Mercurial > hg > orthanc
annotate OrthancServer/OrthancFindRequestHandler.cpp @ 845:48016722c770 jpeg
refactoring
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Thu, 05 Jun 2014 15:58:07 +0200 |
parents | 84513f2ee1f3 |
children | 83489fddd8c5 |
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1 /** |
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2 * Orthanc - A Lightweight, RESTful DICOM Store |
689 | 3 * Copyright (C) 2012-2014 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 |
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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, | |
200 const DicomArray& query) | |
201 { | |
202 DicomMap result; | |
203 | |
204 for (size_t i = 0; i < query.GetSize(); i++) | |
205 { | |
206 if (query.GetElement(i).GetTag() != DICOM_TAG_QUERY_RETRIEVE_LEVEL && | |
207 query.GetElement(i).GetTag() != DICOM_TAG_SPECIFIC_CHARACTER_SET) | |
208 { | |
209 std::string tag = query.GetElement(i).GetTag().Format(); | |
210 std::string value; | |
211 if (resource.isMember(tag)) | |
212 { | |
213 value = resource.get(tag, Json::arrayValue).get("Value", "").asString(); | |
214 result.SetValue(query.GetElement(i).GetTag(), value); | |
215 } | |
722 | 216 else |
217 { | |
218 result.SetValue(query.GetElement(i).GetTag(), ""); | |
219 } | |
608 | 220 } |
221 } | |
222 | |
223 answers.Add(result); | |
224 } | |
225 | |
226 | |
615 | 227 static bool ApplyModalitiesInStudyFilter(std::list<std::string>& filteredStudies, |
228 const std::list<std::string>& studies, | |
612 | 229 const DicomMap& input, |
230 ServerIndex& index) | |
231 { | |
615 | 232 filteredStudies.clear(); |
612 | 233 |
234 const DicomValue& v = input.GetValue(DICOM_TAG_MODALITIES_IN_STUDY); | |
235 if (v.IsNull()) | |
236 { | |
237 return false; | |
238 } | |
239 | |
240 // Move the allowed modalities into a "std::set" | |
241 std::vector<std::string> tmp; | |
242 Toolbox::TokenizeString(tmp, v.AsString(), '\\'); | |
243 | |
244 std::set<std::string> modalities; | |
245 for (size_t i = 0; i < tmp.size(); i++) | |
246 { | |
247 modalities.insert(tmp[i]); | |
248 } | |
249 | |
250 // Loop over the studies | |
615 | 251 for (std::list<std::string>::const_iterator |
656 | 252 it = studies.begin(); it != studies.end(); ++it) |
612 | 253 { |
254 try | |
255 { | |
256 // We are considering a single study. Check whether one of | |
257 // its child series matches one of the modalities. | |
258 Json::Value study; | |
615 | 259 if (index.LookupResource(study, *it, ResourceType_Study)) |
612 | 260 { |
261 // Loop over the series of the considered study. | |
262 for (Json::Value::ArrayIndex j = 0; j < study["Series"].size(); j++) // (*) | |
263 { | |
264 Json::Value series; | |
265 if (index.LookupResource(series, study["Series"][j].asString(), ResourceType_Series)) | |
266 { | |
267 // Get the modality of this series | |
268 if (series["MainDicomTags"].isMember("Modality")) | |
269 { | |
270 std::string modality = series["MainDicomTags"]["Modality"].asString(); | |
271 if (modalities.find(modality) != modalities.end()) | |
272 { | |
273 // This series of the considered study matches one | |
274 // of the required modalities. Take the study into | |
275 // consideration for future filtering. | |
615 | 276 filteredStudies.push_back(*it); |
612 | 277 |
278 // We have finished considering this study. Break the study loop at (*). | |
279 break; | |
280 } | |
281 } | |
282 } | |
283 } | |
284 } | |
285 } | |
286 catch (OrthancException&) | |
287 { | |
288 // This resource has probably been deleted during the find request | |
289 } | |
290 } | |
291 | |
292 return true; | |
293 } | |
294 | |
295 | |
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296 namespace |
615 | 297 { |
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298 class CandidateResources |
615 | 299 { |
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300 private: |
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301 ServerIndex& index_; |
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302 ModalityManufacturer manufacturer_; |
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303 ResourceType level_; |
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304 bool isFilterApplied_; |
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305 std::set<std::string> filtered_; |
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306 |
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307 static void ListToSet(std::set<std::string>& target, |
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308 const std::list<std::string>& source) |
615 | 309 { |
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310 for (std::list<std::string>::const_iterator |
716 | 311 it = source.begin(); it != source.end(); ++it) |
615 | 312 { |
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313 target.insert(*it); |
615 | 314 } |
315 } | |
316 | |
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317 void ApplyExactFilter(const DicomTag& tag, const std::string& value) |
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318 { |
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319 LOG(INFO) << "Applying exact filter on tag " |
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320 << FromDcmtkBridge::GetName(tag) << " (value: " << value << ")"; |
615 | 321 |
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322 std::list<std::string> resources; |
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323 index_.LookupTagValue(resources, tag, value, level_); |
615 | 324 |
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325 if (isFilterApplied_) |
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326 { |
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327 std::set<std::string> s; |
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328 ListToSet(s, resources); |
615 | 329 |
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330 std::set<std::string> tmp = filtered_; |
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331 filtered_.clear(); |
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333 for (std::set<std::string>::const_iterator |
716 | 334 it = tmp.begin(); it != tmp.end(); ++it) |
665 | 335 { |
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336 if (s.find(*it) != s.end()) |
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337 { |
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338 filtered_.insert(*it); |
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339 } |
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340 } |
665 | 341 } |
342 else | |
343 { | |
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344 assert(filtered_.empty()); |
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345 isFilterApplied_ = true; |
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346 ListToSet(filtered_, resources); |
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347 } |
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348 } |
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349 |
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350 public: |
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351 CandidateResources(ServerIndex& index, |
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352 ModalityManufacturer manufacturer) : |
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353 index_(index), |
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354 manufacturer_(manufacturer), |
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355 level_(ResourceType_Patient), |
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356 isFilterApplied_(false) |
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357 { |
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358 } |
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359 |
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360 ResourceType GetLevel() const |
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361 { |
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362 return level_; |
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363 } |
