0
|
1 /**
|
62
|
2 * Orthanc - A Lightweight, RESTful DICOM Store
|
0
|
3 * Copyright (C) 2012 Medical Physics Department, CHU of Liege,
|
|
4 * Belgium
|
|
5 *
|
|
6 * This program is free software: you can redistribute it and/or
|
|
7 * modify it under the terms of the GNU General Public License as
|
|
8 * published by the Free Software Foundation, either version 3 of the
|
|
9 * License, or (at your option) any later version.
|
136
|
10 *
|
|
11 * In addition, as a special exception, the copyright holders of this
|
|
12 * program give permission to link the code of its release with the
|
|
13 * OpenSSL project's "OpenSSL" library (or with modified versions of it
|
|
14 * that use the same license as the "OpenSSL" library), and distribute
|
|
15 * the linked executables. You must obey the GNU General Public License
|
|
16 * in all respects for all of the code used other than "OpenSSL". If you
|
|
17 * modify file(s) with this exception, you may extend this exception to
|
|
18 * your version of the file(s), but you are not obligated to do so. If
|
|
19 * you do not wish to do so, delete this exception statement from your
|
|
20 * version. If you delete this exception statement from all source files
|
|
21 * in the program, then also delete it here.
|
0
|
22 *
|
|
23 * This program is distributed in the hope that it will be useful, but
|
|
24 * WITHOUT ANY WARRANTY; without even the implied warranty of
|
|
25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
|
|
26 * General Public License for more details.
|
|
27 *
|
|
28 * You should have received a copy of the GNU General Public License
|
|
29 * along with this program. If not, see <http://www.gnu.org/licenses/>.
|
|
30 **/
|
|
31
|
|
32
|
|
33 #include "ServerIndex.h"
|
|
34
|
62
|
35 using namespace Orthanc;
|
0
|
36
|
6
|
37 #ifndef NOMINMAX
|
2
|
38 #define NOMINMAX
|
6
|
39 #endif
|
|
40
|
8
|
41 #include "EmbeddedResources.h"
|
0
|
42 #include "../Core/Toolbox.h"
|
|
43 #include "../Core/Uuid.h"
|
|
44 #include "../Core/DicomFormat/DicomArray.h"
|
|
45 #include "../Core/SQLite/Transaction.h"
|
|
46 #include "FromDcmtkBridge.h"
|
|
47
|
|
48 #include <boost/lexical_cast.hpp>
|
|
49 #include <stdio.h>
|
108
|
50 #include <glog/logging.h>
|
0
|
51
|
62
|
52 namespace Orthanc
|
0
|
53 {
|
|
54 namespace Internals
|
|
55 {
|
|
56 class DeleteFromFileStorageFunction : public SQLite::IScalarFunction
|
|
57 {
|
|
58 private:
|
|
59 FileStorage fileStorage_;
|
|
60
|
|
61 public:
|
|
62 DeleteFromFileStorageFunction(const std::string& path) :
|
|
63 fileStorage_(path)
|
|
64 {
|
|
65 }
|
|
66
|
|
67 virtual const char* GetName() const
|
|
68 {
|
|
69 return "DeleteFromFileStorage";
|
|
70 }
|
|
71
|
|
72 virtual unsigned int GetCardinality() const
|
|
73 {
|
|
74 return 1;
|
|
75 }
|
|
76
|
|
77 virtual void Compute(SQLite::FunctionContext& context)
|
|
78 {
|
|
79 std::string fileUuid = context.GetStringValue(0);
|
108
|
80 LOG(INFO) << "Removing file [" << fileUuid << "]";
|
0
|
81 if (Toolbox::IsUuid(fileUuid))
|
|
82 {
|
|
83 fileStorage_.Remove(fileUuid);
|
|
84 }
|
|
85 }
|
|
86 };
|
|
87
|
|
88
|
|
89 class SignalDeletedLevelFunction : public SQLite::IScalarFunction
|
|
90 {
|
|
91 private:
|
|
92 int remainingLevel_;
|
|
93 std::string remainingLevelUuid_;
|
|
94
|
|
95 public:
|
|
96 void Clear()
|
|
97 {
|
|
98 remainingLevel_ = std::numeric_limits<int>::max();
|
|
99 }
|
|
100
|
|
101 bool HasRemainingLevel() const
|
|
102 {
|
|
103 return (remainingLevel_ != 0 &&
|
|
104 remainingLevel_ != std::numeric_limits<int>::max());
|
|
105 }
|
|
106
|
|
107 const std::string& GetRemainingLevelUuid() const
