Mercurial > hg > orthanc
annotate OrthancServer/DicomModification.cpp @ 1694:06d579e82bb8
refactoring
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 08 Oct 2015 13:49:20 +0200 |
| parents | f967bdf8534e |
| children | 18c02c6987d5 |
| rev | line source |
|---|---|
| 786 | 1 /** |
| 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 |
| 786 | 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 | |
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36 #include "../Core/Logging.h" |
| 786 | 37 #include "../Core/OrthancException.h" |
| 790 | 38 #include "FromDcmtkBridge.h" |
| 786 | 39 |
| 795 | 40 #include <memory> // For std::auto_ptr |
| 41 | |
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42 |
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43 static const std::string ORTHANC_DEIDENTIFICATION_METHOD = "Orthanc " ORTHANC_VERSION " - PS 3.15-2008 Table E.1-1"; |
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44 |
| 786 | 45 namespace Orthanc |
| 46 { | |
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47 void DicomModification::MarkNotOrthancAnonymization() |
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48 { |
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49 Replacements::iterator it = replacements_.find(DICOM_TAG_DEIDENTIFICATION_METHOD); |
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50 |
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51 if (it != replacements_.end() && |
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52 it->second == ORTHANC_DEIDENTIFICATION_METHOD) |
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53 { |
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54 replacements_.erase(it); |
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55 } |
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56 } |
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57 |
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58 |
| 786 | 59 void DicomModification::MapDicomIdentifier(ParsedDicomFile& dicom, |
| 788 | 60 ResourceType level) |
| 786 | 61 { |
| 62 std::auto_ptr<DicomTag> tag; | |
| 63 | |
| 64 switch (level) | |
| 65 { | |
| 788 | 66 case ResourceType_Study: |
| 786 | 67 tag.reset(new DicomTag(DICOM_TAG_STUDY_INSTANCE_UID)); |
| 68 break; | |
| 69 | |
| 788 | 70 case ResourceType_Series: |
| 786 | 71 tag.reset(new DicomTag(DICOM_TAG_SERIES_INSTANCE_UID)); |
| 72 break; | |
| 73 | |
| 788 | 74 case ResourceType_Instance: |
| 786 | 75 tag.reset(new DicomTag(DICOM_TAG_SOP_INSTANCE_UID)); |
| 76 break; | |
| 77 | |
| 78 default: | |
| 79 throw OrthancException(ErrorCode_InternalError); | |
| 80 } | |
| 81 | |
| 82 std::string original; | |
| 83 if (!dicom.GetTagValue(original, *tag)) | |
| 84 { | |
| 85 original = ""; | |
| 86 } | |
| 87 | |
| 88 std::string mapped; | |
| 89 | |
| 90 UidMap::const_iterator previous = uidMap_.find(std::make_pair(level, original)); | |
| 91 if (previous == uidMap_.end()) | |
| 92 { | |
| 93 mapped = FromDcmtkBridge::GenerateUniqueIdentifier(level); | |
| 94 uidMap_.insert(std::make_pair(std::make_pair(level, original), mapped)); | |
| 95 } | |
| 96 else | |
| 97 { | |
| 98 mapped = previous->second; | |
| 99 } | |
| 100 | |
| 101 dicom.Replace(*tag, mapped); | |
| 102 } | |
| 103 | |
| 104 DicomModification::DicomModification() | |
| 105 { | |
| 106 removePrivateTags_ = false; | |
| 788 | 107 level_ = ResourceType_Instance; |
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108 allowManualIdentifiers_ = true; |
| 786 | 109 } |
| 110 | |
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111 void DicomModification::Keep(const DicomTag& tag) |
| 786 | 112 { |
| 113 removals_.erase(tag); | |
| 114 replacements_.erase(tag); | |
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115 |
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116 if (FromDcmtkBridge::IsPrivateTag(tag)) |
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117 { |
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118 privateTagsToKeep_.insert(tag); |
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119 } |
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120 |
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121 MarkNotOrthancAnonymization(); |
| 786 | 122 } |
| 123 | |
| 124 void DicomModification::Remove(const DicomTag& tag) | |
| 125 { | |
| 126 removals_.insert(tag); | |
| 127 replacements_.erase(tag); | |
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128 privateTagsToKeep_.erase(tag); |
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129 |
