Mercurial > hg > orthanc
annotate OrthancServer/OrthancFindRequestHandler.cpp @ 1354:3dd494f201a1
ResourceFinder
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Wed, 13 May 2015 12:17:35 +0200 |
parents | 911a1ad5ebe8 |
children | 94ffb597d297 |
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) 2012-2015 Sebastien Jodogne, Medical Physics |
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4 * Department, University Hospital of Liege, 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 |
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33 #include "PrecompiledHeadersServer.h" |
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34 #include "OrthancFindRequestHandler.h" |
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35 |
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36 #include <glog/logging.h> |
608 | 37 #include <boost/regex.hpp> |
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38 |
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39 #include "../Core/DicomFormat/DicomArray.h" |
608 | 40 #include "ServerToolbox.h" |
618 | 41 #include "OrthancInitialization.h" |
795 | 42 #include "FromDcmtkBridge.h" |
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43 |
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44 namespace Orthanc |
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45 { |
615 | 46 static bool IsWildcard(const std::string& constraint) |
47 { | |
48 return (constraint.find('-') != std::string::npos || | |
49 constraint.find('*') != std::string::npos || | |
50 constraint.find('\\') != std::string::npos || | |
51 constraint.find('?') != std::string::npos); | |
52 } | |
53 | |
608 | 54 static bool ApplyRangeConstraint(const std::string& value, |
55 const std::string& constraint) | |
56 { | |
610 | 57 size_t separator = constraint.find('-'); |
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58 std::string lower, upper, v; |
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59 Toolbox::ToLowerCase(lower, constraint.substr(0, separator)); |
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60 Toolbox::ToLowerCase(upper, constraint.substr(separator + 1)); |
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61 Toolbox::ToLowerCase(v, value); |
610 | 62 |
63 if (lower.size() == 0 && upper.size() == 0) | |
64 { | |
65 return false; | |
66 } | |
67 | |
68 if (lower.size() == 0) | |
69 { | |
70 return v <= upper; | |
71 } | |
72 | |
73 if (upper.size() == 0) | |
74 { | |
75 return v >= lower; | |
76 } | |
77 | |
78 return (v >= lower && v <= upper); | |
608 | 79 } |
80 | |
81 | |
82 static bool ApplyListConstraint(const std::string& value, | |
83 const std::string& constraint) | |
84 { | |
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85 std::string v1; |
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86 Toolbox::ToLowerCase(v1, value); |
608 | 87 |
88 std::vector<std::string> items; | |
89 Toolbox::TokenizeString(items, constraint, '\\'); | |
90 | |
91 for (size_t i = 0; i < items.size(); i++) | |
92 { | |
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93 std::string lower; |
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94 Toolbox::ToLowerCase(lower, items[i]); |
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95 if (lower == v1) |
608 | 96 { |
97 return true; | |
98 } | |
99 } | |
100 | |
101 return false; | |
102 } | |
103 | |
104 | |
105 static bool Matches(const std::string& value, | |
106 const std::string& constraint) | |
107 { | |
108 // http://www.itk.org/Wiki/DICOM_QueryRetrieve_Explained | |
109 // http://dicomiseasy.blogspot.be/2012/01/dicom-queryretrieve-part-i.html | |
110 | |
111 if (constraint.find('-') != std::string::npos) | |
112 { | |
113 return ApplyRangeConstraint(value, constraint); | |
114 } | |
115 | |
116 if (constraint.find('\\') != std::string::npos) | |
117 { | |
118 return ApplyListConstraint(value, constraint); | |
119 } | |
120 | |
121 if (constraint.find('*') != std::string::npos || | |
122 constraint.find('?') != std::string::npos) | |
123 { | |
124 // TODO - Cache the constructed regular expression | |
125 boost::regex pattern(Toolbox::WildcardToRegularExpression(constraint), | |
126 boost::regex::icase /* case insensitive search */); | |
127 return boost::regex_match(value, pattern); | |
128 } | |
129 else | |
130 { | |
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131 std::string v, c; |
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132 Toolbox::ToLowerCase(v, value); |
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133 Toolbox::ToLowerCase(c, constraint); |
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134 return v == c; |
608 | 135 } |
136 } | |
137 | |
138 | |
139 static bool LookupOneInstance(std::string& result, | |
140 ServerIndex& index, | |
141 const std::string& id, | |
142 ResourceType type) | |
143 { | |
144 if (type == ResourceType_Instance) | |
145 { | |
146 result = id; | |
147 return true; | |
148 } | |
149 | |
150 std::string childId; | |
151 | |
152 { | |
153 std::list<std::string> children; | |
154 index.GetChildInstances(children, id); | |
155 | |
656 | 156 if (children.empty()) |
608 | 157 { |
158 return false; | |
159 } | |
160 | |
161 childId = children.front(); | |
162 } | |
163 | |
164 return LookupOneInstance(result, index, childId, GetChildResourceType(type)); | |
165 } | |
166 | |
167 | |
168 static bool Matches(const Json::Value& resource, | |
169 const DicomArray& query) | |
170 { | |
171 for (size_t i = 0; i < query.GetSize(); i++) | |
172 { | |
173 if (query.GetElement(i).GetValue().IsNull() || | |
174 query.GetElement(i).GetTag() == DICOM_TAG_QUERY_RETRIEVE_LEVEL || | |
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175 query.GetElement(i).GetTag() == DICOM_TAG_SPECIFIC_CHARACTER_SET || |