|
|
108 {
|
|
109 assert(HasRemainingLevel());
|
|
110 return remainingLevelUuid_;
|
|
111 }
|
|
112
|
|
113 const char* GetRemainingLevelType() const
|
|
114 {
|
|
115 assert(HasRemainingLevel());
|
|
116 switch (remainingLevel_)
|
|
117 {
|
|
118 case 1:
|
|
119 return "patient";
|
|
120 case 2:
|
|
121 return "study";
|
|
122 case 3:
|
|
123 return "series";
|
|
124 default:
|
62
|
125 throw OrthancException(ErrorCode_InternalError);
|
0
|
126 }
|
|
127 }
|
|
128
|
|
129 virtual const char* GetName() const
|
|
130 {
|
|
131 return "SignalDeletedLevel";
|
|
132 }
|
|
133
|
|
134 virtual unsigned int GetCardinality() const
|
|
135 {
|
|
136 return 2;
|
|
137 }
|
|
138
|
|
139 virtual void Compute(SQLite::FunctionContext& context)
|
|
140 {
|
|
141 int level = context.GetIntValue(0);
|
|
142 if (level < remainingLevel_)
|
|
143 {
|
|
144 remainingLevel_ = level;
|
|
145 remainingLevelUuid_ = context.GetStringValue(1);
|
|
146 }
|
|
147
|
|
148 //printf("deleted level [%d] [%s]\n", level, context.GetStringValue(1).c_str());
|
|
149 }
|
|
150 };
|
|
151 }
|
|
152
|
|
153
|
|
154 void ServerIndex::StoreMainDicomTags(const std::string& uuid,
|
|
155 const DicomMap& map)
|
|
156 {
|
|
157 SQLite::Statement s(db_, SQLITE_FROM_HERE, "INSERT INTO MainDicomTags VALUES(?, ?, ?, ?)");
|
|
158
|
|
159 DicomArray flattened(map);
|
|
160 for (size_t i = 0; i < flattened.GetSize(); i++)
|
|
161 {
|
|
162 s.Reset();
|
|
163 s.BindString(0, uuid);
|
|
164 s.BindInt(1, flattened.GetElement(i).GetTag().GetGroup());
|
|
165 s.BindInt(2, flattened.GetElement(i).GetTag().GetElement());
|
|
166 s.BindString(3, flattened.GetElement(i).GetValue().AsString());
|
|
167 s.Run();
|
|
168 }
|
|
169 }
|
|
170
|
|
171 bool ServerIndex::GetMainDicomStringTag(std::string& result,
|
|
172 const std::string& uuid,
|
|
173 const DicomTag& tag)
|
|
174 {
|
|
175 SQLite::Statement s(db_, SQLITE_FROM_HERE,
|
|
176 "SELECT * FROM MainDicomTags WHERE uuid=? AND tagGroup=? AND tagElement=?");
|
|
177 s.BindString(0, uuid);
|
|
178 s.BindInt(1, tag.GetGroup());
|
|
179 s.BindInt(2, tag.GetElement());
|
|
180 if (!s.Step())
|
|
181 {
|
|
182 return false;
|
|
183 }
|
|
184
|
|
185 result = s.ColumnString(0);
|
|
186 return true;
|
|
187 }
|
|
188
|
|
189 bool ServerIndex::GetMainDicomIntTag(int& result,
|
|
190 const std::string& uuid,
|
|
191 const DicomTag& tag)
|
|
192 {
|
|
193 std::string s;
|
|
194 if (!GetMainDicomStringTag(s, uuid, tag))
|
|
195 {
|
|
196 return false;
|
|
197 }
|
|
198
|
|
199 try
|
|
200 {
|
|
201 result = boost::lexical_cast<int>(s);
|
|
202 return true;
|
|
203 }
|
|
204 catch (boost::bad_lexical_cast)
|
|
205 {
|
|
206 return false;
|
|
207 }
|
|
208 }
|
|
209
|
|
210 bool ServerIndex::HasInstance(std::string& instanceUuid,
|
|
211 const std::string& dicomInstance)
|
|
212 {
|
|
213 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Instances WHERE dicomInstance=?");
|
|
214 s.BindString(0, dicomInstance);
|
|
215 if (s.Step())
|
|
216 {
|
|
217 instanceUuid = s.ColumnString(0);
|
|
218 return true;
|
|
219 }
|
|
220 else
|
|
221 {
|
|
222 return false;
|
|
223 }
|
|
224 }
|
|
225
|
|
226
|
|
227 void ServerIndex::RecordChange(const std::string& resourceType,
|
|
228 const std::string& uuid)
|
|
229 {
|
|
230 SQLite::Statement s(db_, SQLITE_FROM_HERE, "INSERT INTO Changes VALUES(NULL, ?, ?)");
|
|
231 s.BindString(0, resourceType);
|
|
232 s.BindString(1, uuid);
|
|
233 s.Run();
|
|
234 }
|
|
235
|
|
236
|
|
237 std::string ServerIndex::CreateInstance(const std::string& parentSeriesUuid,
|
|
238 const std::string& dicomInstance,
|
|
239 const DicomMap& dicomSummary,
