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annotate OrthancServer/DicomModification.cpp @ 2242:4e8e0ad2001c

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move USleep() in SystemToolbox
author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 19 Dec 2016 15:31:01 +0100
parents e3fd5bc429a2
children a3a65de1840f
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 *
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6 * This program is free software: you can redistribute it and/or
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7 * modify it under the terms of the GNU General Public License as
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8 * published by the Free Software Foundation, either version 3 of the
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9 * License, or (at your option) any later version.
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10 *
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11 * In addition, as a special exception, the copyright holders of this
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12 * program give permission to link the code of its release with the
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13 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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14 * that use the same license as the "OpenSSL" library), and distribute
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15 * the linked executables. You must obey the GNU General Public License
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16 * in all respects for all of the code used other than "OpenSSL". If you
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17 * modify file(s) with this exception, you may extend this exception to
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18 * your version of the file(s), but you are not obligated to do so. If
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19 * you do not wish to do so, delete this exception statement from your
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20 * version. If you delete this exception statement from all source files
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21 * in the program, then also delete it here.
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22 *
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23 * This program is distributed in the hope that it will be useful, but
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24 * WITHOUT ANY WARRANTY; without even the implied warranty of
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25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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26 * General Public License for more details.
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27 *
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28 * You should have received a copy of the GNU General Public License
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29 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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30 **/
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31
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32
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33 #include "PrecompiledHeadersServer.h"
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34 #include "DicomModification.h"
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35
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36 #include "../Core/Logging.h"
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37 #include "../Core/OrthancException.h"
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38 #include "FromDcmtkBridge.h"
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39
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40 #include <memory> // For std::auto_ptr
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41
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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
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45 namespace Orthanc
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46 {
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47 void DicomModification::RemoveInternal(const DicomTag& tag)
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48 {
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49 Replacements::iterator it = replacements_.find(tag);
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50
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51 if (it != replacements_.end())
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52 {
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53 delete it->second;
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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
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59 void DicomModification::ReplaceInternal(const DicomTag& tag,
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60 const Json::Value& value)
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61 {
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62 Replacements::iterator it = replacements_.find(tag);
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63
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64 if (it != replacements_.end())
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65 {
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66 delete it->second;
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67 it->second = NULL; // In the case of an exception during the clone
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68 it->second = new Json::Value(value); // Clone
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69 }
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70 else
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71 {
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72 replacements_[tag] = new Json::Value(value); // Clone
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73 }
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74 }
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75
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76
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77 void DicomModification::ClearReplacements()
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78 {
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79 for (Replacements::iterator it = replacements_.begin();
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80 it != replacements_.end(); ++it)
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81 {
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82 delete it->second;
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83 }
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84
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85 replacements_.clear();
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86 }
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87
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88
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89 void DicomModification::MarkNotOrthancAnonymization()
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90 {
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91 Replacements::iterator it = replacements_.find(DICOM_TAG_DEIDENTIFICATION_METHOD);
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92
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93 if (it != replacements_.end() &&
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94 it->second->asString() == ORTHANC_DEIDENTIFICATION_METHOD)
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95 {
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96 delete it->second;
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97 replacements_.erase(it);
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98 }
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99 }
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100
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101
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102 void DicomModification::MapDicomIdentifier(ParsedDicomFile& dicom,
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103 ResourceType level)
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104 {
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105 std::auto_ptr<DicomTag> tag;
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106
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107 switch (level)
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108 {
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109 case ResourceType_Study:
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110 tag.reset(new DicomTag(DICOM_TAG_STUDY_INSTANCE_UID));
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111 break;
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112
