Mercurial > hg > orthanc
annotate OrthancServer/DicomModification.cpp @ 2760:ab35523fced1 Orthanc-0.8.5
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| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Tue, 17 Jul 2018 09:41:40 +0200 |
| parents | 80671157d051 |
| children | 7f3a65e84d4b |
| rev | line source |
|---|---|
| 786 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 3 * Copyright (C) 2012-2014 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. | |
| 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. | |
| 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 | |
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33 #include "PrecompiledHeadersServer.h" |
| 786 | 34 #include "DicomModification.h" |
| 35 | |
| 36 #include "../Core/OrthancException.h" | |
| 790 | 37 #include "FromDcmtkBridge.h" |
| 786 | 38 |
| 795 | 39 #include <memory> // For std::auto_ptr |
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40 #include <glog/logging.h> |
| 795 | 41 |
| 786 | 42 namespace Orthanc |
| 43 { | |
| 44 void DicomModification::MapDicomIdentifier(ParsedDicomFile& dicom, | |
| 788 | 45 ResourceType level) |
| 786 | 46 { |
| 47 std::auto_ptr<DicomTag> tag; | |
| 48 | |
| 49 switch (level) | |
| 50 { | |
| 788 | 51 case ResourceType_Study: |
| 786 | 52 tag.reset(new DicomTag(DICOM_TAG_STUDY_INSTANCE_UID)); |
| 53 break; | |
| 54 | |
| 788 | 55 case ResourceType_Series: |
| 786 | 56 tag.reset(new DicomTag(DICOM_TAG_SERIES_INSTANCE_UID)); |
| 57 break; | |
| 58 | |
| 788 | 59 case ResourceType_Instance: |
| 786 | 60 tag.reset(new DicomTag(DICOM_TAG_SOP_INSTANCE_UID)); |
| 61 break; | |
| 62 | |
| 63 default: | |
| 64 throw OrthancException(ErrorCode_InternalError); | |
| 65 } | |
| 66 | |
| 67 std::string original; | |
| 68 if (!dicom.GetTagValue(original, *tag)) | |
| 69 { | |
| 70 original = ""; | |
| 71 } | |
| 72 | |
| 73 std::string mapped; | |
| 74 | |
| 75 UidMap::const_iterator previous = uidMap_.find(std::make_pair(level, original)); | |
| 76 if (previous == uidMap_.end()) | |
| 77 { | |
| 78 mapped = FromDcmtkBridge::GenerateUniqueIdentifier(level); | |
| 79 uidMap_.insert(std::make_pair(std::make_pair(level, original), mapped)); | |
| 80 } | |
| 81 else | |
| 82 { | |
| 83 mapped = previous->second; | |
| 84 } | |
| 85 | |
| 86 dicom.Replace(*tag, mapped); | |
| 87 } | |
| 88 | |
| 89 DicomModification::DicomModification() | |
| 90 { | |
| 91 removePrivateTags_ = false; | |
| 788 | 92 level_ = ResourceType_Instance; |
| 786 | 93 } |
| 94 | |
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95 void DicomModification::Keep(const DicomTag& tag) |
| 786 | 96 { |
| 97 removals_.erase(tag); | |
| 98 replacements_.erase(tag); | |
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99 |
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100 if (FromDcmtkBridge::IsPrivateTag(tag)) |
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101 { |
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102 privateTagsToKeep_.insert(tag); |
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103 } |
| 786 | 104 } |
| 105 | |
| 106 void DicomModification::Remove(const DicomTag& tag) | |
| 107 { | |
| 108 removals_.insert(tag); | |
| 109 replacements_.erase(tag); | |
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110 privateTagsToKeep_.erase(tag); |
| 786 | 111 } |
| 112 | |
| 113 bool DicomModification::IsRemoved(const DicomTag& tag) const | |
| 114 { | |
| 115 return removals_.find(tag) != removals_.end(); | |
| 116 } | |
| 117 | |
| 118 void DicomModification::Replace(const DicomTag& tag, | |
| 119 const std::string& value) | |
| 120 { | |
| 121 removals_.erase(tag); | |
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122 privateTagsToKeep_.erase(tag); |
| 786 | 123 replacements_[tag] = value; |
| 124 } | |
| 125 | |
| 126 bool DicomModification::IsReplaced(const DicomTag& tag) const | |
| 127 { | |
| 128 return replacements_.find(tag) != replacements_.end(); | |
| 129 } | |
| 130 | |
| 131 const std::string& DicomModification::GetReplacement(const DicomTag& tag) const | |
| 132 { | |
| 133 Replacements::const_iterator it = replacements_.find(tag); | |
| 134 | |
| 135 if (it == replacements_.end()) | |
| 136 { | |
| 137 throw OrthancException(ErrorCode_InexistentItem); | |
| 138 } | |
| 139 else | |
| 140 { | |
| 141 return it->second; | |
| 142 } | |
| 143 } | |
| 144 | |
| 145 void DicomModification::SetRemovePrivateTags(bool removed) | |
| 146 { | |
| 147 removePrivateTags_ = removed; | |
| 148 } | |
| 149 | |
| 788 | 150 void DicomModification::SetLevel(ResourceType level) |
| 786 | 151 { |
| 152 uidMap_.clear(); | |