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176 query.GetElement(i).GetTag() == DICOM_TAG_MODALITIES_IN_STUDY) |
608 | 177 { |
178 continue; | |
179 } | |
180 | |
181 std::string tag = query.GetElement(i).GetTag().Format(); | |
182 std::string value; | |
183 if (resource.isMember(tag)) | |
184 { | |
185 value = resource.get(tag, Json::arrayValue).get("Value", "").asString(); | |
186 } | |
187 | |
188 if (!Matches(value, query.GetElement(i).GetValue().AsString())) | |
189 { | |
190 return false; | |
191 } | |
192 } | |
193 | |
194 return true; | |
195 } | |
196 | |
197 | |
198 static void AddAnswer(DicomFindAnswers& answers, | |
199 const Json::Value& resource, | |
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200 const DicomArray& query, |
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201 bool isFirst) |
608 | 202 { |
203 DicomMap result; | |
204 | |
205 for (size_t i = 0; i < query.GetSize(); i++) | |
206 { | |
1332 | 207 // Fix issue 30 (QR response missing "Query/Retrieve Level" (008,0052)) |
1346 | 208 if (query.GetElement(i).GetTag() == DICOM_TAG_QUERY_RETRIEVE_LEVEL) |
209 { | |
210 result.SetValue(query.GetElement(i).GetTag(), query.GetElement(i).GetValue()); | |
211 } | |
212 else if (query.GetElement(i).GetTag() == DICOM_TAG_SPECIFIC_CHARACTER_SET) | |
213 { | |
214 } | |
215 else | |
608 | 216 { |
217 std::string tag = query.GetElement(i).GetTag().Format(); | |
218 std::string value; | |
219 if (resource.isMember(tag)) | |
220 { | |
221 value = resource.get(tag, Json::arrayValue).get("Value", "").asString(); | |
222 result.SetValue(query.GetElement(i).GetTag(), value); | |
223 } | |
722 | 224 else |
225 { | |
226 result.SetValue(query.GetElement(i).GetTag(), ""); | |
227 } | |
608 | 228 } |
229 } | |
230 | |
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231 if (result.GetSize() == 0) |
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232 { |
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233 if (isFirst) |
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234 { |
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235 LOG(WARNING) << "The C-FIND request does not return any DICOM tag"; |
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236 } |
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237 } |
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238 else |
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239 { |
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240 answers.Add(result); |
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241 } |
608 | 242 } |
243 | |
244 | |
615 | 245 static bool ApplyModalitiesInStudyFilter(std::list<std::string>& filteredStudies, |
246 const std::list<std::string>& studies, | |
612 | 247 const DicomMap& input, |
248 ServerIndex& index) | |
249 { | |
615 | 250 filteredStudies.clear(); |
612 | 251 |
252 const DicomValue& v = input.GetValue(DICOM_TAG_MODALITIES_IN_STUDY); | |
253 if (v.IsNull()) | |
254 { | |
255 return false; | |
256 } | |
257 | |
258 // Move the allowed modalities into a "std::set" | |
259 std::vector<std::string> tmp; | |
260 Toolbox::TokenizeString(tmp, v.AsString(), '\\'); | |
261 | |
262 std::set<std::string> modalities; | |
263 for (size_t i = 0; i < tmp.size(); i++) | |
264 { | |
265 modalities.insert(tmp[i]); | |
266 } | |
267 | |
268 // Loop over the studies | |
615 | 269 for (std::list<std::string>::const_iterator |
656 | 270 it = studies.begin(); it != studies.end(); ++it) |
612 | 271 { |
272 try | |
273 { | |
274 // We are considering a single study. Check whether one of | |
275 // its child series matches one of the modalities. | |
276 Json::Value study; | |
615 | 277 if (index.LookupResource(study, *it, ResourceType_Study)) |
612 | 278 { |
279 // Loop over the series of the considered study. | |
280 for (Json::Value::ArrayIndex j = 0; j < study["Series"].size(); j++) // (*) | |
281 { | |
282 Json::Value series; | |
283 if (index.LookupResource(series, study["Series"][j].asString(), ResourceType_Series)) | |
284 { | |
285 // Get the modality of this series | |
286 if (series["MainDicomTags"].isMember("Modality")) | |
287 { | |
288 std::string modality = series["MainDicomTags"]["Modality"].asString(); | |
289 if (modalities.find(modality) != modalities.end()) | |
290 { | |
291 // This series of the considered study matches one | |
292 // of the required modalities. Take the study into | |
293 // consideration for future filtering. | |
615 | 294 filteredStudies.push_back(*it); |
612 | 295 |
296 // We have finished considering this study. Break the study loop at (*). | |
297 break; | |
298 } | |
299 } | |
300 } | |
301 } | |
302 } | |
303 } | |
304 catch (OrthancException&) | |
305 { | |
306 // This resource has probably been deleted during the find request | |
307 } | |
308 } | |
309 | |
310 return true; | |
311 } | |
312 | |
313 | |
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314 namespace |
615 | 315 { |
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316 class CandidateResources |
615 | 317 { |
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318 private: |
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319 ServerIndex& index_; |
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320 ModalityManufacturer manufacturer_; |
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321 ResourceType level_; |
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322 bool isFilterApplied_; |
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323 std::set<std::string> filtered_; |
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324 |
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325 static void ListToSet(std::set<std::string>& target, |
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326 const std::list<std::string>& source) |