|
|
240 const std::string& fileUuid,
|
|
241 uint64_t fileSize,
|
|
242 const std::string& jsonUuid,
|
|
243 const std::string& distantAet)
|
|
244 {
|
|
245 std::string instanceUuid = Toolbox::GenerateUuid();
|
|
246
|
82
|
247 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "INSERT INTO Resources VALUES(?, ?)");
|
|
248 s2.BindString(0, instanceUuid);
|
|
249 s2.BindInt(1, ResourceType_Instance);
|
|
250 s2.Run();
|
|
251
|
80
|
252 SQLite::Statement s(db_, SQLITE_FROM_HERE, "INSERT INTO Instances VALUES(?, ?, ?, ?, ?, ?, ?, ?)");
|
0
|
253 s.BindString(0, instanceUuid);
|
|
254 s.BindString(1, parentSeriesUuid);
|
|
255 s.BindString(2, dicomInstance);
|
|
256 s.BindString(3, fileUuid);
|
|
257 s.BindInt64(4, fileSize);
|
|
258 s.BindString(5, jsonUuid);
|
|
259 s.BindString(6, distantAet);
|
80
|
260
|
|
261 const DicomValue* indexInSeries;
|
|
262 if ((indexInSeries = dicomSummary.TestAndGetValue(DICOM_TAG_INSTANCE_NUMBER)) != NULL ||
|
|
263 (indexInSeries = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGE_INDEX)) != NULL)
|
|
264 {
|
|
265 s.BindInt(7, boost::lexical_cast<unsigned int>(indexInSeries->AsString()));
|
|
266 }
|
|
267 else
|
|
268 {
|
|
269 s.BindNull(7);
|
|
270 }
|
|
271
|
0
|
272 s.Run();
|
|
273
|
|
274 RecordChange("instances", instanceUuid);
|
|
275
|
|
276 DicomMap dicom;
|
|
277 dicomSummary.ExtractInstanceInformation(dicom);
|
|
278 StoreMainDicomTags(instanceUuid, dicom);
|
|
279
|
|
280 return instanceUuid;
|
|
281 }
|
|
282
|
|
283 void ServerIndex::RemoveInstance(const std::string& uuid)
|
|
284 {
|
|
285 SQLite::Statement s(db_, SQLITE_FROM_HERE, "DELETE FROM Instances WHERE uuid=?");
|
|
286 s.BindString(0, uuid);
|
|
287 s.Run();
|
|
288 }
|
|
289
|
|
290 bool ServerIndex::HasSeries(std::string& seriesUuid,
|
|
291 const std::string& dicomSeries)
|
|
292 {
|
|
293 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Series WHERE dicomSeries=?");
|
|
294 s.BindString(0, dicomSeries);
|
|
295 if (s.Step())
|
|
296 {
|
|
297 seriesUuid = s.ColumnString(0);
|
|
298 return true;
|
|
299 }
|
|
300 else
|
|
301 {
|
|
302 return false;
|
|
303 }
|
|
304 }
|
|
305
|
|
306 std::string ServerIndex::CreateSeries(const std::string& parentStudyUuid,
|
|
307 const std::string& dicomSeries,
|
|
308 const DicomMap& dicomSummary)
|
|
309 {
|
|
310 std::string seriesUuid = Toolbox::GenerateUuid();
|
|
311
|
82
|
312 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "INSERT INTO Resources VALUES(?, ?)");
|
|
313 s2.BindString(0, seriesUuid);
|
|
314 s2.BindInt(1, ResourceType_Series);
|
|
315 s2.Run();
|
|
316
|
77
|
317 SQLite::Statement s(db_, SQLITE_FROM_HERE, "INSERT INTO Series VALUES(?, ?, ?, ?)");
|
0
|
318 s.BindString(0, seriesUuid);
|
|
319 s.BindString(1, parentStudyUuid);
|
|
320 s.BindString(2, dicomSeries);
|
80
|
321
|
|
322 const DicomValue* expectedNumberOfInstances;
|
84
|
323 if (//(expectedNumberOfInstances = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_FRAMES)) != NULL ||
|
80
|
324 (expectedNumberOfInstances = dicomSummary.TestAndGetValue(DICOM_TAG_NUMBER_OF_SLICES)) != NULL ||
|
82
|
325 //(expectedNumberOfInstances = dicomSummary.TestAndGetValue(DICOM_TAG_CARDIAC_NUMBER_OF_IMAGES)) != NULL ||
|
80
|
326 (expectedNumberOfInstances = dicomSummary.TestAndGetValue(DICOM_TAG_IMAGES_IN_ACQUISITION)) != NULL)
|
|
327 {
|
|
328 s.BindInt(3, boost::lexical_cast<unsigned int>(expectedNumberOfInstances->AsString()));
|
|
329 }
|
|
330 else
|
|
331 {
|
|
332 s.BindNull(3);
|
|
333 }
|
|
334
|
0
|
335 s.Run();
|
|
336
|
|
337 RecordChange("series", seriesUuid);
|
|
338
|
|
339 DicomMap dicom;