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113 case ResourceType_Series:
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114 tag.reset(new DicomTag(DICOM_TAG_SERIES_INSTANCE_UID));
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115 break;
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116
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117 case ResourceType_Instance:
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118 tag.reset(new DicomTag(DICOM_TAG_SOP_INSTANCE_UID));
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119 break;
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120
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121 default:
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122 throw OrthancException(ErrorCode_InternalError);
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123 }
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124
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125 std::string original;
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126 if (!dicom.GetTagValue(original, *tag))
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127 {
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128 original = "";
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129 }
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130
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131 std::string mapped;
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132
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parents:
diff changeset
133 UidMap::const_iterator previous = uidMap_.find(std::make_pair(level, original));
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parents:
diff changeset
134 if (previous == uidMap_.end())
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
135 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
136 mapped = FromDcmtkBridge::GenerateUniqueIdentifier(level);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
137 uidMap_.insert(std::make_pair(std::make_pair(level, original), mapped));
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
138 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
139 else
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
140 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
141 mapped = previous->second;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
142 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
143
1982
b5d4f9c156ad Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
144 dicom.Replace(*tag, mapped, false /* don't try and decode data URI scheme for UIDs */, DicomReplaceMode_InsertIfAbsent);
786
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
145 }
1698
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parents: 1695
diff changeset
146
2194
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
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parents: 1982
diff changeset
147 DicomModification::DicomModification() :
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
148 removePrivateTags_(false),
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
149 level_(ResourceType_Instance),
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
150 allowManualIdentifiers_(true),
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
151 keepStudyInstanceUid_(false),
2209
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2194
diff changeset
152 keepSeriesInstanceUid_(false)
786
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parents:
diff changeset
153 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
154 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
155
1698
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parents: 1695
diff changeset
156 DicomModification::~DicomModification()
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
157 {
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
158 ClearReplacements();
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
159 }
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
160
787
ac18946afa74 refactoring of anonymization/modification
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 786
diff changeset
161 void DicomModification::Keep(const DicomTag& tag)
786
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parents:
diff changeset
162 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
163 removals_.erase(tag);
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
164 RemoveInternal(tag);
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
165
1818
1065401501fb ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1698
diff changeset
166 if (tag.IsPrivate())
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
167 {
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
168 privateTagsToKeep_.insert(tag);
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
169 }
1279
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diff changeset
170
2194
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
171 if (tag == DICOM_TAG_STUDY_INSTANCE_UID)
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
172 {
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
173 keepStudyInstanceUid_ = true;
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
174 }
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
175
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
176 if (tag == DICOM_TAG_SERIES_INSTANCE_UID)
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
177 {
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
178 keepSeriesInstanceUid_ = true;
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
179 }
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
180
1279
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
181 MarkNotOrthancAnonymization();
786
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
182 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
183
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
184 void DicomModification::Remove(const DicomTag& tag)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
185 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
186 removals_.insert(tag);
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
187 RemoveInternal(tag);
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
188 privateTagsToKeep_.erase(tag);
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
189
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
190 MarkNotOrthancAnonymization();
786
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
191 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
192
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
193 bool DicomModification::IsRemoved(const DicomTag& tag) const
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
194 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
195 return removals_.find(tag) != removals_.end();
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
196 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
197
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
198 void DicomModification::Replace(const DicomTag& tag,
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
199 const Json::Value& value,
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
200 bool safeForAnonymization)
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
201 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
202 removals_.erase(tag);
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
203 privateTagsToKeep_.erase(tag);
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
204 ReplaceInternal(tag, value);
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
205
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
206 if (!safeForAnonymization)
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
207 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
208 MarkNotOrthancAnonymization();
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
209 }
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
210 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
211
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
212
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
213 bool DicomModification::IsReplaced(const DicomTag& tag) const
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
214 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
215 return replacements_.find(tag) != replacements_.end();
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
216 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
217
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
218 const Json::Value& DicomModification::GetReplacement(const DicomTag& tag) const
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
219 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
220 Replacements::const_iterator it = replacements_.find(tag);
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
221
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
222 if (it == replacements_.end())
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
223 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