615 | 327 { |
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328 for (std::list<std::string>::const_iterator |
716 | 329 it = source.begin(); it != source.end(); ++it) |
615 | 330 { |
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331 target.insert(*it); |
615 | 332 } |
333 } | |
334 | |
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335 void ApplyExactFilter(const DicomTag& tag, const std::string& value) |
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336 { |
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337 LOG(INFO) << "Applying exact filter on tag " |
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338 << FromDcmtkBridge::GetName(tag) << " (value: " << value << ")"; |
615 | 339 |
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340 std::list<std::string> resources; |
1162 | 341 index_.LookupIdentifier(resources, tag, value, level_); |
615 | 342 |
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343 if (isFilterApplied_) |
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344 { |
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345 std::set<std::string> s; |
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346 ListToSet(s, resources); |
615 | 347 |
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348 std::set<std::string> tmp = filtered_; |
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349 filtered_.clear(); |
615 | 350 |
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351 for (std::set<std::string>::const_iterator |
716 | 352 it = tmp.begin(); it != tmp.end(); ++it) |
665 | 353 { |
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354 if (s.find(*it) != s.end()) |
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355 { |
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356 filtered_.insert(*it); |
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357 } |
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358 } |
665 | 359 } |
360 else | |
361 { | |
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362 assert(filtered_.empty()); |
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363 isFilterApplied_ = true; |
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364 ListToSet(filtered_, resources); |
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365 } |
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366 } |
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367 |
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368 public: |
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369 CandidateResources(ServerIndex& index, |
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370 ModalityManufacturer manufacturer) : |
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371 index_(index), |
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372 manufacturer_(manufacturer), |
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373 level_(ResourceType_Patient), |
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374 isFilterApplied_(false) |
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375 { |
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376 } |
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377 |
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378 ResourceType GetLevel() const |
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379 { |
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380 return level_; |
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381 } |
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382 |
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383 void GoDown() |
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384 { |
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385 assert(level_ != ResourceType_Instance); |
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386 |
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387 if (isFilterApplied_) |
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388 { |
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389 std::set<std::string> tmp = filtered_; |
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390 |
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391 filtered_.clear(); |
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392 |
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393 for (std::set<std::string>::const_iterator |
716 | 394 it = tmp.begin(); it != tmp.end(); ++it) |
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395 { |
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396 std::list<std::string> children; |
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397 index_.GetChildren(children, *it); |
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398 ListToSet(filtered_, children); |
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399 } |
665 | 400 } |
401 | |
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402 switch (level_) |
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403 { |
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404 case ResourceType_Patient: |
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405 level_ = ResourceType_Study; |
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406 break; |
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407 |
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408 case ResourceType_Study: |
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409 level_ = ResourceType_Series; |
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410 break; |
615 | 411 |
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412 case ResourceType_Series: |
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413 level_ = ResourceType_Instance; |
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414 break; |