|
|
340 dicomSummary.ExtractSeriesInformation(dicom);
|
|
341 StoreMainDicomTags(seriesUuid, dicom);
|
|
342
|
|
343 return seriesUuid;
|
|
344 }
|
|
345
|
|
346 bool ServerIndex::HasStudy(std::string& studyUuid,
|
|
347 const std::string& dicomStudy)
|
|
348 {
|
|
349 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Studies WHERE dicomStudy=?");
|
|
350 s.BindString(0, dicomStudy);
|
|
351 if (s.Step())
|
|
352 {
|
|
353 studyUuid = s.ColumnString(0);
|
|
354 return true;
|
|
355 }
|
|
356 else
|
|
357 {
|
|
358 return false;
|
|
359 }
|
|
360 }
|
|
361
|
|
362 std::string ServerIndex::CreateStudy(const std::string& parentPatientUuid,
|
|
363 const std::string& dicomStudy,
|
|
364 const DicomMap& dicomSummary)
|
|
365 {
|
|
366 std::string studyUuid = Toolbox::GenerateUuid();
|
|
367
|
82
|
368 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "INSERT INTO Resources VALUES(?, ?)");
|
|
369 s2.BindString(0, studyUuid);
|
|
370 s2.BindInt(1, ResourceType_Study);
|
|
371 s2.Run();
|
|
372
|
0
|
373 SQLite::Statement s(db_, SQLITE_FROM_HERE, "INSERT INTO Studies VALUES(?, ?, ?)");
|
|
374 s.BindString(0, studyUuid);
|
|
375 s.BindString(1, parentPatientUuid);
|
|
376 s.BindString(2, dicomStudy);
|
|
377 s.Run();
|
|
378
|
|
379 RecordChange("studies", studyUuid);
|
|
380
|
|
381 DicomMap dicom;
|
|
382 dicomSummary.ExtractStudyInformation(dicom);
|
|
383 StoreMainDicomTags(studyUuid, dicom);
|
|
384
|
|
385 return studyUuid;
|
|
386 }
|
|
387
|
|
388
|
|
389
|
|
390 bool ServerIndex::HasPatient(std::string& patientUuid,
|
|
391 const std::string& dicomPatientId)
|
|
392 {
|
|
393 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Patients WHERE dicomPatientId=?");
|
|
394 s.BindString(0, dicomPatientId);
|
|
395 if (s.Step())
|
|
396 {
|
|
397 patientUuid = s.ColumnString(0);
|
|
398 return true;
|
|
399 }
|
|
400 else
|
|
401 {
|
|
402 return false;
|
|
403 }
|
|
404 }
|
|
405
|
|
406 std::string ServerIndex::CreatePatient(const std::string& patientId,
|
|
407 const DicomMap& dicomSummary)
|
|
408 {
|
|
409 std::string patientUuid = Toolbox::GenerateUuid();
|
80
|
410 std::string dicomPatientId = dicomSummary.GetValue(DICOM_TAG_PATIENT_ID).AsString();
|
0
|
411
|
82
|
412 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "INSERT INTO Resources VALUES(?, ?)");
|
|
413 s2.BindString(0, patientUuid);
|
|
414 s2.BindInt(1, ResourceType_Patient);
|
|
415 s2.Run();
|
|
416
|
0
|
417 SQLite::Statement s(db_, SQLITE_FROM_HERE, "INSERT INTO Patients VALUES(?, ?)");
|
|
418 s.BindString(0, patientUuid);
|
|
419 s.BindString(1, dicomPatientId);
|
|
420 s.Run();
|
|
421
|
|
422 RecordChange("patients", patientUuid);
|
|
423
|
|
424 DicomMap dicom;
|
|
425 dicomSummary.ExtractPatientInformation(dicom);
|
|
426 StoreMainDicomTags(patientUuid, dicom);
|
|
427
|
|
428 return patientUuid;
|
|
429 }
|
|
430
|
|
431
|
|
432 void ServerIndex::GetMainDicomTags(DicomMap& map,
|
|
433 const std::string& uuid)
|
|
434 {
|
|
435 map.Clear();
|
|
436
|
|
437 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT * FROM MainDicomTags WHERE uuid=?");
|
|
438 s.BindString(0, uuid);
|
|
439 while (s.Step())
|
|
440 {
|
|
441 map.SetValue(s.ColumnInt(1),
|
|
442 s.ColumnInt(2),
|
|
443 s.ColumnString(3));
|
|
444 }
|
|
445 }
|
|
446
|
|
447 void ServerIndex::MainDicomTagsToJson(Json::Value& target,
|
|
448 const std::string& uuid)
|
|
449 {
|
|
450 DicomMap map;
|
|
451 GetMainDicomTags(map, uuid);
|
|
452 target["MainDicomTags"] = Json::objectValue;
|
|
453 FromDcmtkBridge::ToJson(target["MainDicomTags"], map);
|
|
454 }
|
|
455
|
|
456
|
|
457 bool ServerIndex::DeleteInternal(Json::Value& target,
