Mercurial > hg > orthanc
annotate OrthancServer/OrthancFindRequestHandler.cpp @ 682:efc4928be6fb
Recover pixel data for more transfer syntaxes (notably JPEG)
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
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| date | Thu, 30 Jan 2014 15:05:14 +0100 |
| parents | 41b3e5ccb291 |
| children | 2d0a347e8cfc |
| rev | line source |
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1 /** |
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2 * Orthanc - A Lightweight, RESTful DICOM Store |
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3 * Copyright (C) 2012-2013 Medical Physics Department, CHU of Liege, |
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4 * Belgium |
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5 * |
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6 * This program is free software: you can redistribute it and/or |
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7 * modify it under the terms of the GNU General Public License as |
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8 * published by the Free Software Foundation, either version 3 of the |
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9 * License, or (at your option) any later version. |
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10 * |
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11 * In addition, as a special exception, the copyright holders of this |
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12 * program give permission to link the code of its release with the |
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13 * OpenSSL project's "OpenSSL" library (or with modified versions of it |
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14 * that use the same license as the "OpenSSL" library), and distribute |
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15 * the linked executables. You must obey the GNU General Public License |
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16 * in all respects for all of the code used other than "OpenSSL". If you |
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17 * modify file(s) with this exception, you may extend this exception to |
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18 * your version of the file(s), but you are not obligated to do so. If |
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19 * you do not wish to do so, delete this exception statement from your |
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20 * version. If you delete this exception statement from all source files |
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21 * in the program, then also delete it here. |
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22 * |
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23 * This program is distributed in the hope that it will be useful, but |
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24 * WITHOUT ANY WARRANTY; without even the implied warranty of |
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25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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26 * General Public License for more details. |
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27 * |
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28 * You should have received a copy of the GNU General Public License |
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29 * along with this program. If not, see <http://www.gnu.org/licenses/>. |
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30 **/ |
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31 |
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32 #include "OrthancFindRequestHandler.h" |
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33 |
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34 #include <glog/logging.h> |
| 608 | 35 #include <boost/regex.hpp> |
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36 |
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37 #include "../Core/DicomFormat/DicomArray.h" |
| 608 | 38 #include "ServerToolbox.h" |
| 618 | 39 #include "OrthancInitialization.h" |
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40 |
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41 namespace Orthanc |