| 153 level_ = level; | |
| 154 } | |
| 155 | |
| 156 void DicomModification::SetupAnonymization() | |
| 157 { | |
| 158 removals_.clear(); | |
| 159 replacements_.clear(); | |
| 160 removePrivateTags_ = true; | |
| 788 | 161 level_ = ResourceType_Patient; |
| 786 | 162 uidMap_.clear(); |
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163 privateTagsToKeep_.clear(); |
| 786 | 164 |
| 165 // This is Table E.1-1 from PS 3.15-2008 - DICOM Part 15: Security and System Management Profiles | |
| 166 removals_.insert(DicomTag(0x0008, 0x0014)); // Instance Creator UID | |
| 167 //removals_.insert(DicomTag(0x0008, 0x0018)); // SOP Instance UID => set in Apply() | |
| 168 removals_.insert(DicomTag(0x0008, 0x0050)); // Accession Number | |
| 169 removals_.insert(DicomTag(0x0008, 0x0080)); // Institution Name | |
| 170 removals_.insert(DicomTag(0x0008, 0x0081)); // Institution Address | |
| 171 removals_.insert(DicomTag(0x0008, 0x0090)); // Referring Physician's Name | |
| 172 removals_.insert(DicomTag(0x0008, 0x0092)); // Referring Physician's Address | |
| 173 removals_.insert(DicomTag(0x0008, 0x0094)); // Referring Physician's Telephone Numbers | |
| 174 removals_.insert(DicomTag(0x0008, 0x1010)); // Station Name | |
| 175 removals_.insert(DicomTag(0x0008, 0x1030)); // Study Description | |
| 176 removals_.insert(DicomTag(0x0008, 0x103e)); // Series Description | |
| 177 removals_.insert(DicomTag(0x0008, 0x1040)); // Institutional Department Name | |
| 178 removals_.insert(DicomTag(0x0008, 0x1048)); // Physician(s) of Record | |
| 179 removals_.insert(DicomTag(0x0008, 0x1050)); // Performing Physicians' Name | |
| 180 removals_.insert(DicomTag(0x0008, 0x1060)); // Name of Physician(s) Reading Study | |
| 181 removals_.insert(DicomTag(0x0008, 0x1070)); // Operators' Name | |
| 182 removals_.insert(DicomTag(0x0008, 0x1080)); // Admitting Diagnoses Description | |
| 183 removals_.insert(DicomTag(0x0008, 0x1155)); // Referenced SOP Instance UID | |
| 184 removals_.insert(DicomTag(0x0008, 0x2111)); // Derivation Description | |
| 185 //removals_.insert(DicomTag(0x0010, 0x0010)); // Patient's Name => cf. below (*) | |
| 186 //removals_.insert(DicomTag(0x0010, 0x0020)); // Patient ID => cf. below (*) | |
| 187 removals_.insert(DicomTag(0x0010, 0x0030)); // Patient's Birth Date | |
| 188 removals_.insert(DicomTag(0x0010, 0x0032)); // Patient's Birth Time | |
| 189 removals_.insert(DicomTag(0x0010, 0x0040)); // Patient's Sex | |
| 190 removals_.insert(DicomTag(0x0010, 0x1000)); // Other Patient Ids | |
| 191 removals_.insert(DicomTag(0x0010, 0x1001)); // Other Patient Names | |
| 192 removals_.insert(DicomTag(0x0010, 0x1010)); // Patient's Age | |
| 193 removals_.insert(DicomTag(0x0010, 0x1020)); // Patient's Size | |
| 194 removals_.insert(DicomTag(0x0010, 0x1030)); // Patient's Weight | |
| 195 removals_.insert(DicomTag(0x0010, 0x1090)); // Medical Record Locator | |
| 196 removals_.insert(DicomTag(0x0010, 0x2160)); // Ethnic Group | |
| 197 removals_.insert(DicomTag(0x0010, 0x2180)); // Occupation | |
| 198 removals_.insert(DicomTag(0x0010, 0x21b0)); // Additional Patient's History | |
| 199 removals_.insert(DicomTag(0x0010, 0x4000)); // Patient Comments | |
| 200 removals_.insert(DicomTag(0x0018, 0x1000)); // Device Serial Number | |
| 201 removals_.insert(DicomTag(0x0018, 0x1030)); // Protocol Name | |
| 202 //removals_.insert(DicomTag(0x0020, 0x000d)); // Study Instance UID => set in Apply() | |
| 203 //removals_.insert(DicomTag(0x0020, 0x000e)); // Series Instance UID => set in Apply() | |
| 204 removals_.insert(DicomTag(0x0020, 0x0010)); // Study ID | |
| 205 removals_.insert(DicomTag(0x0020, 0x0052)); // Frame of Reference UID | |
| 206 removals_.insert(DicomTag(0x0020, 0x0200)); // Synchronization Frame of Reference UID | |
| 207 removals_.insert(DicomTag(0x0020, 0x4000)); // Image Comments | |
| 208 removals_.insert(DicomTag(0x0040, 0x0275)); // Request Attributes Sequence | |
| 209 removals_.insert(DicomTag(0x0040, 0xa124)); // UID | |
| 210 removals_.insert(DicomTag(0x0040, 0xa730)); // Content Sequence | |
| 211 removals_.insert(DicomTag(0x0088, 0x0140)); // Storage Media File-set UID | |
| 212 removals_.insert(DicomTag(0x3006, 0x0024)); // Referenced Frame of Reference UID | |
| 213 removals_.insert(DicomTag(0x3006, 0x00c2)); // Related Frame of Reference UID | |
| 214 | |
| 215 // Some more removals (from the experience of DICOM files at the CHU of Liege) | |
| 216 removals_.insert(DicomTag(0x0010, 0x1040)); // Patient's Address | |
| 217 removals_.insert(DicomTag(0x0032, 0x1032)); // Requesting Physician | |
| 218 removals_.insert(DicomTag(0x0010, 0x2154)); // PatientTelephoneNumbers | |