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415 |
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416 default: |
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417 throw OrthancException(ErrorCode_InternalError); |
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418 } |
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419 } |
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420 |
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421 void Flatten(std::list<std::string>& resources) const |
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422 { |
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423 resources.clear(); |
615 | 424 |
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425 if (isFilterApplied_) |
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426 { |
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427 for (std::set<std::string>::const_iterator |
716 | 428 it = filtered_.begin(); it != filtered_.end(); ++it) |
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429 { |
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430 resources.push_back(*it); |
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431 } |
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432 } |
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433 else |
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434 { |
1354 | 435 index_.GetAllUuids(resources, level_); |
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436 } |
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437 } |
615 | 438 |
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439 void ApplyFilter(const DicomTag& tag, const DicomMap& query) |
615 | 440 { |
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441 if (query.HasTag(tag)) |
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442 { |
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443 const DicomValue& value = query.GetValue(tag); |
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444 if (!value.IsNull()) |
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445 { |
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446 std::string value = query.GetValue(tag).AsString(); |
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447 if (!IsWildcard(value)) |
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448 { |
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449 ApplyExactFilter(tag, value); |
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450 } |
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451 } |
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452 } |
615 | 453 } |
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454 }; |
615 | 455 } |
456 | |
457 | |
941
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458 bool OrthancFindRequestHandler::HasReachedLimit(const DicomFindAnswers& answers, |
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459 ResourceType level) const |
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460 { |
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461 switch (level) |
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462 { |
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463 case ResourceType_Patient: |
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464 case ResourceType_Study: |
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465 case ResourceType_Series: |
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466 return (maxResults_ != 0 && answers.GetSize() >= maxResults_); |
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467 |
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468 case ResourceType_Instance: |
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469 return (maxInstances_ != 0 && answers.GetSize() >= maxInstances_); |
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470 |
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471 default: |
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472 throw OrthancException(ErrorCode_InternalError); |
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473 } |
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474 } |
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475 |
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476 |
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477 bool OrthancFindRequestHandler::Handle(DicomFindAnswers& answers, |
665 | 478 const DicomMap& input, |
479 const std::string& callingAETitle) | |
565
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480 { |
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481 /** |
665 | 482 * Retrieve the manufacturer of this modality. |
483 **/ | |
484 | |
485 ModalityManufacturer manufacturer; | |
486 | |
487 { | |
806 | 488 RemoteModalityParameters modality; |
665 | 489 |
810
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490 if (!Configuration::LookupDicomModalityUsingAETitle(modality, callingAETitle)) |
665 | 491 { |
492 throw OrthancException("Unknown modality"); | |
493 } | |
806 | 494 |
495 manufacturer = modality.GetManufacturer(); | |
665 | 496 } |
497 | |
498 | |
499 /** | |
565
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500 * Retrieve the query level. |
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501 **/ |
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502 |
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503 const DicomValue* levelTmp = input.TestAndGetValue(DICOM_TAG_QUERY_RETRIEVE_LEVEL); |
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504 if (levelTmp == NULL) |
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505 { |
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506 throw OrthancException(ErrorCode_BadRequest); |