224 throw OrthancException(ErrorCode_InexistentItem);
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
225 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
226 else
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
227 {
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
228 return *it->second;
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
229 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
230 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
231
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
232
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
233 std::string DicomModification::GetReplacementAsString(const DicomTag& tag) const
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
234 {
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
235 const Json::Value& json = GetReplacement(tag);
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
236
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
237 if (json.type() != Json::stringValue)
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
238 {
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
239 throw OrthancException(ErrorCode_BadParameterType);
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
240 }
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
241 else
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
242 {
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
243 return json.asString();
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
244 }
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
245 }
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
246
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
247
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
248 void DicomModification::SetRemovePrivateTags(bool removed)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
249 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
250 removePrivateTags_ = removed;
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
251
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
252 if (!removed)
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
253 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
254 MarkNotOrthancAnonymization();
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
255 }
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
256 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
257
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
258 void DicomModification::SetLevel(ResourceType level)
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
259 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
260 uidMap_.clear();
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
261 level_ = level;
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
262
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
263 if (level != ResourceType_Patient)
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
264 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
265 MarkNotOrthancAnonymization();
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
266 }
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
267 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
268
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
269 void DicomModification::SetupAnonymization()
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
270 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
271 removals_.clear();
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
272 ClearReplacements();
786
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
273 removePrivateTags_ = true;
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
274 level_ = ResourceType_Patient;
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
275 uidMap_.clear();
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
276 privateTagsToKeep_.clear();
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
277
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
278 // This is Table E.1-1 from PS 3.15-2008 - DICOM Part 15: Security and System Management Profiles
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
279 removals_.insert(DicomTag(0x0008, 0x0014)); // Instance Creator UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
280 //removals_.insert(DicomTag(0x0008, 0x0018)); // SOP Instance UID => set in Apply()
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
281 removals_.insert(DicomTag(0x0008, 0x0050)); // Accession Number
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
282 removals_.insert(DicomTag(0x0008, 0x0080)); // Institution Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
283 removals_.insert(DicomTag(0x0008, 0x0081)); // Institution Address
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
284 removals_.insert(DicomTag(0x0008, 0x0090)); // Referring Physician's Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
285 removals_.insert(DicomTag(0x0008, 0x0092)); // Referring Physician's Address
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
286 removals_.insert(DicomTag(0x0008, 0x0094)); // Referring Physician's Telephone Numbers
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
287 removals_.insert(DicomTag(0x0008, 0x1010)); // Station Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
288 removals_.insert(DicomTag(0x0008, 0x1030)); // Study Description
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
289 removals_.insert(DicomTag(0x0008, 0x103e)); // Series Description
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
290 removals_.insert(DicomTag(0x0008, 0x1040)); // Institutional Department Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
291 removals_.insert(DicomTag(0x0008, 0x1048)); // Physician(s) of Record
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
292 removals_.insert(DicomTag(0x0008, 0x1050)); // Performing Physicians' Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
293 removals_.insert(DicomTag(0x0008, 0x1060)); // Name of Physician(s) Reading Study
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
294 removals_.insert(DicomTag(0x0008, 0x1070)); // Operators' Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
295 removals_.insert(DicomTag(0x0008, 0x1080)); // Admitting Diagnoses Description
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
296 removals_.insert(DicomTag(0x0008, 0x1155)); // Referenced SOP Instance UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
297 removals_.insert(DicomTag(0x0008, 0x2111)); // Derivation Description
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
298 //removals_.insert(DicomTag(0x0010, 0x0010)); // Patient's Name => cf. below (*)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
299 //removals_.insert(DicomTag(0x0010, 0x0020)); // Patient ID => cf. below (*)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
300 removals_.insert(DicomTag(0x0010, 0x0030)); // Patient's Birth Date
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
301 removals_.insert(DicomTag(0x0010, 0x0032)); // Patient's Birth Time
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
302 removals_.insert(DicomTag(0x0010, 0x0040)); // Patient's Sex
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
303 removals_.insert(DicomTag(0x0010, 0x1000)); // Other Patient Ids
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
304 removals_.insert(DicomTag(0x0010, 0x1001)); // Other Patient Names
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
305 removals_.insert(DicomTag(0x0010, 0x1010)); // Patient's Age
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
306 removals_.insert(DicomTag(0x0010, 0x1020)); // Patient's Size
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
307 removals_.insert(DicomTag(0x0010, 0x1030)); // Patient's Weight
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
308 removals_.insert(DicomTag(0x0010, 0x1090)); // Medical Record Locator
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
309 removals_.insert(DicomTag(0x0010, 0x2160)); // Ethnic Group
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
310 removals_.insert(DicomTag(0x0010, 0x2180)); // Occupation
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
311 removals_.insert(DicomTag(0x0010, 0x21b0)); // Additional Patient's History
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
312 removals_.insert(DicomTag(0x0010, 0x4000)); // Patient Comments
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
313 removals_.insert(DicomTag(0x0018, 0x1000)); // Device Serial Number
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
314 removals_.insert(DicomTag(0x0018, 0x1030)); // Protocol Name
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
315 //removals_.insert(DicomTag(0x0020, 0x000d)); // Study Instance UID => set in Apply()
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
316 //removals_.insert(DicomTag(0x0020, 0x000e)); // Series Instance UID => set in Apply()
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
