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annotate OrthancServer/Resources/GenerateAnonymizationProfile.py @ 5491:42e6593aa78e

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fix for Stone
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 10 Jan 2024 07:21:50 +0100
parents 48b8dae6dc77
children f7adfb22e20e
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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) 2017-2024 Osimis S.A., Belgium
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7 # Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium
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8 #
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9 # This program is free software: you can redistribute it and/or
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10 # modify it under the terms of the GNU General Public License as
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11 # published by the Free Software Foundation, either version 3 of the
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12 # License, or (at your option) any later version.
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13 #
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14 # This program is distributed in the hope that it will be useful, but
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15 # WITHOUT ANY WARRANTY; without even the implied warranty of
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16 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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17 # General Public License for more details.
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18 #
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19 # You should have received a copy of the GNU General Public License
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20 # along with this program. If not, see <http://www.gnu.org/licenses/>.
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23 import re
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24 import requests
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25 import sys
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26 import xml.etree.ElementTree as ET
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27
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28 # Usage:
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29 # ./GenerateAnonymizationProfile.py https://raw.githubusercontent.com/jodogne/dicom-specification/master/2023b/part15.xml > ../../OrthancFramework/Sources/DicomParsing/DicomModification_Anonymization2023b.impl.h
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30
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31 if len(sys.argv) != 2:
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32 raise Exception('Please provide the path or the URL to the part15.xml file from the DICOM standard')
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33
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34 source = sys.argv[1]
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35
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36 if (source.startswith('http://') or
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37 source.startswith('https://')):
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38 part15 = requests.get(source).content
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39 else:
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40 with open(source, 'r') as f:
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41 part15 = f.read()
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42
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43 root = ET.fromstring(part15)
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45 br = '{http://docbook.org/ns/docbook}' # Shorthand variable
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48 LINES = []
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49
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50 def FormatLine(command, name):
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51 indentation = 65
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52
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53 if len(command) > indentation:
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54 indentation = len(command) + 2
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55
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56 line = command + (' ' * (indentation - len(command))) + '// ' + name
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57 LINES.append(line)
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58
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59 def FormatUnknown(rawTag, name, profile):
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60 FormatLine('// TODO: %s with rule %s' % (rawTag, profile), name)
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62
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63 RAW_TAG_RE = re.compile(r'^\(\s*([0-9A-Fx]{4})\s*,\s*([0-9A-Fx]{4})\s*\)$')
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66 for table in root.iter('%stable' % br):
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67 if table.attrib['label'] == 'E.1-1':
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68 for row in table.find('%stbody' % br).iter('%str' % br):
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69 rawTag = row.find('%std[2]/%spara' % (br, br)).text
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70 name = row.find('%std[1]/%spara' % (br, br)).text
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71 profile = row.find('%std[5]/%spara' % (br, br)).text
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72
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73 if len(name.strip()) == 0:
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74 continue
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76 match = RAW_TAG_RE.match(rawTag)
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77 if match == None:
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78 raise Exception('Unsupported rule: %s, %s, %s' % (rawTag, profile, name))
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79 else:
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80 group = match.group(1).lower()
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81 element = match.group(2).lower()
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82 tag = '0x%s, 0x%s' % (group, element)
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83
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84 if 'x' in group or 'x' in element:
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85 if profile == 'X':
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86 groupFrom = group.replace('x', '0')
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87 groupTo = group.replace('x', 'f')
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88 elementFrom = element.replace('x', '0')
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89 elementTo = element.replace('x', 'f')
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90 FormatLine('removedRanges_.push_back(DicomTagRange(0x%s, 0x%s, 0x%s, 0x%s));' % (
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91 groupFrom, groupTo, elementFrom, elementTo), name)
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92 else:
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93 raise Exception('Unsupported rule: %s, %s, %s' % (rawTag, profile, name))
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94 elif tag in [
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95 '0x0008, 0x0018', # SOP Instance UID
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96 '0x0020, 0x000e', # Series Instance UID
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97 '0x0020, 0x000d', # Study Instance UID
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98 ]:
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99 FormatLine('// Tag (%s) is set in Apply() /* %s */' % (tag, profile), name)
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100 elif tag in [
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101 '0x0010, 0x0010', # Patient's Name
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102 '0x0010, 0x0020', # Patient ID
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103 ]:
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104 FormatLine('// Tag (%s) is set below (*) /* %s */' % (tag, profile), name)
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105 elif profile == 'U':
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106 FormatLine('uids_.insert(DicomTag(%s));' % (tag), name)
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107 elif profile == 'X/Z/U*':
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108 FormatLine('// RelationshipsVisitor handles (%s) /* %s */' % (tag, profile), name)
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109 elif profile == 'X':
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110 FormatLine('removals_.insert(DicomTag(%s));' % tag, name)
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111 elif profile.startswith('X/'):
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112 FormatLine('removals_.insert(DicomTag(%s)); /* %s */' % (tag, profile), name)
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113 elif profile == 'Z':
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114 FormatLine('clearings_.insert(DicomTag(%s));' % tag, name)
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115 elif profile == 'D' or profile.startswith('Z/'):
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116 FormatLine('clearings_.insert(DicomTag(%s)); /* %s */' % (tag, profile), name)
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117 else:
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118 # FormatUnknown(rawTag, name, profile)
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119 raise Exception('Unsupported rule: %s, %s, %s' % (rawTag, profile, name))
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120
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121 for line in sorted(LINES):
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122 print(line.encode('ascii', 'ignore').decode('ascii'))
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123
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124
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125 # D - replace with a non-zero length value that may be a dummy value and consistent with the VR
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126 # 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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127 # X - remove
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128 # K - keep (unchanged for non-sequence attributes, cleaned for sequences)
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129 # 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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130 # U - replace with a non-zero length UID that is internally consistent within a set of Instances
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131 # Z/D - Z unless D is required to maintain IOD conformance (Type 2 versus Type 1)
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132 # X/Z - X unless Z is required to maintain IOD conformance (Type 3 versus Type 2)
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133 # X/D - X unless D is required to maintain IOD conformance (Type 3 versus Type 1)
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134 # X/Z/D - X unless Z or D is required to maintain IOD conformance (Type 3 versus Type 2 versus Type 1)
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135 # 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)