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42 { |
| 615 | 43 static bool IsWildcard(const std::string& constraint) |
| 44 { | |
| 45 return (constraint.find('-') != std::string::npos || | |
| 46 constraint.find('*') != std::string::npos || | |
| 47 constraint.find('\\') != std::string::npos || | |
| 48 constraint.find('?') != std::string::npos); | |
| 49 } | |
| 50 | |
| 610 | 51 static std::string ToLowerCase(const std::string& s) |
| 52 { | |
| 53 std::string result = s; | |
| 54 Toolbox::ToLowerCase(result); | |
| 55 return result; | |
| 56 } | |
| 57 | |
| 608 | 58 static bool ApplyRangeConstraint(const std::string& value, |
| 59 const std::string& constraint) | |
| 60 { | |
| 610 | 61 size_t separator = constraint.find('-'); |
| 62 std::string lower = ToLowerCase(constraint.substr(0, separator)); | |
| 63 std::string upper = ToLowerCase(constraint.substr(separator + 1)); | |
| 64 std::string v = ToLowerCase(value); | |
| 65 | |
| 66 if (lower.size() == 0 && upper.size() == 0) | |
| 67 { | |
| 68 return false; | |
| 69 } | |
| 70 | |
| 71 if (lower.size() == 0) | |
| 72 { | |
| 73 return v <= upper; | |
| 74 } | |
| 75 | |
| 76 if (upper.size() == 0) | |
| 77 { | |
| 78 return v >= lower; | |
| 79 } | |
| 80 | |
| 81 return (v >= lower && v <= upper); | |
| 608 | 82 } |
| 83 | |
| 84 | |
| 85 static bool ApplyListConstraint(const std::string& value, | |
| 86 const std::string& constraint) | |
| 87 { | |
| 610 | 88 std::string v1 = ToLowerCase(value); |
| 608 | 89 |
| 90 std::vector<std::string> items; | |
| 91 Toolbox::TokenizeString(items, constraint, '\\'); | |
| 92 | |
| 93 for (size_t i = 0; i < items.size(); i++) | |
| 94 { | |
| 95 Toolbox::ToLowerCase(items[i]); | |
| 96 if (items[i] == v1) | |
| 97 { | |
| 98 return true; | |
| 99 } | |
| 100 } | |
| 101 | |
| 102 return false; | |
| 103 } | |
| 104 | |
| 105 | |
| 106 static bool Matches(const std::string& value, | |
| 107 const std::string& constraint) | |
| 108 { | |
| 109 // http://www.itk.org/Wiki/DICOM_QueryRetrieve_Explained | |
| 110 // http://dicomiseasy.blogspot.be/2012/01/dicom-queryretrieve-part-i.html | |
| 111 | |
| 112 if (constraint.find('-') != std::string::npos) | |
| 113 { | |
| 114 return ApplyRangeConstraint(value, constraint); | |
| 115 } | |
| 116 | |
| 117 if (constraint.find('\\') != std::string::npos) | |
| 118 { | |
| 119 return ApplyListConstraint(value, constraint); | |
| 120 } | |
| 121 | |
| 122 if (constraint.find('*') != std::string::npos || | |
| 123 constraint.find('?') != std::string::npos) | |
| 124 { | |
| 125 // TODO - Cache the constructed regular expression | |
| 126 boost::regex pattern(Toolbox::WildcardToRegularExpression(constraint), | |
| 127 boost::regex::icase /* case insensitive search */); | |
| 128 return boost::regex_match(value, pattern); | |
| 129 } | |
| 130 else | |
| 131 { | |
| 610 | 132 return ToLowerCase(value) == ToLowerCase(constraint); |
| 608 | 133 } |
| 134 } | |
| 135 | |
| 136 | |
| 137 static bool LookupOneInstance(std::string& result, | |
| 138 ServerIndex& index, | |
| 139 const std::string& id, | |
| 140 ResourceType type) | |
| 141 { | |
| 142 if (type == ResourceType_Instance) | |
| 143 { | |
| 144 result = id; | |
| 145 return true; | |
| 146 } | |
| 147 | |
| 148 std::string childId; | |
| 149 | |
| 150 { | |
| 151 std::list<std::string> children; | |
| 152 index.GetChildInstances(children, id); | |
| 153 | |
| 656 | 154 if (children.empty()) |
| 608 | 155 { |
| 156 return false; | |
| 157 } | |
| 158 | |
| 159 childId = children.front(); | |
| 160 } | |
| 161 | |
| 162 return LookupOneInstance(result, index, childId, GetChildResourceType(type)); | |
| 163 } | |
| 164 | |
| 165 | |
| 166 static bool Matches(const Json::Value& resource, | |
| 167 const DicomArray& query) | |
| 168 { | |
| 169 for (size_t i = 0; i < query.GetSize(); i++) | |
| 170 { | |
| 171 if (query.GetElement(i).GetValue().IsNull() || | |
| 172 query.GetElement(i).GetTag() == DICOM_TAG_QUERY_RETRIEVE_LEVEL || | |
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173 query.GetElement(i).GetTag() == DICOM_TAG_SPECIFIC_CHARACTER_SET || |
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174 query.GetElement(i).GetTag() == DICOM_TAG_MODALITIES_IN_STUDY) |
| 608 | 175 { |
| 176 continue; | |
| 177 } | |
| 178 | |
| 179 std::string tag = query.GetElement(i).GetTag().Format(); | |
