annotate Tests/GuessPixelDataVR.py @ 648:810390d3968a large-queries

new hk2 tests
author Alain Mazy <am@orthanc.team>
date Tue, 21 May 2024 17:10:27 +0200
parents 6004be7f70a8
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
553
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
1 #!/usr/bin/env python3
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
2
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
3 import os
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
4 import sys
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
5 import pydicom
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
6
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
7 ROOT = os.path.join(os.path.dirname(__file__), '..', 'Database')
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
8
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
9 for root, dirs, files in os.walk(ROOT):
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
10 for f in files:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
11 path = os.path.join(root, f)
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
12
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
13 try:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
14 ds = pydicom.dcmread(path)
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
15 except:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
16 continue
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
17
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
18 ts = ds.file_meta.TransferSyntaxUID
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
19
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
20 if not 'PixelData' in ds:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
21 print(path, '=> no pixel data')
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
22 continue
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
23
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
24 print(path)
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
25
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
26 if ts == '1.2.840.10008.1.2':
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
27 # Implicit VR Endian
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
28 # https://dicom.nema.org/medical/dicom/current/output/chtml/part05/chapter_A.html#sect_A.1
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
29 assert(ds['PixelData'].VR == 'OW')
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
30
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
31 elif ts in [ '1.2.840.10008.1.2.1',
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
32 '1.2.840.10008.1.2.2' ]:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
33 # Explicit VR Little Endian
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
34 # https://dicom.nema.org/medical/dicom/current/output/chtml/part05/sect_A.2.html
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
35
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
36 # DICOM Big Endian Transfer Syntax (Explicit VR) - Retired, but same rule
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
37 # https://dicom.nema.org/medical/dicom/2016b/output/chtml/part05/sect_A.3.html
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
38
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
39 if f in [ 'PilatesArgenturGEUltrasoundOsiriX.dcm',
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
40 'KarstenHilbertRF.dcm',
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
41 'Issue143.dcm' ]:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
42 continue
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
43
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
44 if ds['BitsAllocated'].value <= 8:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
45 assert(ds['PixelData'].VR == 'OB')
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
46 else:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
47 assert(ds['PixelData'].VR == 'OW')
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
48
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
49 else:
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
50 if (('Beaufix/IM-' in path or
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
51 'Comunix/Ct/IM-' in path or
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
52 'Comunix/Pet/IM-' in path or
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
53 'Knee/T1/IM-' in path or
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
54 'Knee/T2/IM-' in path) and
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
55 ts == '1.2.840.10008.1.2.4.91'):
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
56 # JPEG2k should be "OB", but this is not the case of these modalities
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
57 continue
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
58
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
59 assert(ds['PixelData'].VR == 'OB')
6004be7f70a8 added GuessPixelDataVR.py
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
60