Mercurial > hg > orthanc-wsi
annotate Framework/Inputs/DicomPyramid.cpp @ 312:0683312e21ba
updated copyright, as Orthanc Team now replaces Osimis
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 30 May 2024 22:11:10 +0200 |
| parents | 7020852a8fa9 |
| children | c42083d50ddf |
| 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 | |
|
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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 "DicomPyramid.h" |
| 26 | |
| 27 #include "../DicomToolbox.h" | |
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28 |
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29 #include <Compatibility.h> |
| 192 | 30 #include <Logging.h> |
| 31 #include <OrthancException.h> | |
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32 #include <Toolbox.h> |
| 0 | 33 |
| 34 #include <algorithm> | |
| 35 #include <cassert> | |
| 36 | |
| 37 namespace OrthancWSI | |
| 38 { | |
| 39 struct DicomPyramid::Comparator | |
| 40 { | |
| 41 bool operator() (DicomPyramidInstance* const& a, | |
| 42 DicomPyramidInstance* const& b) const | |
| 43 { | |
| 44 return a->GetTotalWidth() > b->GetTotalWidth(); | |
| 45 } | |
| 46 }; | |
| 47 | |
| 48 | |
| 49 void DicomPyramid::Clear() | |
| 50 { | |
| 51 for (size_t i = 0; i < levels_.size(); i++) | |
| 52 { | |
| 53 if (levels_[i] != NULL) | |
| 54 { | |
| 55 delete levels_[i]; | |
| 56 } | |
| 57 } | |
| 58 | |
| 59 for (size_t i = 0; i < instances_.size(); i++) | |
| 60 { | |
| 61 if (instances_[i] != NULL) | |
| 62 { | |
| 63 delete instances_[i]; | |
| 64 } | |
| 65 } | |
| 66 } | |
| 67 | |
| 68 | |
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69 void DicomPyramid::RegisterInstances(const std::string& seriesId, |
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70 bool useCache) |
| 0 | 71 { |
| 72 Json::Value series; | |
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73 OrthancStone::IOrthancConnection::RestApiGet(series, orthanc_, "/series/" + seriesId); |
| 0 | 74 |
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75 if (series.type() != Json::objectValue || |
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76 !series.isMember("Instances") || |
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77 series["Instances"].type() != Json::arrayValue) |
| 0 | 78 { |
| 79 throw Orthanc::OrthancException(Orthanc::ErrorCode_NetworkProtocol); | |
| 80 } | |
| 81 | |
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82 const Json::Value& instances = series["Instances"]; |
| 0 | 83 instances_.reserve(instances.size()); |
| 84 | |
| 85 for (Json::Value::ArrayIndex i = 0; i < instances.size(); i++) | |
| 86 { | |
| 87 if (instances[i].type() != Json::stringValue) | |
| 88 { | |
| 89 throw Orthanc::OrthancException(Orthanc::ErrorCode_NetworkProtocol); | |
| 90 } | |
| 91 | |
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92 std::string instanceId = instances[i].asString(); |
| 0 | 93 |
| 94 try | |
| 95 { | |
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96 std::unique_ptr<DicomPyramidInstance> instance(new DicomPyramidInstance(orthanc_, instanceId, useCache)); |
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97 |
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98 std::vector<std::string> tokens; |
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99 Orthanc::Toolbox::TokenizeString(tokens, instance->GetImageType(), '\\'); |
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100 |
| 224 | 101 // Don't consider the thumbnail and overview as part of the DICOM pyramid (new in 1.0) |
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102 if (tokens.size() < 2 || |
| 267 | 103 (tokens[1] != "THUMBNAIL" && |
| 104 tokens[1] != "OVERVIEW")) | |
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105 { |
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106 instances_.push_back(instance.release()); |
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107 } |
| 0 | 108 } |
| 109 catch (Orthanc::OrthancException&) | |
| 110 { | |
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111 LOG(ERROR) << "Skipping a DICOM instance that is not part of a whole-slide image: " << instanceId; |
| 0 | 112 } |
| 113 } | |
| 114 } | |
| 115 | |
| 116 | |
| 117 void DicomPyramid::Check(const std::string& seriesId) const | |
| 118 { | |
| 119 if (instances_.empty()) | |
| 120 { | |
| 121 LOG(ERROR) << "This series does not contain a whole-slide image: " << seriesId; | |
| 122 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource); | |
| 123 } | |
| 124 | |
| 125 const DicomPyramidInstance& a = *instances_[0]; | |
| 126 | |
| 127 for (size_t i = 1; i < instances_.size(); i++) | |
| 128 { | |
| 129 const DicomPyramidInstance& b = *instances_[i]; | |
| 130 | |
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131 if (a.GetPixelFormat() != b.GetPixelFormat() || |