| 180 std::string value; | |
| 181 if (resource.isMember(tag)) | |
| 182 { | |
| 183 value = resource.get(tag, Json::arrayValue).get("Value", "").asString(); | |
| 184 } | |
| 185 | |
| 186 if (!Matches(value, query.GetElement(i).GetValue().AsString())) | |
| 187 { | |
| 188 return false; | |
| 189 } | |
| 190 } | |
| 191 | |
| 192 return true; | |
| 193 } | |
| 194 | |
| 195 | |
| 196 static void AddAnswer(DicomFindAnswers& answers, | |
| 197 const Json::Value& resource, | |
| 198 const DicomArray& query) | |
| 199 { | |
| 200 DicomMap result; | |
| 201 | |
| 202 for (size_t i = 0; i < query.GetSize(); i++) | |
| 203 { | |
| 204 if (query.GetElement(i).GetTag() != DICOM_TAG_QUERY_RETRIEVE_LEVEL && | |
| 205 query.GetElement(i).GetTag() != DICOM_TAG_SPECIFIC_CHARACTER_SET) | |
| 206 { | |
| 207 std::string tag = query.GetElement(i).GetTag().Format(); | |
| 208 std::string value; | |
| 209 if (resource.isMember(tag)) | |
| 210 { | |
| 211 value = resource.get(tag, Json::arrayValue).get("Value", "").asString(); | |
| 212 result.SetValue(query.GetElement(i).GetTag(), value); | |
| 213 } | |
| 214 } | |
| 215 } | |
| 216 | |
| 217 answers.Add(result); | |
| 218 } | |
| 219 | |
| 220 | |
| 615 | 221 static bool ApplyModalitiesInStudyFilter(std::list<std::string>& filteredStudies, |
| 222 const std::list<std::string>& studies, | |
| 612 | 223 const DicomMap& input, |
| 224 ServerIndex& index) | |
| 225 { | |
| 615 | 226 filteredStudies.clear(); |
| 612 | 227 |
| 228 const DicomValue& v = input.GetValue(DICOM_TAG_MODALITIES_IN_STUDY); | |
| 229 if (v.IsNull()) | |
| 230 { | |
| 231 return false; | |
| 232 } | |
| 233 | |
| 234 // Move the allowed modalities into a "std::set" | |
| 235 std::vector<std::string> tmp; | |
| 236 Toolbox::TokenizeString(tmp, v.AsString(), '\\'); | |
| 237 | |
| 238 std::set<std::string> modalities; | |
| 239 for (size_t i = 0; i < tmp.size(); i++) | |
| 240 { | |
| 241 modalities.insert(tmp[i]); | |
| 242 } | |
| 243 | |
| 244 // Loop over the studies | |
| 615 | 245 for (std::list<std::string>::const_iterator |
| 656 | 246 it = studies.begin(); it != studies.end(); ++it) |
| 612 | 247 { |
| 248 try | |
| 249 { | |
| 250 // We are considering a single study. Check whether one of | |
| 251 // its child series matches one of the modalities. | |
| 252 Json::Value study; | |
| 615 | 253 if (index.LookupResource(study, *it, ResourceType_Study)) |
| 612 | 254 { |
| 255 // Loop over the series of the considered study. | |
| 256 for (Json::Value::ArrayIndex j = 0; j < study["Series"].size(); j++) // (*) | |
| 257 { | |
| 258 Json::Value series; | |
| 259 if (index.LookupResource(series, study["Series"][j].asString(), ResourceType_Series)) | |
| 260 { | |
| 261 // Get the modality of this series | |
| 262 if (series["MainDicomTags"].isMember("Modality")) | |
| 263 { | |
| 264 std::string modality = series["MainDicomTags"]["Modality"].asString(); | |
| 265 if (modalities.find(modality) != modalities.end()) | |
| 266 { | |
| 267 // This series of the considered study matches one | |
| 268 // of the required modalities. Take the study into | |
| 269 // consideration for future filtering. | |
| 615 | 270 filteredStudies.push_back(*it); |
| 612 | 271 |
| 272 // We have finished considering this study. Break the study loop at (*). | |
| 273 break; | |
| 274 } | |
| 275 } | |
| 276 } | |
| 277 } | |
| 278 } | |
| 279 } | |
| 280 catch (OrthancException&) | |
| 281 { | |
| 282 // This resource has probably been deleted during the find request | |
| 283 } | |
| 284 } | |
| 285 | |
| 286 return true; | |
| 287 } | |
| 288 | |
| 289 | |
| 615 | 290 static bool LookupCandidateResourcesInternal(/* out */ std::list<std::string>& resources, |
| 291 /* in */ ServerIndex& index, | |
| 292 /* in */ ResourceType level, | |
| 293 /* in */ const DicomMap& query, | |
| 294 /* in */ DicomTag tag) | |
| 295 { | |
| 296 if (query.HasTag(tag)) | |
| 297 { | |
| 298 const DicomValue& value = query.GetValue(tag); | |
| 299 if (!value.IsNull()) | |
| 300 { | |
| 301 std::string str = query.GetValue(tag).AsString(); | |
| 302 if (!IsWildcard(str)) | |
| 303 { | |
| 304 index.LookupTagValue(resources, tag, str/*, level*/); | |
| 305 return true; | |
| 306 } | |
| 307 } | |
| 308 } | |
| 309 | |
| 310 return false; | |
| 311 } | |
| 312 | |
| 313 | |
