Mercurial > hg > orthanc-stone
annotate Applications/Resources/Graveyard/Toolbox/DicomDataset.cpp @ 2048:a05b03f45289 deep-learning
added ORTHANC_WEBGL2_HEAP_COMPAT
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Wed, 08 Mar 2023 17:46:04 +0100 |
| parents | 7053b8a0aaec |
| children | 07964689cb0b |
| rev | line source |
|---|---|
| 39 | 1 /** |
| 2 * Stone of Orthanc | |
| 3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
| 4 * Department, University Hospital of Liege, Belgium | |
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5 * Copyright (C) 2017-2022 Osimis S.A., Belgium |
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6 * Copyright (C) 2021-2022 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
| 39 | 7 * |
| 8 * This program is free software: you can redistribute it and/or | |
| 47 | 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. | |
| 39 | 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 | |
| 47 | 15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
| 16 * Affero General Public License for more details. | |
|
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17 * |
| 47 | 18 * You should have received a copy of the GNU Affero General Public License |
| 39 | 19 * along with this program. If not, see <http://www.gnu.org/licenses/>. |
| 20 **/ | |
| 21 | |
| 22 | |
| 23 #include "DicomDataset.h" | |
| 24 | |
| 25 #include "../../Resources/Orthanc/Core/OrthancException.h" | |
| 26 #include "../../Resources/Orthanc/Core/Logging.h" | |
| 27 #include "../../Resources/Orthanc/Core/Toolbox.h" | |
| 28 | |
| 29 #include <boost/lexical_cast.hpp> | |
| 30 #include <json/value.h> | |
| 31 #include <json/reader.h> | |
| 32 | |
| 33 namespace OrthancStone | |
| 34 { | |
| 35 static uint16_t GetCharValue(char c) | |
| 36 { | |
| 37 if (c >= '0' && c <= '9') | |
| 38 return c - '0'; | |
| 39 else if (c >= 'a' && c <= 'f') | |
| 40 return c - 'a' + 10; | |
| 41 else if (c >= 'A' && c <= 'F') | |
| 42 return c - 'A' + 10; | |
| 43 else | |
| 44 return 0; | |
| 45 } | |
| 46 | |
| 47 | |
| 48 static uint16_t GetHexadecimalValue(const char* c) | |
| 49 { | |
| 50 return ((GetCharValue(c[0]) << 12) + | |
| 51 (GetCharValue(c[1]) << 8) + | |
| 52 (GetCharValue(c[2]) << 4) + | |
| 53 GetCharValue(c[3])); | |
| 54 } | |
| 55 | |
| 56 | |
| 57 static DicomDataset::Tag ParseTag(const std::string& tag) | |
| 58 { | |
| 59 if (tag.size() == 9 && | |
| 60 isxdigit(tag[0]) && | |
| 61 isxdigit(tag[1]) && | |
| 62 isxdigit(tag[2]) && | |
| 63 isxdigit(tag[3]) && | |
| 64 (tag[4] == '-' || tag[4] == ',') && | |
| 65 isxdigit(tag[5]) && | |
| 66 isxdigit(tag[6]) && | |
| 67 isxdigit(tag[7]) && | |
| 68 isxdigit(tag[8])) | |
| 69 { | |
| 70 uint16_t group = GetHexadecimalValue(tag.c_str()); | |
| 71 uint16_t element = GetHexadecimalValue(tag.c_str() + 5); | |
| 72 return std::make_pair(group, element); | |
| 73 } | |
| 74 else if (tag.size() == 8 && | |
| 75 isxdigit(tag[0]) && | |
| 76 isxdigit(tag[1]) && | |
| 77 isxdigit(tag[2]) && | |
| 78 isxdigit(tag[3]) && | |
| 79 isxdigit(tag[4]) && | |
| 80 isxdigit(tag[5]) && | |
| 81 isxdigit(tag[6]) && | |
| 82 isxdigit(tag[7])) | |
| 83 { | |
| 84 uint16_t group = GetHexadecimalValue(tag.c_str()); | |