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130 MarkNotOrthancAnonymization(); |
| 786 | 131 } |
| 132 | |
| 133 bool DicomModification::IsRemoved(const DicomTag& tag) const | |
| 134 { | |
| 135 return removals_.find(tag) != removals_.end(); | |
| 136 } | |
| 137 | |
| 138 void DicomModification::Replace(const DicomTag& tag, | |
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139 const std::string& value, |
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140 bool safeForAnonymization) |
| 786 | 141 { |
| 142 removals_.erase(tag); | |
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143 privateTagsToKeep_.erase(tag); |
| 786 | 144 replacements_[tag] = value; |
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145 |
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146 if (!safeForAnonymization) |
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147 { |
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148 MarkNotOrthancAnonymization(); |
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149 } |
| 786 | 150 } |
| 151 | |
| 152 bool DicomModification::IsReplaced(const DicomTag& tag) const | |
| 153 { | |
| 154 return replacements_.find(tag) != replacements_.end(); | |
| 155 } | |
| 156 | |
| 157 const std::string& DicomModification::GetReplacement(const DicomTag& tag) const | |
| 158 { | |
| 159 Replacements::const_iterator it = replacements_.find(tag); | |
| 160 | |
| 161 if (it == replacements_.end()) | |
| 162 { | |
| 163 throw OrthancException(ErrorCode_InexistentItem); | |
| 164 } | |
| 165 else | |
| 166 { | |
| 167 return it->second; | |
| 168 } | |
| 169 } | |
| 170 | |
| 171 void DicomModification::SetRemovePrivateTags(bool removed) | |
| 172 { | |
| 173 removePrivateTags_ = removed; | |
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174 |
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175 if (!removed) |
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176 { |
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177 MarkNotOrthancAnonymization(); |
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178 } |
| 786 | 179 } |
| 180 | |
| 788 | 181 void DicomModification::SetLevel(ResourceType level) |
| 786 | 182 { |
| 183 uidMap_.clear(); | |
| 184 level_ = level; | |
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185 |
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186 if (level != ResourceType_Patient) |
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187 { |
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188 MarkNotOrthancAnonymization(); |
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189 } |
| 786 | 190 } |
| 191 | |
| 192 void DicomModification::SetupAnonymization() | |
| 193 { | |
| 194 removals_.clear(); | |
| 195 replacements_.clear(); | |
| 196 removePrivateTags_ = true; | |
| 788 | 197 level_ = ResourceType_Patient; |
| 786 | 198 uidMap_.clear(); |
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199 privateTagsToKeep_.clear(); |
| 786 | 200 |
| 201 // This is Table E.1-1 from PS 3.15-2008 - DICOM Part 15: Security and System Management Profiles | |
| 202 removals_.insert(DicomTag(0x0008, 0x0014)); // Instance Creator UID | |
| 203 //removals_.insert(DicomTag(0x0008, 0x0018)); // SOP Instance UID => set in Apply() | |
| 204 removals_.insert(DicomTag(0x0008, 0x0050)); // Accession Number | |
| 205 removals_.insert(DicomTag(0x0008, 0x0080)); // Institution Name | |
| 206 removals_.insert(DicomTag(0x0008, 0x0081)); // Institution Address | |
| 207 removals_.insert(DicomTag(0x0008, 0x0090)); // Referring Physician's Name | |
| 208 removals_.insert(DicomTag(0x0008, 0x0092)); // Referring Physician's Address | |
| 209 removals_.insert(DicomTag(0x0008, 0x0094)); // Referring Physician's Telephone Numbers | |
| 210 removals_.insert(DicomTag(0x0008, 0x1010)); // Station Name | |
| 211 removals_.insert(DicomTag(0x0008, 0x1030)); // Study Description | |
| 212 removals_.insert(DicomTag(0x0008, 0x103e)); // Series Description | |
| 213 removals_.insert(DicomTag(0x0008, 0x1040)); // Institutional Department Name | |
| 214 removals_.insert(DicomTag(0x0008, 0x1048)); // Physician(s) of Record | |
| 215 removals_.insert(DicomTag(0x0008, 0x1050)); // Performing Physicians' Name | |
| 216 removals_.insert(DicomTag(0x0008, 0x1060)); // Name of Physician(s) Reading Study | |
| 217 removals_.insert(DicomTag(0x0008, 0x1070)); // Operators' Name | |
| 218 removals_.insert(DicomTag(0x0008, 0x1080)); // Admitting Diagnoses Description | |
| 219 removals_.insert(DicomTag(0x0008, 0x1155)); // Referenced SOP Instance UID | |