317 removals_.insert(DicomTag(0x0020, 0x0010)); // Study ID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
318 removals_.insert(DicomTag(0x0020, 0x0052)); // Frame of Reference UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
319 removals_.insert(DicomTag(0x0020, 0x0200)); // Synchronization Frame of Reference UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
320 removals_.insert(DicomTag(0x0020, 0x4000)); // Image Comments
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
321 removals_.insert(DicomTag(0x0040, 0x0275)); // Request Attributes Sequence
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
322 removals_.insert(DicomTag(0x0040, 0xa124)); // UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
323 removals_.insert(DicomTag(0x0040, 0xa730)); // Content Sequence
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
324 removals_.insert(DicomTag(0x0088, 0x0140)); // Storage Media File-set UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
325 removals_.insert(DicomTag(0x3006, 0x0024)); // Referenced Frame of Reference UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
326 removals_.insert(DicomTag(0x3006, 0x00c2)); // Related Frame of Reference UID
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
327
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
328 // Some more removals (from the experience of DICOM files at the CHU of Liege)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
329 removals_.insert(DicomTag(0x0010, 0x1040)); // Patient's Address
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
330 removals_.insert(DicomTag(0x0032, 0x1032)); // Requesting Physician
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
331 removals_.insert(DicomTag(0x0010, 0x2154)); // PatientTelephoneNumbers
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
332 removals_.insert(DicomTag(0x0010, 0x2000)); // Medical Alerts
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
333
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
334 // Set the DeidentificationMethod tag
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
335 ReplaceInternal(DICOM_TAG_DEIDENTIFICATION_METHOD, ORTHANC_DEIDENTIFICATION_METHOD);
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
336
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
337 // Set the PatientIdentityRemoved tag
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
338 ReplaceInternal(DicomTag(0x0012, 0x0062), "YES");
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
339
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
340 // (*) Choose a random patient name and ID
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
341 std::string patientId = FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Patient);
1698
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
342 ReplaceInternal(DICOM_TAG_PATIENT_ID, patientId);
d78b87f93bcf DicomModification use Json::Value
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1695
diff changeset
343 ReplaceInternal(DICOM_TAG_PATIENT_NAME, patientId);
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
344 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
345
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
346 void DicomModification::Apply(ParsedDicomFile& toModify)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
347 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
348 // Check the request
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
349 assert(ResourceType_Patient + 1 == ResourceType_Study &&
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
350 ResourceType_Study + 1 == ResourceType_Series &&
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
351 ResourceType_Series + 1 == ResourceType_Instance);
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
352
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
353 if (IsRemoved(DICOM_TAG_PATIENT_ID) ||
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
354 IsRemoved(DICOM_TAG_STUDY_INSTANCE_UID) ||
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
355 IsRemoved(DICOM_TAG_SERIES_INSTANCE_UID) ||
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
356 IsRemoved(DICOM_TAG_SOP_INSTANCE_UID))
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
357 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
358 throw OrthancException(ErrorCode_BadRequest);
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
359 }
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
360
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
361
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
362 // Sanity checks at the patient level
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 787
diff changeset
363 if (level_ == ResourceType_Patient && !IsReplaced(DICOM_TAG_PATIENT_ID))
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
364 {
916
b4b46e3e6017 more explicit error message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 831
diff changeset
365 LOG(ERROR) << "When modifying a patient, her PatientID is required to be modified";
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
366 throw OrthancException(ErrorCode_BadRequest);
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
367 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
368
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
369 if (!allowManualIdentifiers_)
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
370 {
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
371 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID))
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
372 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
373 LOG(ERROR) << "When modifying a patient, the StudyInstanceUID cannot be manually modified";
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
374 throw OrthancException(ErrorCode_BadRequest);
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
375 }
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
376
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
377 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID))
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
378 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
379 LOG(ERROR) << "When modifying a patient, the SeriesInstanceUID cannot be manually modified";
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
380 throw OrthancException(ErrorCode_BadRequest);
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
381 }
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
382
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
383 if (level_ == ResourceType_Patient && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID))
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
384 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
385 LOG(ERROR) << "When modifying a patient, the SopInstanceUID cannot be manually modified";
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
386 throw OrthancException(ErrorCode_BadRequest);
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
387 }
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
388 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
389
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
390
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
391 // Sanity checks at the study level
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
392 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_PATIENT_ID))
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
393 {
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
394 LOG(ERROR) << "When modifying a study, the parent PatientID cannot be manually modified";
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
395 throw OrthancException(ErrorCode_BadRequest);
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
396 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
397
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
398 if (!allowManualIdentifiers_)
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
399 {
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
400 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID))
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
401 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
402 LOG(ERROR) << "When modifying a study, the SeriesInstanceUID cannot be manually modified";
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
403 throw OrthancException(ErrorCode_BadRequest);
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
404 }
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
405
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
406 if (level_ == ResourceType_Study && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID))
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
407 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
408 LOG(ERROR) << "When modifying a study, the SopInstanceUID cannot be manually modified";
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
409 throw OrthancException(ErrorCode_BadRequest);