| 314 static void LookupCandidateResources(/* out */ std::list<std::string>& resources, | |
| 315 /* in */ ServerIndex& index, | |
| 316 /* in */ ResourceType level, | |
| 665 | 317 /* in */ const DicomMap& query, |
| 318 /* in */ ModalityManufacturer manufacturer) | |
| 615 | 319 { |
| 320 // TODO : Speed up using full querying against the MainDicomTags. | |
| 321 | |
| 322 resources.clear(); | |
| 323 | |
| 324 bool done = false; | |
| 325 | |
| 326 switch (level) | |
| 327 { | |
| 328 case ResourceType_Patient: | |
| 329 done = LookupCandidateResourcesInternal(resources, index, level, query, DICOM_TAG_PATIENT_ID); | |
| 330 break; | |
| 331 | |
| 332 case ResourceType_Study: | |
| 333 done = LookupCandidateResourcesInternal(resources, index, level, query, DICOM_TAG_STUDY_INSTANCE_UID); | |
| 334 break; | |
| 335 | |
| 336 case ResourceType_Series: | |
| 337 done = LookupCandidateResourcesInternal(resources, index, level, query, DICOM_TAG_SERIES_INSTANCE_UID); | |
| 338 break; | |
| 339 | |
| 340 case ResourceType_Instance: | |
| 665 | 341 if (manufacturer == ModalityManufacturer_MedInria) |
| 342 { | |
| 343 std::list<std::string> series; | |
| 344 | |
| 345 if (LookupCandidateResourcesInternal(series, index, ResourceType_Series, query, DICOM_TAG_SERIES_INSTANCE_UID) && | |
| 346 series.size() == 1) | |
| 347 { | |
| 348 index.GetChildInstances(resources, series.front()); | |
| 349 done = true; | |
| 350 } | |
| 351 } | |
| 352 else | |
| 353 { | |
| 354 done = LookupCandidateResourcesInternal(resources, index, level, query, DICOM_TAG_SOP_INSTANCE_UID); | |
| 355 } | |
| 356 | |
| 615 | 357 break; |
| 358 | |
| 359 default: | |
| 360 break; | |
| 361 } | |
| 362 | |
| 363 if (!done) | |
| 364 { | |
| 365 Json::Value allResources; | |
| 366 index.GetAllUuids(allResources, level); | |
| 367 assert(allResources.type() == Json::arrayValue); | |
| 368 | |
| 369 for (Json::Value::ArrayIndex i = 0; i < allResources.size(); i++) | |
| 370 { | |
| 371 resources.push_back(allResources[i].asString()); | |
| 372 } | |
| 373 } | |
| 374 } | |
| 375 | |
| 376 | |
| 618 | 377 void OrthancFindRequestHandler::Handle(DicomFindAnswers& answers, |
| 665 | 378 const DicomMap& input, |
| 379 const std::string& callingAETitle) | |
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380 { |
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381 /** |
| 665 | 382 * Retrieve the manufacturer of this modality. |
| 383 **/ | |
| 384 | |
| 385 ModalityManufacturer manufacturer; | |
| 386 | |
| 387 { | |
| 388 std::string symbolicName, address; | |
| 389 int port; | |
| 390 | |
| 391 if (!LookupDicomModalityUsingAETitle(callingAETitle, symbolicName, address, port, manufacturer)) | |
| 392 { | |
| 393 throw OrthancException("Unknown modality"); | |
| 394 } | |
| 395 } | |
| 396 | |
| 397 | |
| 398 /** | |
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399 * Retrieve the query level. |
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400 **/ |
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401 |
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402 const DicomValue* levelTmp = input.TestAndGetValue(DICOM_TAG_QUERY_RETRIEVE_LEVEL); |
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403 if (levelTmp == NULL) |
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404 { |
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405 throw OrthancException(ErrorCode_BadRequest); |
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406 } |
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407 |
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408 ResourceType level = StringToResourceType(levelTmp->AsString().c_str()); |
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409 |
| 665 | 410 switch (manufacturer) |
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411 { |
| 665 | 412 case ModalityManufacturer_MedInria: |
| 413 // MedInria makes FIND requests at the instance level before starting MOVE | |
| 414 break; | |
| 415 | |
| 416 default: | |
| 417 if (level != ResourceType_Patient && | |
| 418 level != ResourceType_Study && | |
| 419 level != ResourceType_Series) | |
| 420 { | |
| 421 throw OrthancException(ErrorCode_NotImplemented); | |
| 422 } | |
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423 } |
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424 |
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425 |
