 223 unsigned int tileX, | |
| 224 unsigned int tileY) | |
| 225 { | |
| 226 CheckLevel(level); | |
| 227 | |
| 228 Orthanc::PixelFormat format; | |
| 229 | |
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230 if (levels_[level]->DownloadRawTile(tile, format, compression, orthanc_, tileX, tileY)) |
| 0 | 231 { |
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232 if (format != GetPixelFormat()) |
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233 { |
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234 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); |
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235 } |
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236 |
| 0 | 237 return true; |
| 238 } | |
| 239 else | |
| 240 { | |
| 241 return false; | |
| 242 } | |
| 243 } | |
| 244 | |
| 245 | |
| 246 Orthanc::PixelFormat DicomPyramid::GetPixelFormat() const | |
| 247 { | |
| 248 assert(!instances_.empty() && instances_[0] != NULL); | |
| 249 return instances_[0]->GetPixelFormat(); | |
| 250 } | |
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251 |
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252 |
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253 Orthanc::PhotometricInterpretation DicomPyramid::GetPhotometricInterpretation() const |
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254 { |
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255 assert(!instances_.empty() && instances_[0] != NULL); |
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256 return instances_[0]->GetPhotometricInterpretation(); |
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257 } |
| 0 | 258 } |