Elastix 配准过程 文件
work\elastix\4.7\elastix_windows64_v4.7
中 cmd 运行 example.bat
自动生成exampleoutput路径：
TransformParameters.0.txt
TransformParameters.1.txt
Installing all components.
InstallingComponents was successful.
WARNING: The parameter "ResampleInterpolat
or", requested at entry number 0, does not exist at all.
The default value "FinalBSplineInterpolator" is used instead.
ELASTIX version: 4.801
Command line options from ElastixBase:
-fMask unspecified, so no fixed mask used
-mMask unspecified, so no moving mask used
-out output_path_not_set
-priority unspecified, so NORMAL process priority
-threads unspecified, so all available threads are used
WARNING: The parameter "UseDirectionCosines", requested at entry number 0, does not exist at all.
The default value "true" is used instead.
WARNING: The option "UseDirectionCosines" was not found in your parameter file.
From elastix 4.8 it defaults to true!
This may change the behavior of your registrations considerably.
Command line options from TransformBase:
-t0 unspecified, so no initial transform used
Reading images...
Reading images took 1 ms.
WARNING: the fixed pyramid schedule is not fully specified!
A default pyramid schedule is used.
WARNING: the moving pyramid schedule is not fully specified!
A default pyramid schedule is used.
Transform parameters are initialized as: [0, 0, 0, 0, 0, 0]
Scales are estimated automatically.
Scales for transform parameters are: [20307.656799316406, 20467.985001752284, 21932.985396196942, 1, 1, 1]
WARNING: The parameter "FinalBSplineInterpolationOrder", requested at entry number 0, does not exist at all.
The default value "3" is used instead.
Initialization of all components (before registration) took: 79 ms.
Preparation of the image pyramids took: 2245 ms.
Resolution: 0
ERROR: File "output_path_not_set\IterationInfo.0.R0.txt" could not be opened!
WARNING: The parameter "ShowExactMetricValue", requested at entry number 0, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "CheckNumberOfSamples", requested at entry number 0, does not exist at all.
The default value "true" is used instead.
WARNING: The parameter "UseMultiThreadingForMetrics", requested at entry number 0, does not exist at all.
The default value "true" is used instead.
Setting the fixed masks took: 0 ms.
Setting the moving masks took: 0 ms.
WARNING: The parameter "NumberOfFixedHistogramBins", requested at entry number 0, does not exist at all.
The default value "64" is used instead.
WARNING: The parameter "NumberOfMovingHistogramBins", requested at entry number 0, does not exist at all.
The default value "64" is used instead.
WARNING: The parameter "FixedLimitRangeRatio", requested at entry number 0, does not exist at all.
The default value "0.01" is used instead.
WARNING: The parameter "MovingLimitRangeRatio", requested at entry number 0, does not exist at all.
The default value "0.01" is used instead.
WARNING: The parameter "UseFastAndLowMemoryVersion", requested at entry number 0, does not exist at all.
The default value "true" is used instead.
WARNING: The parameter "UseJacobianPreconditioning", requested at entry number 0, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "FiniteDifferenceDerivative", requested at entry number 0, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "SP_A", requested at entry number 0, does not exist at all.
The default value "20" is used instead.
WARNING: The parameter "MaximumNumberOfSamplingAttempts", requested at entry number 0, does not exist at all.
The default value "0" is used instead.
WARNING: The parameter "SigmoidInitialTime", requested at entry number 0, does not exist at all.
The default value "0" is used instead.
WARNING: The parameter "MaxBandCovSize", requested at entry number 0, does not exist at all.
The default value "192" is used instead.
WARNING: The parameter "NumberOfBandStructureSamples", requested at entry number 0, does not exist at all.
The default value "10" is used instead.
WARNING: The parameter "AutomaticParameterEstimation", requested at entry number 0, does not exist at all.
The default value "true" is used instead.
WARNING: The parameter "UseConstantStep", requested at entry number 0, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "MaximumStepLength", requested at entry number 0, does not exist at all.
The default value "0.644531" is used instead.
WARNING: The parameter "NumberOfGradientMeasurements", requested at entry number 0, does not exist at all.
The default value "0" is used instead.
WARNING: The parameter "NumberOfJacobianMeasurements", requested at entry number 0, does not exist at all.
The default value "1000" is used instead.
WARNING: The parameter "NumberOfSamplesForExactGradient", requested at entry number 0, does not exist at all.
The default value "100000" is used instead.
WARNING: The parameter "SigmoidScaleFactor", requested at entry number 0, does not exist at all.
The default value "0.1" is used instead.
Elastix initialization of all components (for this resolution) took: 362 ms.
Initialization of AdvancedMattesMutualInformation metric took: 108 ms.
