SimpleITK  1.3.0.dev466
ImageRegistrationMethod1/ImageRegistrationMethod1.py
1 #!/usr/bin/env python
2 #=========================================================================
3 #
4 # Copyright Insight Software Consortium
5 #
6 # Licensed under the Apache License, Version 2.0 (the "License");
7 # you may not use this file except in compliance with the License.
8 # You may obtain a copy of the License at
9 #
10 # http://www.apache.org/licenses/LICENSE-2.0.txt
11 #
12 # Unless required by applicable law or agreed to in writing, software
13 # distributed under the License is distributed on an "AS IS" BASIS,
14 # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
15 # See the License for the specific language governing permissions and
16 # limitations under the License.
17 #
18 #=========================================================================
19 
20 from __future__ import print_function
21 
22 import SimpleITK as sitk
23 import sys
24 import os
25 
26 
27 def command_iteration(method) :
28  print("{0:3} = {1:10.5f} : {2}".format(method.GetOptimizerIteration(),
29  method.GetMetricValue(),
30  method.GetOptimizerPosition()))
31 
32 if len ( sys.argv ) < 4:
33  print( "Usage: {0} <fixedImageFilter> <movingImageFile> <outputTransformFile>".format(sys.argv[0]))
34  sys.exit ( 1 )
35 
36 
37 fixed = sitk.ReadImage(sys.argv[1], sitk.sitkFloat32)
38 
39 moving = sitk.ReadImage(sys.argv[2], sitk.sitkFloat32)
40 
42 R.SetMetricAsMeanSquares()
43 R.SetOptimizerAsRegularStepGradientDescent(4.0, .01, 200 )
44 R.SetInitialTransform(sitk.TranslationTransform(fixed.GetDimension()))
45 R.SetInterpolator(sitk.sitkLinear)
46 
47 R.AddCommand( sitk.sitkIterationEvent, lambda: command_iteration(R) )
48 
49 outTx = R.Execute(fixed, moving)
50 
51 print("-------")
52 print(outTx)
53 print("Optimizer stop condition: {0}".format(R.GetOptimizerStopConditionDescription()))
54 print(" Iteration: {0}".format(R.GetOptimizerIteration()))
55 print(" Metric value: {0}".format(R.GetMetricValue()))
56 
57 sitk.WriteTransform(outTx, sys.argv[3])
58 
59 if ( not "SITK_NOSHOW" in os.environ ):
60 
61  resampler = sitk.ResampleImageFilter()
62  resampler.SetReferenceImage(fixed);
63  resampler.SetInterpolator(sitk.sitkLinear)
64  resampler.SetDefaultPixelValue(100)
65  resampler.SetTransform(outTx)
66 
67  out = resampler.Execute(moving)
68  simg1 = sitk.Cast(sitk.RescaleIntensity(fixed), sitk.sitkUInt8)
69  simg2 = sitk.Cast(sitk.RescaleIntensity(out), sitk.sitkUInt8)
70  cimg = sitk.Compose(simg1, simg2, simg1//2.+simg2//2.)
71  sitk.Show( cimg, "ImageRegistration1 Composition" )