| 85 uint16_t element = GetHexadecimalValue(tag.c_str() + 4); | |
| 86 return std::make_pair(group, element); | |
| 87 } | |
| 88 else | |
| 89 { | |
| 90 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 91 } | |
| 92 } | |
| 93 | |
| 94 void DicomDataset::Parse(const std::string& content) | |
| 95 { | |
| 96 Json::Value json; | |
| 97 Json::Reader reader; | |
| 98 if (!reader.parse(content, json)) | |
| 99 { | |
| 100 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 101 } | |
| 102 | |
| 103 Parse(json); | |
| 104 } | |
| 105 | |
| 106 | |
| 107 void DicomDataset::Parse(const Json::Value& content) | |
| 108 { | |
| 109 if (content.type() != Json::objectValue) | |
| 110 { | |
| 111 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 112 } | |
| 113 | |
| 114 Json::Value::Members members = content.getMemberNames(); | |
| 115 for (size_t i = 0; i < members.size(); i++) | |
| 116 { | |
| 117 Tag tag = ParseTag(members[i]); | |
| 118 | |
| 119 const Json::Value& item = content[members[i]]; | |
| 120 | |
| 121 if (item.type() != Json::objectValue || | |
| 122 !item.isMember("Type") || | |
| 123 !item.isMember("Value") || | |
| 124 !item.isMember("Name") || | |
| 125 item["Type"].type() != Json::stringValue || | |
| 126 item["Name"].type() != Json::stringValue) | |
| 127 { | |
| 128 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 129 } | |
| 130 | |
| 131 if (item["Type"].asString() == "String") | |
| 132 { | |
| 133 if (item["Value"].type() == Json::stringValue) | |
| 134 { | |
| 135 values_[tag] = item["Value"].asString(); | |
| 136 } | |
| 137 else | |
| 138 { | |
| 139 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 140 } | |
| 141 } | |
| 142 } | |
| 143 } | |
| 144 | |
| 145 | |
| 146 DicomDataset::DicomDataset(OrthancPlugins::IOrthancConnection& orthanc, | |
| 147 const std::string& instanceId) | |
| 148 { | |
| 149 std::string content; | |
| 150 orthanc.RestApiGet(content, "/instances/" + instanceId + "/tags"); | |
| 151 | |
| 152 Parse(content); | |
| 153 } | |
| 154 | |
| 155 | |
| 156 std::string DicomDataset::GetStringValue(const Tag& tag) const | |
| 157 { | |
| 158 Values::const_iterator it = values_.find(tag); | |
| 159 | |
| 160 if (it == values_.end()) | |
| 161 { | |
| 162 LOG(ERROR) << "Trying to access a DICOM tag that is not set in a DICOM dataset"; | |
| 163 throw Orthanc::OrthancException(Orthanc::ErrorCode_InexistentItem); | |
| 164 } | |
| 165 else | |
| 166 { | |
| 167 return it->second; | |
| 168 } | |
| 169 } | |
| 170 | |
| 171 | |
| 172 std::string DicomDataset::GetStringValue(const Tag& tag, | |
| 173 const std::string& defaultValue) const | |
| 174 { | |
| 175 Values::const_iterator it = values_.find(tag); | |
| 176 | |
| 177 if (it == values_.end()) | |
| 178 { | |
| 179 return defaultValue; | |
| 180 } | |
| 181 else | |
| 182 { | |
| 183 return it->second; | |
| 184 } | |
| 185 } | |
| 186 | |
| 187 | |
| 188 float DicomDataset::GetFloatValue(const Tag& tag) const | |
| 189 { | |
| 190 try | |
| 191 { | |
| 192 return boost::lexical_cast<float>(Orthanc::Toolbox::StripSpaces(GetStringValue(tag))); | |
| 193 } | |
| 194 catch (boost::bad_lexical_cast&) | |
| 195 { | |
| 196 LOG(ERROR) << "Trying to access a DICOM tag that is not a float"; | |