| 219 removals_.insert(DicomTag(0x0010, 0x2000)); // Medical Alerts | |
| 220 | |
| 221 // Set the DeidentificationMethod tag | |
| 222 replacements_.insert(std::make_pair(DicomTag(0x0012, 0x0063), "Orthanc " ORTHANC_VERSION " - PS 3.15-2008 Table E.1-1")); | |
| 223 | |
| 224 // Set the PatientIdentityRemoved tag | |
| 225 replacements_.insert(std::make_pair(DicomTag(0x0012, 0x0062), "YES")); | |
| 226 | |
| 227 // (*) Choose a random patient name and ID | |
| 788 | 228 std::string patientId = FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Patient); |
| 786 | 229 replacements_[DICOM_TAG_PATIENT_ID] = patientId; |
| 230 replacements_[DICOM_TAG_PATIENT_NAME] = patientId; | |
| 231 } | |
| 232 | |
| 233 void DicomModification::Apply(ParsedDicomFile& toModify) | |
| 234 { | |
| 235 // Check the request | |
| 788 | 236 assert(ResourceType_Patient + 1 == ResourceType_Study && |
| 237 ResourceType_Study + 1 == ResourceType_Series && | |
| 238 ResourceType_Series + 1 == ResourceType_Instance); | |
| 786 | 239 |
| 240 if (IsRemoved(DICOM_TAG_PATIENT_ID) || | |
| 241 IsRemoved(DICOM_TAG_STUDY_INSTANCE_UID) || | |
| 242 IsRemoved(DICOM_TAG_SERIES_INSTANCE_UID) || | |
| 243 IsRemoved(DICOM_TAG_SOP_INSTANCE_UID)) | |
| 244 { | |
| 245 throw OrthancException(ErrorCode_BadRequest); | |
| 246 } | |
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247 |
| 786 | 248 |
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249 // Sanity checks |
| 788 | 250 if (level_ == ResourceType_Patient && !IsReplaced(DICOM_TAG_PATIENT_ID)) |
| 786 | 251 { |
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252 LOG(ERROR) << "When modifying a patient, her PatientID is required to be modified"; |
| 786 | 253 throw OrthancException(ErrorCode_BadRequest); |
| 254 } | |
| 255 | |
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256 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
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257 { |
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258 LOG(ERROR) << "When modifying a patient, the StudyInstanceUID cannot be manually modified"; |
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259 throw OrthancException(ErrorCode_BadRequest); |
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260 } |
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261 |
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262 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
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263 { |
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264 LOG(ERROR) << "When modifying a patient, the SeriesInstanceUID cannot be manually modified"; |
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265 throw OrthancException(ErrorCode_BadRequest); |
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266 } |
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267 |
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268 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
| 786 | 269 { |
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270 LOG(ERROR) << "When modifying a patient, the SopInstanceUID cannot be manually modified"; |
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271 throw OrthancException(ErrorCode_BadRequest); |
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272 } |
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273 |
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274 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_PATIENT_ID)) |
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275 { |
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276 LOG(ERROR) << "When modifying a study, the parent PatientID cannot be manually modified"; |
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277 throw OrthancException(ErrorCode_BadRequest); |
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278 } |
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279 |
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280 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
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281 { |
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282 LOG(ERROR) << "When modifying a study, the SeriesInstanceUID cannot be manually modified"; |
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283 throw OrthancException(ErrorCode_BadRequest); |
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284 } |
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285 |
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286 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