| 0 | 132 a.GetTotalWidth() < b.GetTotalWidth() || |
| 133 a.GetTotalHeight() < b.GetTotalHeight()) | |
| 134 { | |
| 135 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat); | |
| 136 } | |
| 137 | |
| 138 if (a.GetTotalWidth() == b.GetTotalWidth() && | |
| 139 a.GetTotalHeight() != b.GetTotalHeight()) | |
| 140 { | |
| 141 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat); | |
| 142 } | |
| 143 } | |
| 144 } | |
| 145 | |
| 146 | |
| 147 void DicomPyramid::CheckLevel(size_t level) const | |
| 148 { | |
| 149 if (level >= levels_.size()) | |
| 150 { | |
| 151 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 152 } | |
| 153 } | |
| 154 | |
| 155 | |
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156 DicomPyramid::DicomPyramid(OrthancStone::IOrthancConnection& orthanc, |
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157 const std::string& seriesId, |
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158 bool useCache) : |
| 0 | 159 orthanc_(orthanc), |
| 160 seriesId_(seriesId) | |
| 161 { | |
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162 RegisterInstances(seriesId, useCache); |
| 0 | 163 |
| 164 // Sort the instances of the pyramid by decreasing total widths | |
| 165 std::sort(instances_.begin(), instances_.end(), Comparator()); | |
| 166 | |
| 167 try | |
| 168 { | |
| 169 Check(seriesId); | |
| 170 } | |
| 171 catch (Orthanc::OrthancException&) | |
| 172 { | |
| 173 Clear(); | |
| 174 throw; | |
| 175 } | |
| 176 | |
| 177 for (size_t i = 0; i < instances_.size(); i++) | |
| 178 { | |
| 179 if (i == 0 || | |
| 180 instances_[i - 1]->GetTotalWidth() != instances_[i]->GetTotalWidth()) | |
| 181 { | |
| 182 levels_.push_back(new DicomPyramidLevel(*instances_[i])); | |
| 183 } | |
| 184 else | |
| 185 { | |
| 186 assert(levels_.back() != NULL); | |
| 187 levels_.back()->AddInstance(*instances_[i]); | |
| 188 } | |
| 189 } | |
| 190 } | |
| 191 | |
| 192 | |
| 193 unsigned int DicomPyramid::GetLevelWidth(unsigned int level) const | |
| 194 { | |
| 195 CheckLevel(level); | |
| 196 return levels_[level]->GetTotalWidth(); | |
| 197 } | |
| 198 | |
| 199 | |
| 200 unsigned int DicomPyramid::GetLevelHeight(unsigned int level) const | |
| 201 { | |
| 202 CheckLevel(level); | |
| 203 return levels_[level]->GetTotalHeight(); | |
| 204 } | |
| 205 | |
| 206 | |
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207 unsigned int DicomPyramid::GetTileWidth(unsigned int level) const |
| 0 | 208 { |
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209 CheckLevel(level); |
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210 return levels_[level]->GetTileWidth(); |
| 0 | 211 } |
| 212 | |
| 213 | |
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214 unsigned int DicomPyramid::GetTileHeight(unsigned int level) const |
| 0 | 215 { |
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216 CheckLevel(level); |
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217 return levels_[level]->GetTileHeight(); |
| 0 | 218 } |
| 219 | |
| 220 | |
| 221 bool DicomPyramid::ReadRawTile(std::string& tile, | |
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222 ImageCompression& compression, |
| 0 | 223 unsigned int level, |
| 224 unsigned int tileX, | |
| 225 unsigned int tileY) | |
| 226 { | |
| 227 CheckLevel(level); | |
| 228 | |
| 229 Orthanc::PixelFormat format; | |
| 230 | |
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231 if (levels_[level]->DownloadRawTile(tile, format, compression, orthanc_, tileX, tileY)) |
| 0 | 232 { |
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233 if (format != GetPixelFormat()) |
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234 { |
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235 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); |
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236 } |
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237 |
| 0 | 238 return true; |
| 239 } | |
| 240 else | |
| 241 { | |
| 242 return false; | |
| 243 } | |
| 244 } | |
| 245 | |
| 246 | |
| 247 Orthanc::PixelFormat DicomPyramid::GetPixelFormat() const | |
| 248 { | |
| 249 assert(!instances_.empty() && instances_[0] != NULL); | |
| 250 return instances_[0]->GetPixelFormat(); | |
| 251 } | |
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252 |
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253 |
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254 Orthanc::PhotometricInterpretation DicomPyramid::GetPhotometricInterpretation() const |
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255 { |
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256 assert(!instances_.empty() && instances_[0] != NULL); |
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257 return instances_[0]->GetPhotometricInterpretation(); |
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258 } |
| 0 | 259 } |