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
410 }
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
411 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
412
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
413
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
414 // Sanity checks at the series level
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
415 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_PATIENT_ID))
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
416 {
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
417 LOG(ERROR) << "When modifying a series, the parent PatientID cannot be manually modified";
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
418 throw OrthancException(ErrorCode_BadRequest);
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
419 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
420
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
421 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID))
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
422 {
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
423 LOG(ERROR) << "When modifying a series, the parent StudyInstanceUID cannot be manually modified";
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
424 throw OrthancException(ErrorCode_BadRequest);
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
425 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
426
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
427 if (!allowManualIdentifiers_)
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
428 {
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
429 if (level_ == ResourceType_Series && IsReplaced(DICOM_TAG_SOP_INSTANCE_UID))
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
430 {
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
431 LOG(ERROR) << "When modifying a series, the SopInstanceUID cannot be manually modified";
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
432 throw OrthancException(ErrorCode_BadRequest);
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
433 }
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
434 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
435
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
436
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
437 // Sanity checks at the instance level
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
438 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_PATIENT_ID))
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
439 {
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
440 LOG(ERROR) << "When modifying an instance, the parent PatientID cannot be manually modified";
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
441 throw OrthancException(ErrorCode_BadRequest);
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
442 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
443
1160
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
444 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID))
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
445 {
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
446 LOG(ERROR) << "When modifying an instance, the parent StudyInstanceUID cannot be manually modified";
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
447 throw OrthancException(ErrorCode_BadRequest);
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
448 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
449
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
450 if (level_ == ResourceType_Instance && IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID))
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
451 {
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
452 LOG(ERROR) << "When modifying an instance, the parent SeriesInstanceUID cannot be manually modified";
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
453 throw OrthancException(ErrorCode_BadRequest);
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
454 }
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
455
80671157d051 generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 991
diff changeset
456
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
457 // (1) Remove the private tags, if need be
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
458 if (removePrivateTags_)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
459 {
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
460 toModify.RemovePrivateTags(privateTagsToKeep_);
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
461 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
462
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
463 // (2) Remove the tags specified by the user
991
2f76b92addd4 keep private tags during anonymization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 916
diff changeset
464 for (SetOfTags::const_iterator it = removals_.begin();
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
465 it != removals_.end(); ++it)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
466 {
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
467 toModify.Remove(*it);
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
468 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
469
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
470 // (3) Replace the tags
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
471 for (Replacements::const_iterator it = replacements_.begin();
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
472 it != replacements_.end(); ++it)
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
473 {
1982
b5d4f9c156ad Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
474 toModify.Replace(it->first, *it->second, true /* decode data URI scheme */, DicomReplaceMode_InsertIfAbsent);
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
475 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
476
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
477 // (4) Update the DICOM identifiers
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
478 if (level_ <= ResourceType_Study &&
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
479 !IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID))
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
480 {
2194
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
481 if (keepStudyInstanceUid_)
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
482 {
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
483 LOG(WARNING) << "Modifying a study while keeping its original StudyInstanceUID: This should be avoided!";
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
484 }
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
485 else
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
486 {
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
487 MapDicomIdentifier(toModify, ResourceType_Study);
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
488 }
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
489 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
490
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
491 if (level_ <= ResourceType_Series &&
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
492 !IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID))
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
493 {
2194
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
494 if (keepSeriesInstanceUid_)
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
495 {
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
496 LOG(WARNING) << "Modifying a series while keeping its original SeriesInstanceUID: This should be avoided!";
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
497 }
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
498 else
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
499 {
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
500 MapDicomIdentifier(toModify, ResourceType_Series);
3b40ca7470cc "Keep" option for modifications to keep original DICOM identifiers (advanced feature)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1982
diff changeset
501 }
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
502 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
503
1279
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
504 if (level_ <= ResourceType_Instance && // Always true
7f3a65e84d4b More flexible /modify and /anonymize for single instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1160
diff changeset
505 !IsReplaced(DICOM_TAG_SOP_INSTANCE_UID))
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
506 {
2209
e3fd5bc429a2 URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2194
diff changeset
507 MapDicomIdentifier(toModify, ResourceType_Instance);
786
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
508 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
509 }
b6d6b65142e8 DicomModification
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
510 }