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annotate OrthancServer/Resources/GenerateAnonymizationProfile.py @ 4342:52166629239f

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SystemToolbox::ReadFileRange()
author Sebastien Jodogne <s.jodogne@gmail.com>
date Thu, 03 Dec 2020 18:48:06 +0100
parents 28944db5318b
children d9473bd5ed43
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1 #!/usr/bin/env python
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2
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3 # Orthanc - A Lightweight, RESTful DICOM Store
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4 # Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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5 # Department, University Hospital of Liege, Belgium
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6 # Copyright (C) 2017-2020 Osimis S.A., Belgium
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7 #
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8 # This program is free software: you can redistribute it and/or
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9 # modify it under the terms of the GNU General Public License as
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10 # published by the Free Software Foundation, either version 3 of the
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11 # License, or (at your option) any later version.
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12 #
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13 # In addition, as a special exception, the copyright holders of this
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14 # program give permission to link the code of its release with the
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15 # OpenSSL project's "OpenSSL" library (or with modified versions of it
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16 # that use the same license as the "OpenSSL" library), and distribute
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17 # the linked executables. You must obey the GNU General Public License
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18 # in all respects for all of the code used other than "OpenSSL". If you
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19 # modify file(s) with this exception, you may extend this exception to
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20 # your version of the file(s), but you are not obligated to do so. If
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21 # you do not wish to do so, delete this exception statement from your
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22 # version. If you delete this exception statement from all source files
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23 # in the program, then also delete it here.
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24 #
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25 # This program is distributed in the hope that it will be useful, but
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26 # WITHOUT ANY WARRANTY; without even the implied warranty of
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27 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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28 # General Public License for more details.
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29 #
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30 # You should have received a copy of the GNU General Public License
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31 # along with this program. If not, see <http://www.gnu.org/licenses/>.
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33
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34 import re
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35 import sys
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36 import xml.etree.ElementTree as ET
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37
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38 # Usage:
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39 # ./GenerateAnonymizationProfile.py ~/Subversion/dicom-specification/2017c/part15.xml
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40
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41 if len(sys.argv) != 2:
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42 raise Exception('Please provide the path to the part15.xml file from the DICOM standard')
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43
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44 with open(sys.argv[1], 'r') as f:
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45 root = ET.fromstring(f.read())
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46
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47 br = '{http://docbook.org/ns/docbook}' # Shorthand variable
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49
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50 LINES = []
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51
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52 def FormatLine(command, name):
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53 indentation = 65
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54
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55 if len(command) > indentation:
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56 raise Exception('Too long command')
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57
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58 line = ' ' + command + (' ' * (indentation - len(command))) + '// ' + name
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59 LINES.append(line)
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60
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61 def FormatUnknown(rawTag, name, profile):
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62 FormatLine('// TODO: %s with rule %s' % (rawTag, profile), name)
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63
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64
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65 RAW_TAG_RE = re.compile(r'^\(\s*([0-9A-F]{4})\s*,\s*([0-9A-F]{4})\s*\)$')
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67
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68 for table in root.iter('%stable' % br):
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69 if table.attrib['label'] == 'E.1-1':
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70 for row in table.find('%stbody' % br).iter('%str' % br):
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71 rawTag = row.find('%std[2]/%spara' % (br, br)).text
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72 name = row.find('%std[1]/%spara' % (br, br)).text
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73 profile = row.find('%std[5]/%spara' % (br, br)).text
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74
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75 if len(name.strip()) == 0:
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76 continue
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77
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78 match = RAW_TAG_RE.match(rawTag)
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79 if match == None:
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80 FormatUnknown(rawTag, name, profile)
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81 else:
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82 tag = '0x%s, 0x%s' % (match.group(1).lower(), match.group(2).lower())
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83
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84 if name in [
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85 'SOP Instance UID',
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86 'Series Instance UID',
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87 'Study Instance UID',
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88 ]:
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89 FormatLine('// Tag (%s) is set in Apply() /* %s */' % (tag, profile), name)
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90 elif name in [
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91 'Referenced Image Sequence',
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92 'Source Image Sequence',
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93 'Referenced SOP Instance UID',
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94 'Frame of Reference UID',
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95 'Referenced Frame of Reference UID',
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96 'Related Frame of Reference UID',
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97 ]:
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98 FormatLine('// Tag (%s) => RelationshipsVisitor /* %s */' % (tag, profile), name)
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99 elif name in [
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100 'Patient\'s Name',
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101 'Patient ID',
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102 ]:
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103 FormatLine('// Tag (%s) is set below (*) /* %s */' % (tag, profile), name)
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104 elif profile == 'X':
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105 FormatLine('removals_.insert(DicomTag(%s));' % tag, name)
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106 elif profile.startswith('X/'):
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107 FormatLine('removals_.insert(DicomTag(%s)); /* %s */' % (tag, profile), name)
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108 elif profile == 'Z':
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109 FormatLine('clearings_.insert(DicomTag(%s));' % tag, name)
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110 elif profile == 'D' or profile.startswith('Z/'):
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111 FormatLine('clearings_.insert(DicomTag(%s)); /* %s */' % (tag, profile), name)
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112 elif profile == 'U':
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113 FormatLine('removals_.insert(DicomTag(%s)); /* TODO UID */' % (tag), name)
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114 else:
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115 FormatUnknown(rawTag, name, profile)
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116
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117 for line in sorted(LINES):
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118 print line
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119
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120
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121 # D - replace with a non-zero length value that may be a dummy value and consistent with the VR
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122 # Z - replace with a zero length value, or a non-zero length value that may be a dummy value and consistent with the VR
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123 # X - remove
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124 # K - keep (unchanged for non-sequence attributes, cleaned for sequences)
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125 # C - clean, that is replace with values of similar meaning known not to contain identifying information and consistent with the VR
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126 # U - replace with a non-zero length UID that is internally consistent within a set of Instances
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127 # Z/D - Z unless D is required to maintain IOD conformance (Type 2 versus Type 1)
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128 # X/Z - X unless Z is required to maintain IOD conformance (Type 3 versus Type 2)
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129 # X/D - X unless D is required to maintain IOD conformance (Type 3 versus Type 1)
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130 # X/Z/D - X unless Z or D is required to maintain IOD conformance (Type 3 versus Type 2 versus Type 1)
d19e716b79fa switch to anonymization according to DICOM 2017c
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2312
diff changeset
131 # X/Z/U* - X unless Z or replacement of contained instance UIDs (U) is required to maintain IOD conformance (Type 3 versus Type 2 versus Type 1 sequences containing UID references)