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507 } |
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508 |
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509 ResourceType level = StringToResourceType(levelTmp->AsString().c_str()); |
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510 |
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511 if (level != ResourceType_Patient && |
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512 level != ResourceType_Study && |
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513 level != ResourceType_Series && |
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514 level != ResourceType_Instance) |
565
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515 { |
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516 throw OrthancException(ErrorCode_NotImplemented); |
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517 } |
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518 |
665 | 519 |
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520 DicomArray query(input); |
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521 LOG(INFO) << "DICOM C-Find request at level: " << EnumerationToString(level); |
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522 |
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523 for (size_t i = 0; i < query.GetSize(); i++) |
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524 { |
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525 if (!query.GetElement(i).GetValue().IsNull()) |
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526 { |
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527 LOG(INFO) << " " << query.GetElement(i).GetTag() |
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528 << " " << FromDcmtkBridge::GetName(query.GetElement(i).GetTag()) |
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529 << " = " << query.GetElement(i).GetValue().AsString(); |
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530 } |
565
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531 } |
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532 |
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533 |
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534 /** |
615 | 535 * Retrieve the candidate resources for this query level. Whenever |
536 * possible, we avoid returning ALL the resources for this query | |
537 * level, as it would imply reading the JSON file on the harddisk | |
538 * for each of them. | |
608 | 539 **/ |
540 | |
714
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541 CandidateResources candidates(context_.GetIndex(), manufacturer); |
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542 |
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543 for (;;) |
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544 { |
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545 switch (candidates.GetLevel()) |
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546 { |
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547 case ResourceType_Patient: |
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548 candidates.ApplyFilter(DICOM_TAG_PATIENT_ID, input); |
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549 break; |
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550 |
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551 case ResourceType_Study: |
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552 candidates.ApplyFilter(DICOM_TAG_STUDY_INSTANCE_UID, input); |
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553 candidates.ApplyFilter(DICOM_TAG_ACCESSION_NUMBER, input); |
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554 break; |
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555 |
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556 case ResourceType_Series: |
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557 candidates.ApplyFilter(DICOM_TAG_SERIES_INSTANCE_UID, input); |
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558 break; |
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559 |
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560 case ResourceType_Instance: |
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561 candidates.ApplyFilter(DICOM_TAG_SOP_INSTANCE_UID, input); |
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562 break; |
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563 |
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564 default: |
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565 throw OrthancException(ErrorCode_InternalError); |
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566 } |
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567 |
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568 if (candidates.GetLevel() == level) |
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569 { |
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570 break; |
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571 } |
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572 |
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573 candidates.GoDown(); |
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574 } |
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575 |
615 | 576 std::list<std::string> resources; |
714
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577 candidates.Flatten(resources); |
608 | 578 |
611
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579 |
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580 /** |
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581 * Apply filtering on modalities for studies, if asked (this is an |
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582 * extension to standard DICOM) |