|
|
458 const std::string& uuid,
|
|
459 const std::string& tableName)
|
|
460 {
|
|
461 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
462
|
|
463 deletedLevels_->Clear();
|
|
464
|
|
465 SQLite::Statement s(db_, "DELETE FROM " + tableName + " WHERE uuid=?");
|
|
466 s.BindString(0, uuid);
|
|
467
|
|
468 if (!s.Run())
|
|
469 {
|
|
470 return false;
|
|
471 }
|
|
472
|
|
473 if (db_.GetLastChangeCount() == 0)
|
|
474 {
|
|
475 // Nothing was deleted, inexistent UUID
|
|
476 return false;
|
|
477 }
|
|
478
|
|
479 if (deletedLevels_->HasRemainingLevel())
|
|
480 {
|
|
481 std::string type(deletedLevels_->GetRemainingLevelType());
|
|
482 const std::string& uuid = deletedLevels_->GetRemainingLevelUuid();
|
|
483
|
|
484 target["RemainingAncestor"] = Json::Value(Json::objectValue);
|
|
485 target["RemainingAncestor"]["Path"] = "/" + type + "/" + uuid;
|
|
486 target["RemainingAncestor"]["Type"] = type;
|
|
487 target["RemainingAncestor"]["ID"] = uuid;
|
|
488 }
|
|
489 else
|
|
490 {
|
|
491 target["RemainingAncestor"] = Json::nullValue;
|
|
492 }
|
|
493
|
|
494 return true;
|
|
495 }
|
|
496
|
|
497
|
|
498 ServerIndex::ServerIndex(const std::string& storagePath)
|
|
499 {
|
|
500 boost::filesystem::path p = storagePath;
|
|
501
|
|
502 try
|
|
503 {
|
|
504 boost::filesystem::create_directories(storagePath);
|
|
505 }
|
|
506 catch (boost::filesystem::filesystem_error)
|
|
507 {
|
|
508 }
|
|
509
|
|
510 p /= "index";
|
|
511 db_.Open(p.string());
|
|
512 db_.Register(new Internals::DeleteFromFileStorageFunction(storagePath));
|
|
513 deletedLevels_ = (Internals::SignalDeletedLevelFunction*)
|
|
514 db_.Register(new Internals::SignalDeletedLevelFunction);
|
|
515
|
|
516 if (!db_.DoesTableExist("GlobalProperties"))
|
|
517 {
|
108
|
518 LOG(INFO) << "Creating the database";
|
0
|
519 std::string query;
|
|
520 EmbeddedResources::GetFileResource(query, EmbeddedResources::PREPARE_DATABASE);
|
|
521 db_.Execute(query);
|
|
522 }
|
|
523 }
|
|
524
|
|
525
|
|
526 StoreStatus ServerIndex::Store(std::string& instanceUuid,
|
|
527 const DicomMap& dicomSummary,
|
|
528 const std::string& fileUuid,
|
|
529 uint64_t uncompressedFileSize,
|
|
530 const std::string& jsonUuid,
|
|
531 const std::string& distantAet)
|
|
532 {
|
|
533 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
534
|
80
|
535 std::string dicomPatientId = dicomSummary.GetValue(DICOM_TAG_PATIENT_ID).AsString();
|
|
536 std::string dicomInstance = dicomSummary.GetValue(DICOM_TAG_SOP_INSTANCE_UID).AsString();
|
|
537 std::string dicomSeries = dicomSummary.GetValue(DICOM_TAG_SERIES_INSTANCE_UID).AsString();
|
|
538 std::string dicomStudy = dicomSummary.GetValue(DICOM_TAG_STUDY_INSTANCE_UID).AsString();
|
0
|
539
|
|
540 try
|
|
541 {
|
|
542 SQLite::Transaction t(db_);
|
|
543 t.Begin();
|
|
544
|
|
545 if (HasInstance(instanceUuid, dicomInstance))
|
|
546 {
|
|
547 return StoreStatus_AlreadyStored;
|
|
548 // TODO: Check consistency?
|
|
549 }
|
|
550
|
|
551 std::string patientUuid;
|
|
552 if (HasPatient(patientUuid, dicomPatientId))
|
|
553 {
|
|
554 // TODO: Check consistency?
|
|
555 }
|
|
556 else
|
|
557 {
|
|
558 patientUuid = CreatePatient(dicomPatientId, dicomSummary);
|
|
559 }
|
|
560
|
|
561 std::string studyUuid;
|
|
562 if (HasStudy(studyUuid, dicomStudy))
|
|
563 {
|
|
564 // TODO: Check consistency?
|
|
565 }
|
|
566 else
|
|
567 {
|
|
568 studyUuid = CreateStudy(patientUuid, dicomStudy, dicomSummary);
|
|
569 }
|
|
570
|
|
571 std::string seriesUuid;
|
|
572 if (HasSeries(seriesUuid, dicomSeries))
|
|
573 {
|
|
574 // TODO: Check consistency?