| 220 removals_.insert(DicomTag(0x0008, 0x2111)); // Derivation Description | |
| 221 //removals_.insert(DicomTag(0x0010, 0x0010)); // Patient's Name => cf. below (*) | |
| 222 //removals_.insert(DicomTag(0x0010, 0x0020)); // Patient ID => cf. below (*) | |
| 223 removals_.insert(DicomTag(0x0010, 0x0030)); // Patient's Birth Date | |
| 224 removals_.insert(DicomTag(0x0010, 0x0032)); // Patient's Birth Time | |
| 225 removals_.insert(DicomTag(0x0010, 0x0040)); // Patient's Sex | |
| 226 removals_.insert(DicomTag(0x0010, 0x1000)); // Other Patient Ids | |
| 227 removals_.insert(DicomTag(0x0010, 0x1001)); // Other Patient Names | |
| 228 removals_.insert(DicomTag(0x0010, 0x1010)); // Patient's Age | |
| 229 removals_.insert(DicomTag(0x0010, 0x1020)); // Patient's Size | |
| 230 removals_.insert(DicomTag(0x0010, 0x1030)); // Patient's Weight | |
| 231 removals_.insert(DicomTag(0x0010, 0x1090)); // Medical Record Locator | |
| 232 removals_.insert(DicomTag(0x0010, 0x2160)); // Ethnic Group | |
| 233 removals_.insert(DicomTag(0x0010, 0x2180)); // Occupation | |
| 234 removals_.insert(DicomTag(0x0010, 0x21b0)); // Additional Patient's History | |
| 235 removals_.insert(DicomTag(0x0010, 0x4000)); // Patient Comments | |
| 236 removals_.insert(DicomTag(0x0018, 0x1000)); // Device Serial Number | |
| 237 removals_.insert(DicomTag(0x0018, 0x1030)); // Protocol Name | |
| 238 //removals_.insert(DicomTag(0x0020, 0x000d)); // Study Instance UID => set in Apply() | |
| 239 //removals_.insert(DicomTag(0x0020, 0x000e)); // Series Instance UID => set in Apply() | |
| 240 removals_.insert(DicomTag(0x0020, 0x0010)); // Study ID | |
| 241 removals_.insert(DicomTag(0x0020, 0x0052)); // Frame of Reference UID | |
| 242 removals_.insert(DicomTag(0x0020, 0x0200)); // Synchronization Frame of Reference UID | |
| 243 removals_.insert(DicomTag(0x0020, 0x4000)); // Image Comments | |
| 244 removals_.insert(DicomTag(0x0040, 0x0275)); // Request Attributes Sequence | |
| 245 removals_.insert(DicomTag(0x0040, 0xa124)); // UID | |
| 246 removals_.insert(DicomTag(0x0040, 0xa730)); // Content Sequence | |
| 247 removals_.insert(DicomTag(0x0088, 0x0140)); // Storage Media File-set UID | |
| 248 removals_.insert(DicomTag(0x3006, 0x0024)); // Referenced Frame of Reference UID | |
| 249 removals_.insert(DicomTag(0x3006, 0x00c2)); // Related Frame of Reference UID | |
| 250 | |
| 251 // Some more removals (from the experience of DICOM files at the CHU of Liege) | |
| 252 removals_.insert(DicomTag(0x0010, 0x1040)); // Patient's Address | |
| 253 removals_.insert(DicomTag(0x0032, 0x1032)); // Requesting Physician | |
| 254 removals_.insert(DicomTag(0x0010, 0x2154)); // PatientTelephoneNumbers | |
| 255 removals_.insert(DicomTag(0x0010, 0x2000)); // Medical Alerts | |
| 256 | |
| 257 // Set the DeidentificationMethod tag | |
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258 replacements_.insert(std::make_pair(DICOM_TAG_DEIDENTIFICATION_METHOD, ORTHANC_DEIDENTIFICATION_METHOD)); |
| 786 | 259 |
| 260 // Set the PatientIdentityRemoved tag | |
| 261 replacements_.insert(std::make_pair(DicomTag(0x0012, 0x0062), "YES")); | |
| 262 | |
| 263 // (*) Choose a random patient name and ID | |
| 788 | 264 std::string patientId = FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Patient); |
| 786 | 265 replacements_[DICOM_TAG_PATIENT_ID] = patientId; |
| 266 replacements_[DICOM_TAG_PATIENT_NAME] = patientId; | |
| 267 } | |
| 268 | |
| 269 void DicomModification::Apply(ParsedDicomFile& toModify) | |
| 270 { | |
| 271 // Check the request | |
| 788 | 272 assert(ResourceType_Patient + 1 == ResourceType_Study && |
| 273 ResourceType_Study + 1 == ResourceType_Series && | |
| 274 ResourceType_Series + 1 == ResourceType_Instance); | |
| 786 | 275 |
| 276 if (IsRemoved(DICOM_TAG_PATIENT_ID) || | |
| 277 IsRemoved(DICOM_TAG_STUDY_INSTANCE_UID) || | |
| 278 IsRemoved(DICOM_TAG_SERIES_INSTANCE_UID) || | |
| 279 IsRemoved(DICOM_TAG_SOP_INSTANCE_UID)) | |
| 280 { | |
| 281 throw OrthancException(ErrorCode_BadRequest); | |
| 282 } | |
|
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283 |
| 786 | 284 |
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285 // Sanity checks at the patient level |
| 788 | 286 if (level_ == ResourceType_Patient && !IsReplaced(DICOM_TAG_PATIENT_ID)) |
| 786 | 287 { |
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288 LOG(ERROR) << "When modifying a patient, her PatientID is required to be modified"; |
| 786 | 289 throw OrthancException(ErrorCode_BadRequest); |
| 290 } | |
| 291 | |
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292 if (!allowManualIdentifiers_) |