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364 |
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365 void GoDown() |
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366 { |
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367 assert(level_ != ResourceType_Instance); |
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368 |
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369 if (isFilterApplied_) |
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370 { |
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371 std::set<std::string> tmp = filtered_; |
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372 |
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373 filtered_.clear(); |
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374 |
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375 for (std::set<std::string>::const_iterator |
716 | 376 it = tmp.begin(); it != tmp.end(); ++it) |
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377 { |
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378 std::list<std::string> children; |
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379 index_.GetChildren(children, *it); |
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380 ListToSet(filtered_, children); |
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381 } |
665 | 382 } |
383 | |
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384 switch (level_) |
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385 { |
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386 case ResourceType_Patient: |
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387 level_ = ResourceType_Study; |
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388 break; |
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389 |
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390 case ResourceType_Study: |
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391 level_ = ResourceType_Series; |
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392 break; |
615 | 393 |
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394 case ResourceType_Series: |
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395 level_ = ResourceType_Instance; |
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396 break; |
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397 |
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398 default: |
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399 throw OrthancException(ErrorCode_InternalError); |
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400 } |
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401 } |
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402 |
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403 void Flatten(std::list<std::string>& resources) const |
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404 { |
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405 resources.clear(); |
615 | 406 |
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407 if (isFilterApplied_) |
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408 { |
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409 for (std::set<std::string>::const_iterator |
716 | 410 it = filtered_.begin(); it != filtered_.end(); ++it) |
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411 { |
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412 resources.push_back(*it); |
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413 } |
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414 } |
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415 else |
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416 { |
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417 Json::Value tmp; |
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418 index_.GetAllUuids(tmp, level_); |
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419 for (Json::Value::ArrayIndex i = 0; i < tmp.size(); i++) |
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420 { |
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421 resources.push_back(tmp[i].asString()); |
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422 } |
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423 } |
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424 } |
615 | 425 |
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426 void ApplyFilter(const DicomTag& tag, const DicomMap& query) |
615 | 427 { |
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428 if (query.HasTag(tag)) |
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429 { |
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430 const DicomValue& value = query.GetValue(tag); |
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431 if (!value.IsNull()) |
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432 { |
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433 std::string value = query.GetValue(tag).AsString(); |
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434 if (!IsWildcard(value)) |
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435 { |
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436 ApplyExactFilter(tag, value); |
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437 } |
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438 } |
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439 } |
615 | 440 } |
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441 }; |
615 | 442 } |
443 | |
444 | |
618 | 445 void OrthancFindRequestHandler::Handle(DicomFindAnswers& answers, |
665 | 446 const DicomMap& input, |
447 const std::string& callingAETitle) | |
565
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448 { |
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449 /** |
665 | 450 * Retrieve the manufacturer of this modality. |
451 **/ | |
452 | |
453 ModalityManufacturer manufacturer; | |
454 | |
455 { | |
806 | 456 RemoteModalityParameters modality; |
665 | 457 |
810
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458 if (!Configuration::LookupDicomModalityUsingAETitle(modality, callingAETitle)) |
665 | 459 { |
460 throw OrthancException("Unknown modality"); | |
461 } | |
806 | 462 |
463 manufacturer = modality.GetManufacturer(); | |
665 | 464 } |
465 | |
466 | |
467 /** | |
565
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468 * Retrieve the query level. |
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469 **/ |
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470 |
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471 const DicomValue* levelTmp = input.TestAndGetValue(DICOM_TAG_QUERY_RETRIEVE_LEVEL); |
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472 if (levelTmp == NULL) |
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473 { |
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474 throw OrthancException(ErrorCode_BadRequest); |
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475 } |
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476 |
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477 ResourceType level = StringToResourceType(levelTmp->AsString().c_str()); |
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478 |
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479 if (level != ResourceType_Patient && |
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480 level != ResourceType_Study && |
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481 level != ResourceType_Series && |
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482 level != ResourceType_Instance) |
565
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483 { |
714
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484 throw OrthancException(ErrorCode_NotImplemented); |
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485 } |
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486 |
665 | 487 |
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488 DicomArray query(input); |
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489 LOG(INFO) << "DICOM C-Find request at level: " << EnumerationToString(level); |