|
|
575 }
|
|
576 else
|
|
577 {
|
|
578 seriesUuid = CreateSeries(studyUuid, dicomSeries, dicomSummary);
|
|
579 }
|
|
580
|
|
581 instanceUuid = CreateInstance(seriesUuid, dicomInstance, dicomSummary, fileUuid,
|
|
582 uncompressedFileSize, jsonUuid, distantAet);
|
|
583
|
|
584 t.Commit();
|
|
585 return StoreStatus_Success;
|
|
586 //t.Rollback();
|
|
587 }
|
62
|
588 catch (OrthancException& e)
|
0
|
589 {
|
108
|
590 LOG(ERROR) << "EXCEPTION [" << e.What() << "]" << " " << db_.GetErrorMessage();
|
0
|
591 }
|
|
592
|
|
593 return StoreStatus_Failure;
|
|
594 }
|
|
595
|
|
596
|
|
597 StoreStatus ServerIndex::Store(std::string& instanceUuid,
|
|
598 FileStorage& storage,
|
|
599 const char* dicomFile,
|
|
600 size_t dicomSize,
|
|
601 const DicomMap& dicomSummary,
|
|
602 const Json::Value& dicomJson,
|
|
603 const std::string& distantAet)
|
|
604 {
|
|
605 std::string fileUuid = storage.Create(dicomFile, dicomSize);
|
|
606 std::string jsonUuid = storage.Create(dicomJson.toStyledString());
|
|
607 StoreStatus status = Store(instanceUuid, dicomSummary, fileUuid,
|
|
608 dicomSize, jsonUuid, distantAet);
|
|
609
|
|
610 if (status != StoreStatus_Success)
|
|
611 {
|
|
612 storage.Remove(fileUuid);
|
|
613 storage.Remove(jsonUuid);
|
|
614 }
|
|
615
|
|
616 switch (status)
|
|
617 {
|
|
618 case StoreStatus_Success:
|
108
|
619 LOG(INFO) << "New instance stored: " << GetTotalSize() << " bytes";
|
0
|
620 break;
|
|
621
|
|
622 case StoreStatus_AlreadyStored:
|
108
|
623 LOG(INFO) << "Already stored";
|
0
|
624 break;
|
|
625
|
|
626 case StoreStatus_Failure:
|
108
|
627 LOG(INFO) << "Store failure";
|
0
|
628 break;
|
|
629 }
|
|
630
|
|
631 return status;
|
|
632 }
|
|
633
|
|
634 uint64_t ServerIndex::GetTotalSize()
|
|
635 {
|
|
636 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
637 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT SUM(fileSize) FROM Instances");
|
|
638 s.Run();
|
|
639 return s.ColumnInt64(0);
|
|
640 }
|
|
641
|
|
642
|
|
643 SeriesStatus ServerIndex::GetSeriesStatus(const std::string& seriesUuid)
|
|
644 {
|
80
|
645 SQLite::Statement s1(db_, SQLITE_FROM_HERE, "SELECT expectedNumberOfInstances FROM Series WHERE uuid=?");
|
|
646 s1.BindString(0, seriesUuid);
|
82
|
647 if (!s1.Step() || s1.ColumnIsNull(0))
|
80
|
648 {
|
|
649 return SeriesStatus_Unknown;
|
|
650 }
|
|
651
|
|
652 int numberOfInstances = s1.ColumnInt(0);
|
|
653 if (numberOfInstances < 0)
|
0
|
654 {
|
|
655 return SeriesStatus_Unknown;
|
|
656 }
|
|
657
|
80
|
658 std::set<int> instances;
|
|
659 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "SELECT indexInSeries FROM Instances WHERE parentSeries=?");
|
|
660 s2.BindString(0, seriesUuid);
|
|
661 while (s2.Step())
|
|
662 {
|
|
663 int index = s2.ColumnInt(0);
|
|
664 if (index <= 0 || index > numberOfInstances)
|
|
665 {
|
|
666 // Out-of-range instance index
|
|
667 return SeriesStatus_Inconsistent;
|
|
668 }
|
0
|
669
|
80
|
670 if (instances.find(index) != instances.end())
|
|
671 {
|
|
672 // Twice the same instance index
|
|
673 return SeriesStatus_Inconsistent;
|
|
674 }
|
|
675
|
|
676 instances.insert(index);
|
|
677 }
|
|
678
|
|
679 for (int i = 1; i <= numberOfInstances; i++)
|
|
680 {
|
|
681 if (instances.find(i) == instances.end())
|
|
682 {
|
|
683 return SeriesStatus_Missing;
|
|
684 }
|
|
685 }
|
|
686
|
|
687 return SeriesStatus_Complete;
|
0
|
688 }
|
|
689
|
|
690
|
|
691
|
|
692 bool ServerIndex::GetInstance(Json::Value& result,
|
|
693 const std::string& instanceUuid)
|
|
694 {
|
|
695 assert(result.type() == Json::objectValue);
|
|
696 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
697
|
80
|
698 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT parentSeries, dicomInstance, fileSize, fileUuid, indexInSeries FROM Instances WHERE uuid=?");
|
0
|
699 s.BindString(0, instanceUuid);
|
|
700 if (!s.Step())
|
|
701 {
|
|
702 return false;
|
|
703 }
|
|
704 else
|
|
705 {
|
|
706 result["ID"] = instanceUuid;
|
|
707 result["ParentSeries"] = s.ColumnString(0);
|
|
708 result["FileSize"] = s.ColumnInt(2); // TODO switch to 64bit with JsonCpp 0.6?