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426 /** |
| 615 | 427 * Retrieve the candidate resources for this query level. Whenever |
| 428 * possible, we avoid returning ALL the resources for this query | |
| 429 * level, as it would imply reading the JSON file on the harddisk | |
| 430 * for each of them. | |
| 608 | 431 **/ |
| 432 | |
| 615 | 433 std::list<std::string> resources; |
| 665 | 434 LookupCandidateResources(resources, context_.GetIndex(), level, input, manufacturer); |
| 608 | 435 |
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436 |
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437 /** |
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438 * Apply filtering on modalities for studies, if asked (this is an |
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439 * extension to standard DICOM) |
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440 * http://www.medicalconnections.co.uk/kb/Filtering_on_and_Retrieving_the_Modality_in_a_C_FIND |
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441 **/ |
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442 |
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443 if (level == ResourceType_Study && |
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444 input.HasTag(DICOM_TAG_MODALITIES_IN_STUDY)) |
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445 { |
| 615 | 446 std::list<std::string> filtered; |
| 612 | 447 if (ApplyModalitiesInStudyFilter(filtered, resources, input, context_.GetIndex())) |
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448 { |
| 612 | 449 resources = filtered; |
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450 } |
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451 } |
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452 |
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453 |
| 608 | 454 /** |
| 455 * Loop over all the resources for this query level. | |
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456 **/ |
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457 |
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458 DicomArray query(input); |
| 615 | 459 for (std::list<std::string>::const_iterator |
| 656 | 460 resource = resources.begin(); resource != resources.end(); ++resource) |
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461 { |
| 608 | 462 try |
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463 { |
| 608 | 464 std::string instance; |
| 615 | 465 if (LookupOneInstance(instance, context_.GetIndex(), *resource, level)) |
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466 { |
| 615 | 467 Json::Value info; |
| 468 context_.ReadJson(info, instance); | |
| 608 | 469 |
| 615 | 470 if (Matches(info, query)) |
| 608 | 471 { |
| 615 | 472 AddAnswer(answers, info, query); |
| 608 | 473 } |
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474 } |
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475 } |
| 608 | 476 catch (OrthancException&) |
| 477 { | |
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478 // This resource has probably been deleted during the find request |
| 608 | 479 } |
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480 } |
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481 } |
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482 } |
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483 |
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484 |
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485 |
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486 /** |
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487 * TODO : Case-insensitive match for PN value representation (Patient |
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488 * Name). Case-senstive match for all the other value representations. |
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489 * |
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490 * Reference: DICOM PS 3.4 |
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491 * - C.2.2.2.1 ("Single Value Matching") |
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492 * - C.2.2.2.4 ("Wild Card Matching") |
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493 * http://medical.nema.org/Dicom/2011/11_04pu.pdf ( |
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494 **/ |