| 197 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 198 } | |
| 199 } | |
| 200 | |
| 201 | |
| 202 double DicomDataset::GetDoubleValue(const Tag& tag) const | |
| 203 { | |
| 204 try | |
| 205 { | |
| 206 return boost::lexical_cast<double>(Orthanc::Toolbox::StripSpaces(GetStringValue(tag))); | |
| 207 } | |
| 208 catch (boost::bad_lexical_cast&) | |
| 209 { | |
| 210 LOG(ERROR) << "Trying to access a DICOM tag that is not a float"; | |
| 211 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 212 } | |
| 213 } | |
| 214 | |
| 215 | |
| 216 int DicomDataset::GetIntegerValue(const Tag& tag) const | |
| 217 { | |
| 218 try | |
| 219 { | |
| 220 return boost::lexical_cast<int>(Orthanc::Toolbox::StripSpaces(GetStringValue(tag))); | |
| 221 } | |
| 222 catch (boost::bad_lexical_cast&) | |
| 223 { | |
| 224 LOG(ERROR) << "Trying to access a DICOM tag that is not an integer"; | |
| 225 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 226 } | |
| 227 } | |
| 228 | |
| 229 | |
| 230 unsigned int DicomDataset::GetUnsignedIntegerValue(const Tag& tag) const | |
| 231 { | |
| 232 int v = GetIntegerValue(tag); | |
| 233 | |
| 234 if (v < 0) | |
| 235 { | |
| 236 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 237 } | |
| 238 else | |
| 239 { | |
| 240 return static_cast<unsigned int>(v); | |
| 241 } | |
| 242 } | |
| 243 | |
| 244 | |
| 245 void DicomDataset::GetVectorValue(Vector& vector, | |
| 246 const Tag& tag) const | |
| 247 { | |
| 248 if (!GeometryToolbox::ParseVector(vector, Orthanc::Toolbox::StripSpaces(GetStringValue(tag)))) | |
| 249 { | |
| 250 LOG(ERROR) << "Trying to access a DICOM tag that is not a vector"; | |
| 251 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 252 } | |
| 253 } | |
| 254 | |
| 255 | |
| 256 void DicomDataset::GetVectorValue(Vector& vector, | |
| 257 const Tag& tag, | |
| 258 size_t expectedSize) const | |
| 259 { | |
| 260 GetVectorValue(vector, tag); | |
| 261 | |
| 262 if (vector.size() != expectedSize) | |
| 263 { | |
| 264 LOG(ERROR) << "A vector in a DICOM tag has a bad size"; | |
| 265 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat); | |
| 266 } | |
| 267 } | |
| 268 | |
| 269 | |
| 270 void DicomDataset::Print() const | |
| 271 { | |
| 272 for (Values::const_iterator it = values_.begin(); it != values_.end(); ++it) | |
| 273 { | |
| 274 printf("%04x,%04x = [%s]\n", it->first.first, it->first.second, it->second.c_str()); | |
| 275 } | |
| 276 printf("\n"); | |
| 277 } | |
| 278 | |
| 279 | |
| 280 bool DicomDataset::IsGrayscale() const | |
| 281 { | |
| 282 std::string photometric = Orthanc::Toolbox::StripSpaces(GetStringValue(DICOM_TAG_PHOTOMETRIC_INTERPRETATION)); | |
| 283 | |
| 284 return (photometric == "MONOCHROME1" || | |
| 285 photometric == "MONOCHROME2"); | |
| 286 } | |
| 287 | |
| 288 | |
| 289 void DicomDataset::GetPixelSpacing(double& spacingX, | |
| 290 double& spacingY) const | |
| 291 { | |
| 292 if (HasTag(DICOM_TAG_PIXEL_SPACING)) | |
| 293 { | |
| 294 Vector spacing; | |
| 295 GetVectorValue(spacing, DICOM_TAG_PIXEL_SPACING, 2); | |
| 296 spacingX = spacing[0]; | |
| 297 spacingY = spacing[1]; | |
| 298 } | |
| 299 else | |
| 300 { | |
| 301 spacingX = 1.0; | |
| 302 spacingY = 1.0; | |
| 303 } | |
| 304 } | |
| 305 } |