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490 |
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491 for (size_t i = 0; i < query.GetSize(); i++) |
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492 { |
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493 if (!query.GetElement(i).GetValue().IsNull()) |
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494 { |
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495 LOG(INFO) << " " << query.GetElement(i).GetTag() |
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496 << " " << FromDcmtkBridge::GetName(query.GetElement(i).GetTag()) |
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497 << " = " << query.GetElement(i).GetValue().AsString(); |
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498 } |
565
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499 } |
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500 |
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501 |
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502 /** |
615 | 503 * Retrieve the candidate resources for this query level. Whenever |
504 * possible, we avoid returning ALL the resources for this query | |
505 * level, as it would imply reading the JSON file on the harddisk | |
506 * for each of them. | |
608 | 507 **/ |
508 | |
714
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509 CandidateResources candidates(context_.GetIndex(), manufacturer); |
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510 |
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511 for (;;) |
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512 { |
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513 switch (candidates.GetLevel()) |
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514 { |
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515 case ResourceType_Patient: |
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516 candidates.ApplyFilter(DICOM_TAG_PATIENT_ID, input); |
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517 break; |
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518 |
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519 case ResourceType_Study: |
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520 candidates.ApplyFilter(DICOM_TAG_STUDY_INSTANCE_UID, input); |
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521 candidates.ApplyFilter(DICOM_TAG_ACCESSION_NUMBER, input); |
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522 break; |
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523 |
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524 case ResourceType_Series: |
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525 candidates.ApplyFilter(DICOM_TAG_SERIES_INSTANCE_UID, input); |
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526 break; |
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527 |
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528 case ResourceType_Instance: |
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529 candidates.ApplyFilter(DICOM_TAG_SOP_INSTANCE_UID, input); |
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530 break; |
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531 |
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532 default: |
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533 throw OrthancException(ErrorCode_InternalError); |
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534 } |
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535 |
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536 if (candidates.GetLevel() == level) |
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537 { |
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538 break; |
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539 } |
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540 |
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541 candidates.GoDown(); |
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542 } |
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543 |
615 | 544 std::list<std::string> resources; |
714
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545 candidates.Flatten(resources); |
608 | 546 |
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547 LOG(INFO) << "Number of candidate resources after exact filtering: " << resources.size(); |
611
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548 |
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549 /** |
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550 * Apply filtering on modalities for studies, if asked (this is an |
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551 * extension to standard DICOM) |
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552 * http://www.medicalconnections.co.uk/kb/Filtering_on_and_Retrieving_the_Modality_in_a_C_FIND |
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553 **/ |
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554 |
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555 if (level == ResourceType_Study && |
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556 input.HasTag(DICOM_TAG_MODALITIES_IN_STUDY)) |
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557 { |
615 | 558 std::list<std::string> filtered; |
612 | 559 if (ApplyModalitiesInStudyFilter(filtered, resources, input, context_.GetIndex())) |
611
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560 { |
612 | 561 resources = filtered; |
611
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562 } |
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563 } |
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564 |
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565 |
608 | 566 /** |
567 * Loop over all the resources for this query level. | |
565
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568 **/ |
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569 |
615 | 570 for (std::list<std::string>::const_iterator |
656 | 571 resource = resources.begin(); resource != resources.end(); ++resource) |
565
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572 { |
608 | 573 try |
565
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574 { |
608 | 575 std::string instance; |
615 | 576 if (LookupOneInstance(instance, context_.GetIndex(), *resource, level)) |
565
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577 { |
615 | 578 Json::Value info; |
579 context_.ReadJson(info, instance); | |
608 | 580 |
615 | 581 if (Matches(info, query)) |
608 | 582 { |
615 | 583 AddAnswer(answers, info, query); |
608 | 584 } |
565
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585 } |
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586 } |
608 | 587 catch (OrthancException&) |
588 { | |
611
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589 // This resource has probably been deleted during the find request |
608 | 590 } |
565
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591 } |
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592 } |
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593 } |
682
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594 |
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595 |
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596 |
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597 /** |
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598 * TODO : Case-insensitive match for PN value representation (Patient |
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599 * Name). Case-senstive match for all the other value representations. |
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600 * |
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601 * Reference: DICOM PS 3.4 |
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602 * - C.2.2.2.1 ("Single Value Matching") |
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603 * - C.2.2.2.4 ("Wild Card Matching") |
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604 * http://medical.nema.org/Dicom/2011/11_04pu.pdf ( |
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605 **/ |