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583 * http://www.medicalconnections.co.uk/kb/Filtering_on_and_Retrieving_the_Modality_in_a_C_FIND |
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584 **/ |
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585 |
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586 if (level == ResourceType_Study && |
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587 input.HasTag(DICOM_TAG_MODALITIES_IN_STUDY)) |
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588 { |
615 | 589 std::list<std::string> filtered; |
612 | 590 if (ApplyModalitiesInStudyFilter(filtered, resources, input, context_.GetIndex())) |
611
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591 { |
612 | 592 resources = filtered; |
611
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593 } |
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594 } |
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595 |
608 | 596 /** |
597 * Loop over all the resources for this query level. | |
565
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598 **/ |
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599 |
1331
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600 LOG(INFO) << "Number of candidate resources after exact filtering on the identifiers only: " << resources.size(); |
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601 |
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602 bool isFirst = true; |
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603 |
615 | 604 for (std::list<std::string>::const_iterator |
656 | 605 resource = resources.begin(); resource != resources.end(); ++resource) |
565
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606 { |
608 | 607 try |
565
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608 { |
608 | 609 std::string instance; |
615 | 610 if (LookupOneInstance(instance, context_.GetIndex(), *resource, level)) |
565
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611 { |
615 | 612 Json::Value info; |
613 context_.ReadJson(info, instance); | |
1331
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614 |
615 | 615 if (Matches(info, query)) |
608 | 616 { |
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617 if (HasReachedLimit(answers, level)) |
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618 { |
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619 // Too many results, stop before recording this new match |
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620 return false; |
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621 } |
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622 |
1331
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623 AddAnswer(answers, info, query, isFirst); |
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624 isFirst = false; |
608 | 625 } |
565
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626 } |
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627 } |
608 | 628 catch (OrthancException&) |
629 { | |
611
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630 // This resource has probably been deleted during the find request |
608 | 631 } |
565
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632 } |
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633 |
1331
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634 LOG(INFO) << "Number of candidate resources after filtering on all tags: " << answers.GetSize(); |
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635 |
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636 return true; // All the matching resources have been returned |
565
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637 } |
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638 } |
682
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639 |
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640 |
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641 |
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642 /** |
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643 * TODO : Case-insensitive match for PN value representation (Patient |
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644 * Name). Case-senstive match for all the other value representations. |
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645 * |
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646 * Reference: DICOM PS 3.4 |
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647 * - C.2.2.2.1 ("Single Value Matching") |
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648 * - C.2.2.2.4 ("Wild Card Matching") |
1070 | 649 * http://medical.nema.org/Dicom/2011/11_04pu.pdf |
650 * | |
651 * "Except for Attributes with a PN Value Representation, only | |
652 * entities with values which match exactly the value specified in the | |
653 * request shall match. This matching is case-sensitive, i.e., | |
654 * sensitive to the exact encoding of the key attribute value in | |
655 * character sets where a letter may have multiple encodings (e.g., | |
656 * based on its case, its position in a word, or whether it is | |
657 * accented) | |
658 * | |
659 * For Attributes with a PN Value Representation (e.g., Patient Name | |
660 * (0010,0010)), an application may perform literal matching that is | |
661 * either case-sensitive, or that is insensitive to some or all | |
662 * aspects of case, position, accent, or other character encoding | |
663 * variants." | |
664 * | |
665 * (0008,0018) UI SOPInstanceUID => Case-sensitive | |
666 * (0008,0050) SH AccessionNumber => Case-sensitive | |
667 * (0010,0020) LO PatientID => Case-sensitive | |
668 * (0020,000D) UI StudyInstanceUID => Case-sensitive | |
669 * (0020,000E) UI SeriesInstanceUID => Case-sensitive | |
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670 **/ |