SimpleITK  1.3.0.dev466
ImageRegistrationMethodBSpline2/ImageRegistrationMethodBSpline2.R
#=========================================================================
#
# 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.
#
#=========================================================================
# Run with:
#
# Rscript --vanilla ImageRegistrationMethodBSpline2.R fixedImageFilter movingImageFile outputTransformFile
#
library(SimpleITK)
commandIteration <- function(method)
{
msg <- paste(method$GetOptimizerIteration(), "=",
method$GetMetricValue(), "\n\t#:",
method$GetOptimizerPosition(), '\n')
cat(msg)
}
commandMultiIteration <- function(method)
{
msg <- paste("--------- Resolution Changing ---------\n")
cat(msg)
}
args <- commandArgs( TRUE )
if (length(args) != 3) {
stop("3 arguments expected - fixedImageFilter, movingImageFile, outputTransformFile")
}
fixed <- ReadImage(args[[1]], 'sitkFloat32')
moving <- ReadImage(args[[2]], 'sitkFloat32')
transformDomainMeshSize <- rep(10, moving$GetDimension())
tx <- BSplineTransformInitializer(fixed, transformDomainMeshSize)
cat("Initial Parameters:\n", tx$GetParameters())
R <- ImageRegistrationMethod()
R$SetMetricAsMattesMutualInformation(50)
R$SetOptimizerAsGradientDescentLineSearch(5.0, 100,
convergenceMinimumValue=1e-4,
convergenceWindowSize=5)
R$SetOptimizerScalesFromPhysicalShift()
R$SetInitialTransform(tx)
R$SetInterpolator('sitkLinear')
R$SetShrinkFactorsPerLevel(c(6,2,1))
R$SetSmoothingSigmasPerLevel(c(6,2,1))
R$AddCommand( 'sitkIterationEvent', function() commandIteration(R) )
R$AddCommand( 'sitkMultiResolutionIterationEvent', function() commandMultiIteration(R) )
outTx <- R$Execute(fixed, moving)
cat("-------\n")
outTx
cat("Optimizer stop condition:", R$GetOptimizerStopConditionDescription(), '\n')
cat(" Iteration:", R$GetOptimizerIteration(), '\n')
cat(" Metric value:", R$GetMetricValue(), '\n')
WriteTransform(outTx, args[[3]])