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287 { |
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288 LOG(ERROR) << "When modifying a study, the SopInstanceUID cannot be manually modified"; |
| 786 | 289 throw OrthancException(ErrorCode_BadRequest); |
| 290 } | |
| 291 | |
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292 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_PATIENT_ID)) |
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293 { |
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294 LOG(ERROR) << "When modifying a series, the parent PatientID cannot be manually modified"; |
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295 throw OrthancException(ErrorCode_BadRequest); |
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296 } |
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297 |
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298 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
| 786 | 299 { |
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300 LOG(ERROR) << "When modifying a series, the parent StudyInstanceUID cannot be manually modified"; |
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301 throw OrthancException(ErrorCode_BadRequest); |
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302 } |
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303 |
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304 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
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305 { |
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306 LOG(ERROR) << "When modifying a series, the SopInstanceUID cannot be manually modified"; |
| 786 | 307 throw OrthancException(ErrorCode_BadRequest); |
| 308 } | |
| 309 | |
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310 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_PATIENT_ID)) |
| 786 | 311 { |
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312 LOG(ERROR) << "When modifying an instance, the parent PatientID cannot be manually modified"; |
| 786 | 313 throw OrthancException(ErrorCode_BadRequest); |
| 314 } | |
| 315 | |
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316 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
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317 { |
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318 LOG(ERROR) << "When modifying an instance, the parent StudyInstanceUID cannot be manually modified"; |
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319 throw OrthancException(ErrorCode_BadRequest); |
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320 } |
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321 |
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322 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
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323 { |
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324 LOG(ERROR) << "When modifying an instance, the parent SeriesInstanceUID cannot be manually modified"; |
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325 throw OrthancException(ErrorCode_BadRequest); |
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326 } |
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327 |
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328 |
| 786 | 329 // (1) Remove the private tags, if need be |
| 330 if (removePrivateTags_) | |
| 331 { | |
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332 toModify.RemovePrivateTags(privateTagsToKeep_); |
| 786 | 333 } |
| 334 | |
| 335 // (2) Remove the tags specified by the user | |
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336 for (SetOfTags::const_iterator it = removals_.begin(); |
| 786 | 337 it != removals_.end(); ++it) |
| 338 { | |
| 339 toModify.Remove(*it); | |
| 340 } | |
| 341 | |
| 342 // (3) Replace the tags | |
| 343 for (Replacements::const_iterator it = replacements_.begin(); | |
| 344 it != replacements_.end(); ++it) | |
| 345 { | |
| 789 | 346 toModify.Replace(it->first, it->second, DicomReplaceMode_InsertIfAbsent); |
| 786 | 347 } |
| 348 | |
| 349 // (4) Update the DICOM identifiers | |
| 788 | 350 if (level_ <= ResourceType_Study) |
| 786 | 351 { |
| 788 | 352 MapDicomIdentifier(toModify, ResourceType_Study); |
| 786 | 353 } |
| 354 | |
| 788 | 355 if (level_ <= ResourceType_Series) |
| 786 | 356 { |
| 788 | 357 MapDicomIdentifier(toModify, ResourceType_Series); |
| 786 | 358 } |
| 359 | |
| 788 | 360 if (level_ <= ResourceType_Instance) // Always true |
| 786 | 361 { |
| 788 | 362 MapDicomIdentifier(toModify, ResourceType_Instance); |
| 786 | 363 } |
| 364 } | |
| 365 } |