|
|
709 result["FileUuid"] = s.ColumnString(3);
|
|
710 MainDicomTagsToJson(result, instanceUuid);
|
80
|
711
|
|
712 if (s.ColumnIsNull(4))
|
|
713 {
|
82
|
714 result["IndexInSeries"] = Json::nullValue;
|
80
|
715 }
|
|
716 else
|
|
717 {
|
|
718 result["IndexInSeries"] = s.ColumnInt(4);
|
|
719 }
|
|
720
|
0
|
721 return true;
|
|
722 }
|
|
723 }
|
|
724
|
|
725
|
|
726 bool ServerIndex::GetSeries(Json::Value& result,
|
|
727 const std::string& seriesUuid)
|
|
728 {
|
|
729 assert(result.type() == Json::objectValue);
|
|
730 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
731
|
80
|
732 SQLite::Statement s1(db_, SQLITE_FROM_HERE, "SELECT parentStudy, dicomSeries, expectedNumberOfInstances FROM Series WHERE uuid=?");
|
0
|
733 s1.BindString(0, seriesUuid);
|
|
734 if (!s1.Step())
|
|
735 {
|
|
736 return false;
|
|
737 }
|
|
738
|
|
739 result["ID"] = seriesUuid;
|
|
740 result["ParentStudy"] = s1.ColumnString(0);
|
|
741 MainDicomTagsToJson(result, seriesUuid);
|
|
742
|
|
743 Json::Value instances(Json::arrayValue);
|
|
744 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Instances WHERE parentSeries=?");
|
|
745 s2.BindString(0, seriesUuid);
|
|
746 while (s2.Step())
|
|
747 {
|
|
748 instances.append(s2.ColumnString(0));
|
|
749 }
|
|
750
|
|
751 result["Instances"] = instances;
|
|
752
|
80
|
753 if (s1.ColumnIsNull(2))
|
|
754 {
|
82
|
755 result["ExpectedNumberOfInstances"] = Json::nullValue;
|
80
|
756 }
|
|
757 else
|
|
758 {
|
|
759 result["ExpectedNumberOfInstances"] = s1.ColumnInt(2);
|
|
760 }
|
|
761
|
|
762 SeriesStatus status = GetSeriesStatus(seriesUuid);
|
|
763
|
|
764 switch (status)
|
|
765 {
|
|
766 case SeriesStatus_Complete:
|
|
767 result["Status"] = "Complete";
|
|
768 break;
|
|
769
|
|
770 case SeriesStatus_Missing:
|
|
771 result["Status"] = "Missing";
|
|
772 break;
|
|
773
|
|
774 case SeriesStatus_Inconsistent:
|
|
775 result["Status"] = "Inconsistent";
|
|
776 break;
|
|
777
|
|
778 default:
|
|
779 case SeriesStatus_Unknown:
|
|
780 result["Status"] = "Unknown";
|
|
781 break;
|
|
782 }
|
|
783
|
0
|
784 return true;
|
|
785 }
|
|
786
|
|
787
|
|
788 bool ServerIndex::GetStudy(Json::Value& result,
|
|
789 const std::string& studyUuid)
|
|
790 {
|
|
791 assert(result.type() == Json::objectValue);
|
|
792 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
793
|
|
794 SQLite::Statement s1(db_, SQLITE_FROM_HERE, "SELECT parentPatient, dicomStudy FROM Studies WHERE uuid=?");
|
|
795 s1.BindString(0, studyUuid);
|
|
796 if (!s1.Step())
|
|
797 {
|
|
798 return false;
|
|
799 }
|
|
800
|
|
801 result["ID"] = studyUuid;
|
|
802 result["ParentPatient"] = s1.ColumnString(0);
|
|
803 MainDicomTagsToJson(result, studyUuid);
|
|
804
|
|
805 Json::Value series(Json::arrayValue);
|
|
806 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Series WHERE parentStudy=?");
|
|
807 s2.BindString(0, studyUuid);
|
|
808 while (s2.Step())
|
|
809 {
|
|
810 series.append(s2.ColumnString(0));
|
|
811 }
|
|
812
|
|
813 result["Series"] = series;
|
|
814 return true;
|
|
815 }
|
|
816
|
|
817
|
|
818 bool ServerIndex::GetPatient(Json::Value& result,
|
|
819 const std::string& patientUuid)
|
|
820 {
|
|
821 assert(result.type() == Json::objectValue);
|
|
822 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
823
|
|
824 SQLite::Statement s1(db_, SQLITE_FROM_HERE, "SELECT dicomPatientId FROM Patients WHERE uuid=?");
|
|
825 s1.BindString(0, patientUuid);
|
|
826 if (!s1.Step())
|
|
827 {
|
|
828 return false;
|
|
829 }
|
|
830
|
|
831 result["ID"] = patientUuid;
|
|
832 MainDicomTagsToJson(result, patientUuid);
|
|
833
|
|
834 Json::Value studies(Json::arrayValue);
|