Starting automatic parameter estimation for AdaptiveStochasticGradientDescent ...
WARNING: The parameter "ASGDParameterEstimationMethod", requested at entry number 0, does not exist at all.
The default value "Original" is used instead.
Computing JacobianTerms ...
Computing the Jacobian terms took 0.003550s
NumberOfGradientMeasurements to estimate sigma_i: 6
Sampling gradients ...
Sampling the gradients took 5.129143s
Automatic parameter estimation took 5.37s
1:ItNr 2:Metric 3a:Time 3b:StepSize 4:||Gradient|| Time[ms]
0 -0.603829 0.000000 6.620830 0.035737 5801.1
1 -0.618404 0.000000 6.620830 0.017310 154.4
2 -0.601744 0.354611 6.510886 0.020102 290.4
3 -0.611541 0.000000 6.620830 0.030230 147.9
4 -0.615908 0.000000 6.620830 0.028257 140.0
5 -0.612848 0.000000 6.620830 0.018265 145.6
6 -0.603083 0.999296 6.320085 0.014969 201.2
7 -0.595240 0.299110 6.527852 0.013688 132.2
8 -0.606773 1.298886 6.235174 0.012052 109.5
9 -0.617754 2.298223 5.967727 0.043594 122.6
10 -0.589116 1.598072 6.152624 0.019090 106.6
11 -0.609391 0.897885 6.349354 0.014567 98.8
中间略过....
496 -0.684972 50.329571 1.949226 0.012318 75.5
497 -0.676327 49.630069 1.968530 0.013293 73.2
498 -0.659570 49.700812 1.966561 0.022283 75.9
499 -0.663538 50.637003 1.940861 0.011277 74.6
Time spent in resolution 0 (ITK initialization and iterating): 112.005 s.
Stopping condition: Maximum number of iterations has been reached.
Settings of AdaptiveStochasticGradientDescent in resolution 0:
( SP_a 139.037431 )
( SP_A 20.000000 )
( SP_alpha 1.000000 )
( SigmoidMax 1.000000 )
( SigmoidMin -0.700186 )
( SigmoidScale 0.000014 )
第二层配准：
Resolution: 1
ERROR: File "output_path_not_set\IterationInfo.0.R1.txt" could not be opened!
WARNING: The parameter "ShowExactMetricValue", requested at entry number 1, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "CheckNumberOfSamples", requested at entry number 1, does not exist at all.
The default value "true" is used instead.
WARNING: The parameter "UseMultiThreadingForMetrics", requested at entry number 1, does not exist at all.
The default value "true" is used instead.
Setting the fixed masks took: 0 ms.
Setting the moving masks took: 0 ms.
WARNING: The parameter "NumberOfFixedHistogramBins", requested at entry number 1, does not exist at all.
The default value "64" is used instead.
WARNING: The parameter "NumberOfMovingHistogramBins", requested at entry number 1, does not exist at all.
The default value "64" is used instead.
WARNING: The parameter "FixedLimitRangeRatio", requested at entry number 1, does not exist at all.
The default value "0.01" is used instead.
WARNING: The parameter "MovingLimitRangeRatio", requested at entry number 1, does not exist at all.
The default value "0.01" is used instead.
WARNING: The parameter "UseFastAndLowMemoryVersion", requested at entry number 1, does not exist at all.
The default value "true" is used instead.
WARNING: The parameter "UseJacobianPreconditioning", requested at entry number 1, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "FiniteDifferenceDerivative", requested at entry number 1, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "SP_A", requested at entry number 1, does not exist at all.
The default value "20" is used instead.
WARNING: The parameter "MaximumNumberOfSamplingAttempts", requested at entry number 1, does not exist at all.
The default value "0" is used instead.
WARNING: The parameter "SigmoidInitialTime", requested at entry number 1, does not exist at all.
The default value "0" is used instead.
WARNING: The parameter "MaxBandCovSize", requested at entry number 1, does not exist at all.
The default value "192" is used instead.
WARNING: The parameter "NumberOfBandStructureSamples", requested at entry number 1, does not exist at all.
The default value "10" is used instead.
WARNING: The parameter "AutomaticParameterEstimation", requested at entry number 1, does not exist at all.
The default value "true" is used instead.
WARNING: The parameter "UseConstantStep", requested at entry number 1, does not exist at all.
The default value "false" is used instead.
WARNING: The parameter "MaximumStepLength", requested at entry number 1, does not exist at all.
The default value "0.644531" is used instead.
WARNING: The parameter "NumberOfGradientMeasurements", requested at entry number 1, does not exist at all.
The default value "0" is used instead.
WARNING: The parameter "NumberOfJacobianMeasurements", requested at entry number 1, does not exist at all.
