ITK  5.4.0
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 # https://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 
22 if VS(itk.Version.GetITKVersion()) < VS("5.0.0"):
23  print("ITK 5.0.0 or newer is required.")
24  sys.exit(1)
25 
26 parser = argparse.ArgumentParser(description="Segment blood vessels.")
27 parser.add_argument("input_image")
28 parser.add_argument("output_image")
29 parser.add_argument("--sigma", type=float, default=1.0)
30 parser.add_argument("--alpha1", type=float, default=0.5)
31 parser.add_argument("--alpha2", type=float, default=2.0)
32 args = parser.parse_args()
33 
34 input_image = itk.imread(args.input_image, itk.ctype("float"))
35 
36 hessian_image = itk.hessian_recursive_gaussian_image_filter(
37  input_image, sigma=args.sigma
38 )
39 
41  itk.ctype("float")
42 ].New()
43 vesselness_filter.SetInput(hessian_image)
44 vesselness_filter.SetAlpha1(args.alpha1)
45 vesselness_filter.SetAlpha2(args.alpha2)
46 
47 itk.imwrite(vesselness_filter, args.output_image)
itk::Version::GetITKVersion
static const char * GetITKVersion()
New
static Pointer New()
itk::Hessian3DToVesselnessMeasureImageFilter
Line filter to provide a vesselness measure for tubular objects from the hessian matrix.
Definition: itkHessian3DToVesselnessMeasureImageFilter.h:77