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293 { |
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294 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
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295 { |
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296 LOG(ERROR) << "When modifying a patient, the StudyInstanceUID cannot be manually modified"; |
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297 throw OrthancException(ErrorCode_BadRequest); |
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298 } |
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299 |
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300 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
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301 { |
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302 LOG(ERROR) << "When modifying a patient, the SeriesInstanceUID cannot be manually modified"; |
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303 throw OrthancException(ErrorCode_BadRequest); |
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304 } |
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305 |
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306 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
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307 { |
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308 LOG(ERROR) << "When modifying a patient, the SopInstanceUID cannot be manually modified"; |
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309 throw OrthancException(ErrorCode_BadRequest); |
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310 } |
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311 } |
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312 |
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313 |
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314 // Sanity checks at the study level |
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315 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_PATIENT_ID)) |
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316 { |
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317 LOG(ERROR) << "When modifying a study, the parent PatientID cannot be manually modified"; |
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318 throw OrthancException(ErrorCode_BadRequest); |
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319 } |
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320 |
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321 if (!allowManualIdentifiers_) |
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322 { |
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323 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
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324 { |
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325 LOG(ERROR) << "When modifying a study, the SeriesInstanceUID cannot be manually modified"; |
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326 throw OrthancException(ErrorCode_BadRequest); |
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327 } |
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328 |
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329 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
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330 { |
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331 LOG(ERROR) << "When modifying a study, the SopInstanceUID cannot be manually modified"; |
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332 throw OrthancException(ErrorCode_BadRequest); |
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333 } |
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334 } |
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335 |
| 786 | 336 |
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337 // Sanity checks at the series level |
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338 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_PATIENT_ID)) |
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339 { |
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340 LOG(ERROR) << "When modifying a series, the parent PatientID cannot be manually modified"; |
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341 throw OrthancException(ErrorCode_BadRequest); |
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342 } |
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343 |
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344 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
