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#==========================================================================
#
# Copyright Insight Software Consortium
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0.txt
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
#==========================================================================*/
import itk
import sys
itk.auto_progress(2)
reader = itk.ImageFileReader.IF2.New()
reader.SetFileName(sys.argv[1])
diffusion = itk.GradientAnisotropicDiffusionImageFilter.IF2IF2.New()
diffusion.SetInput(reader.GetOutput())
diffusion.SetTimeStep(0.0625)
diffusion.SetConductanceParameter(9.0)
diffusion.SetNumberOfIterations(5)
gradient = itk.GradientMagnitudeImageFilter.IF2IF2.New()
gradient.SetInput(diffusion.GetOutput())
watershed = itk.WatershedImageFilter.IF2.New()
watershed.SetInput(gradient.GetOutput())
watershed.SetThreshold(0.01)
watershed.SetLevel(0.2)
relabel = itk.RelabelComponentImageFilter.IUL2ISS2.New()
relabel.SetInput(watershed.GetOutput())
cast = itk.CastImageFilter.ISS2IUC2.New()
cast.SetInput(relabel.GetOutput())
writer = itk.ImageFileWriter.IUC2.New()
writer.SetFileName(sys.argv[2])
writer.SetInput(cast.GetOutput())
writer.Update()
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