|
835 SQLite::Statement s2(db_, SQLITE_FROM_HERE, "SELECT uuid FROM Studies WHERE parentPatient=?");
|
|
836 s2.BindString(0, patientUuid);
|
|
837 while (s2.Step())
|
|
838 {
|
|
839 studies.append(s2.ColumnString(0));
|
|
840 }
|
|
841
|
|
842 result["Studies"] = studies;
|
|
843 return true;
|
|
844 }
|
|
845
|
|
846
|
|
847 bool ServerIndex::GetJsonFile(std::string& fileUuid,
|
|
848 const std::string& instanceUuid)
|
|
849 {
|
|
850 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
851
|
|
852 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT jsonUuid FROM Instances WHERE uuid=?");
|
|
853 s.BindString(0, instanceUuid);
|
|
854 if (s.Step())
|
|
855 {
|
|
856 fileUuid = s.ColumnString(0);
|
|
857 return true;
|
|
858 }
|
|
859 else
|
|
860 {
|
|
861 return false;
|
|
862 }
|
|
863 }
|
|
864
|
|
865 bool ServerIndex::GetDicomFile(std::string& fileUuid,
|
|
866 const std::string& instanceUuid)
|
|
867 {
|
|
868 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
869
|
|
870 SQLite::Statement s(db_, SQLITE_FROM_HERE, "SELECT fileUuid FROM Instances WHERE uuid=?");
|
|
871 s.BindString(0, instanceUuid);
|
|
872 if (s.Step())
|
|
873 {
|
|
874 fileUuid = s.ColumnString(0);
|
|
875 return true;
|
|
876 }
|
|
877 else
|
|
878 {
|
|
879 return false;
|
|
880 }
|
|
881 }
|
|
882
|
|
883
|
|
884 void ServerIndex::GetAllUuids(Json::Value& target,
|
|
885 const std::string& tableName)
|
|
886 {
|
|
887 assert(target.type() == Json::arrayValue);
|
|
888 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
889
|
|
890 std::string query = "SELECT uuid FROM " + tableName;
|
|
891 SQLite::Statement s(db_, query);
|
|
892 while (s.Step())
|
|
893 {
|
|
894 target.append(s.ColumnString(0));
|
|
895 }
|
|
896 }
|
|
897
|
|
898
|
|
899 bool ServerIndex::GetChanges(Json::Value& target,
|
|
900 int64_t since,
|
|
901 const std::string& filter,
|
|
902 unsigned int maxResults)
|
|
903 {
|
|
904 assert(target.type() == Json::objectValue);
|
|
905 boost::mutex::scoped_lock scoped_lock(mutex_);
|
|
906
|
|
907 if (filter.size() != 0 &&
|
|
908 filter != "instances" &&
|
|
909 filter != "series" &&
|
|
910 filter != "studies" &&
|
|
911 filter != "patients")
|
|
912 {
|
|
913 return false;
|
|
914 }
|
|
915
|
|
916 std::auto_ptr<SQLite::Statement> s;
|
|
917 if (filter.size() == 0)
|
|
918 {
|
|
919 s.reset(new SQLite::Statement(db_, SQLITE_FROM_HERE, "SELECT * FROM Changes WHERE seq>? "
|
|
920 "ORDER BY seq LIMIT ?"));
|
|
921 s->BindInt64(0, since);
|
|
922 s->BindInt(1, maxResults);
|
|
923 }
|
|
924 else
|
|
925 {
|
|
926 s.reset(new SQLite::Statement(db_, SQLITE_FROM_HERE, "SELECT * FROM Changes WHERE seq>? "
|
|
927 "AND basePath=? ORDER BY seq LIMIT ?"));
|
|
928 s->BindInt64(0, since);
|
|
929 s->BindString(1, filter);
|
|
930 s->BindInt(2, maxResults);
|
|
931 }
|
|
932
|
|
933 int64_t lastSeq = 0;
|
|
934 Json::Value results(Json::arrayValue);
|
|
935 while (s->Step())
|
|
936 {
|
|
937 int64_t seq = s->ColumnInt64(0);
|
|
938 std::string basePath = s->ColumnString(1);
|
|
939 std::string uuid = s->ColumnString(2);
|
|
940
|
|
941 if (filter.size() == 0 ||
|
|
942 filter == basePath)
|
|
943 {
|
|
944 Json::Value change(Json::objectValue);
|
|
945 change["Seq"] = static_cast<int>(seq); // TODO JsonCpp in 64bit
|
|
946 change["BasePath"] = basePath;
|
|
947 change["ID"] = uuid;
|
|
948 results.append(change);
|
|
949 }
|
|
950
|
|
951 if (seq > lastSeq)
|
|
952 {
|
|
953 lastSeq = seq;
|
|
954 }
|
|
955 }
|
|
956
|
|
957 target["Results"] = results;
|
|
958 target["LastSeq"] = static_cast<int>(lastSeq); // TODO JsonCpp in 64bit
|
|
959
|
|
960 return true;
|
|
961 }
|
82
|
962
|
0
|
963 }
|