| 786 | 345 { |
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346 LOG(ERROR) << "When modifying a series, the parent StudyInstanceUID cannot be manually modified"; |
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347 throw OrthancException(ErrorCode_BadRequest); |
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348 } |
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349 |
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350 if (!allowManualIdentifiers_) |
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351 { |
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352 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
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353 { |
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354 LOG(ERROR) << "When modifying a series, the SopInstanceUID cannot be manually modified"; |
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355 throw OrthancException(ErrorCode_BadRequest); |
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356 } |
| 786 | 357 } |
| 358 | |
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359 |
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360 // Sanity checks at the instance level |
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361 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_PATIENT_ID)) |
| 786 | 362 { |
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363 LOG(ERROR) << "When modifying an instance, the parent PatientID cannot be manually modified"; |
| 786 | 364 throw OrthancException(ErrorCode_BadRequest); |
| 365 } | |
| 366 | |
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367 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
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368 { |
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369 LOG(ERROR) << "When modifying an instance, the parent StudyInstanceUID cannot be manually modified"; |
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370 throw OrthancException(ErrorCode_BadRequest); |
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371 } |
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372 |
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373 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
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374 { |
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375 LOG(ERROR) << "When modifying an instance, the parent SeriesInstanceUID cannot be manually modified"; |
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376 throw OrthancException(ErrorCode_BadRequest); |
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377 } |
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378 |
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379 |
| 786 | 380 // (1) Remove the private tags, if need be |
| 381 if (removePrivateTags_) | |
| 382 { | |
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383 toModify.RemovePrivateTags(privateTagsToKeep_); |
| 786 | 384 } |
| 385 | |
| 386 // (2) Remove the tags specified by the user | |
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387 for (SetOfTags::const_iterator it = removals_.begin(); |
| 786 | 388 it != removals_.end(); ++it) |
| 389 { | |
| 390 toModify.Remove(*it); | |
| 391 } | |
| 392 | |
| 393 // (3) Replace the tags | |
| 394 for (Replacements::const_iterator it = replacements_.begin(); | |
| 395 it != replacements_.end(); ++it) | |
| 396 { | |
| 789 | 397 toModify.Replace(it->first, it->second, DicomReplaceMode_InsertIfAbsent); |
| 786 | 398 } |
| 399 | |
| 400 // (4) Update the DICOM identifiers | |
|
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401 if (level_ <= ResourceType_Study && |
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402 !IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) |
| 786 | 403 { |
| 788 | 404 MapDicomIdentifier(toModify, ResourceType_Study); |
| 786 | 405 } |
| 406 | |
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407 if (level_ <= ResourceType_Series && |
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408 !IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) |
| 786 | 409 { |
| 788 | 410 MapDicomIdentifier(toModify, ResourceType_Series); |
| 786 | 411 } |
| 412 | |
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413 if (level_ <= ResourceType_Instance && // Always true |
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414 !IsReplaced(DICOM_TAG_SOP_INSTANCE_UID)) |
| 786 | 415 { |
| 788 | 416 MapDicomIdentifier(toModify, ResourceType_Instance); |
| 786 | 417 } |
| 418 } | |
| 419 } |