ITK  5.2.0
Insight Toolkit
SphinxExamples/src/Filtering/ImageFeature/SegmentBloodVessels/Code.py
1 #!/usr/bin/env python
2 
3 # Copyright NumFOCUS
4 #
5 # Licensed under the Apache License, Version 2.0 (the "License");
6 # you may not use this file except in compliance with the License.
7 # You may obtain a copy of the License at
8 #
9 # http://www.apache.org/licenses/LICENSE-2.0.txt
10 #
11 # Unless required by applicable law or agreed to in writing, software
12 # distributed under the License is distributed on an "AS IS" BASIS,
13 # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
14 # See the License for the specific language governing permissions and
15 # limitations under the License.
16 
17 import argparse
18 
19 import itk
20 from distutils.version import StrictVersion as VS
21 if VS(itk.Version.GetITKVersion()) < VS("5.0.0"):
22  print("ITK 5.0.0 or newer is required.")
23  sys.exit(1)
24 
25 parser = argparse.ArgumentParser(description='Segment blood vessels.')
26 parser.add_argument('input_image')
27 parser.add_argument('output_image')
28 parser.add_argument('--sigma', type=float, default=1.0)
29 parser.add_argument('--alpha1', type=float, default=0.5)
30 parser.add_argument('--alpha2', type=float, default=2.0)
31 args = parser.parse_args()
32 
33 input_image = itk.imread(args.input_image, itk.ctype('float'))
34 
35 hessian_image = itk.hessian_recursive_gaussian_image_filter(input_image, sigma=args.sigma)
36 
37 vesselness_filter = itk.Hessian3DToVesselnessMeasureImageFilter[itk.ctype('float')].New()
38 vesselness_filter.SetInput(hessian_image)
39 vesselness_filter.SetAlpha1(args.alpha1)
40 vesselness_filter.SetAlpha2(args.alpha2)
41 
42 itk.imwrite(vesselness_filter, args.output_image)
itk::Version::GetITKVersion
static const char * GetITKVersion()
itk::Hessian3DToVesselnessMeasureImageFilter
Line filter to provide a vesselness measure for tubular objects from the hessian matrix.
Definition: itkHessian3DToVesselnessMeasureImageFilter.h:77