The default value "1000" is used instead.
WARNING: The parameter "NumberOfSamplesForExactGradient", requested at entry number 1, does not exist at all.
The default value "100000" is used instead.
WARNING: The parameter "SigmoidScaleFactor", requested at entry number 1, does not exist at all.
The default value "0.1" is used instead.
Elastix initialization of all components (for this resolution) took: 367 ms.
Initialization of AdvancedMattesMutualInformation metric took: 993 ms.
Starting automatic parameter estimation for AdaptiveStochasticGradientDescent ...
WARNING: The parameter "ASGDParameterEstimationMethod", requested at entry number 0, does not exist at all.
The default value "Original" is used instead.
Computing JacobianTerms ...
Computing the Jacobian terms took 0.008164s
NumberOfGradientMeasurements to estimate sigma_i: 6
Sampling gradients ...
Sampling the gradients took 3.880090s
Automatic parameter estimation took 4.39s
1:ItNr 2:Metric 3a:Time 3b:StepSize 4:||Gradient|| Time[ms]
0 -0.503712 0.000000 5.420294 0.021302 5709.7
1 -0.519788 0.000000 5.420294 0.011595 99.3
2 -0.508978 0.203281 5.368328 0.013123 103.4
3 -0.528191 0.000000 5.420294 0.014439 103.8
4 -0.496078 0.000000 5.420294 0.015732 104.1
5 -0.506901 0.999842 5.173954 0.016209 126.1
6 -0.532203 1.998912 4.949198 0.017920 107.3
7 -0.519148 2.998897 4.742975 0.012644 107.3
8 -0.493539 3.998838 4.553259 0.018460 104.7
9 -0.510999 3.145435 4.714190 0.014446 110.2
10 -0.510662 2.292035 4.886914 0.019133 117.1
11 -0.499323 2.902048 4.762193 0.014657 110.9
12 -0.530187 3.900341 4.571270 0.005722 114.1
13 -0.529421 3.076567 4.727675 0.011831 117.8
14 -0.545803 2.419707 4.860273 0.016609 121.3
15 -0.512115 1.566584 5.044014 0.012531 122.8
16 -0.505436 2.550274 4.833327 0.015796 138.7
17 -0.520144 1.696865 5.015062 0.008069 132.4
18 -0.526575 2.680799 4.806687 0.008088 165.5
19 -0.521542 3.629595 4.621520 0.014792 122.2
496 -0.534564 18.284854 2.897457 0.015286 106.2
497 -0.535960 17.854336 2.929562 0.007900 104.7
498 -0.537392 18.336387 2.893661 0.013080 97.6
499 -0.536334 19.323855 2.822800 0.020093 103.8
Time spent in resolution 1 (ITK initialization and iterating): 364.469 s.
Stopping condition: Maximum number of iterations has been reached.
Settings of AdaptiveStochasticGradientDescent in resolution 1:
( SP_a 113.826178 )
( SP_A 20.000000 )
( SP_alpha 1.000000 )
( SigmoidMax 1.000000 )
( SigmoidMin -0.853412 )
( SigmoidScale 0.000012 )
Registration result checksum: 691526154
Final metric value = -0.536334
Settings of AdaptiveStochasticGradientDescent for all resolutions:
( SP_a 139.037431 113.826178 )
( SP_A 20.000000 20.000000 )
( SP_alpha 1.000000 1.000000 )
( SigmoidMax 1.000000 1.000000 )
( SigmoidMin -0.700186 -0.853412 )
( SigmoidScale 0.000014 0.000012 )
Time spent on saving the results, applying the final transform etc.: 39 ms.
(Transform "EulerTransform")
(NumberOfParameters 3)
(TransformParameters -0.000178 -1.424628 -0.461868)
(InitialTransformParametersFileName "NoInitialTransform")
(HowToCombineTransforms "Compose")
// Image specific
(FixedImageDimension 2)
(MovingImageDimension 2)
(FixedInternalImagePixelType "float")
(MovingInternalImagePixelType "float")
(Size 256 256)
(Index 0 0)
(Spacing 1.0000000000 1.0000000000)
(Origin 0.0000000000 0.0000000000)
(Direction 1.0000000000 0.0000000000 0.0000000000 1.0000000000)
(UseDirectionCosines "true")
// EulerTransform specific
(CenterOfRotationPoint 127.5000000000 127.5000000000)
// ResampleInterpolator specific
(ResampleInterpolator "FinalBSplineInterpolator")
(FinalBSplineInterpolationOrder 3)
// Resampler specific
(Resampler "DefaultResampler")
(DefaultPixelValue 0.000000)
(ResultImageFormat "mhd")
(ResultImagePixelType "short")
(CompressResultImage "false")(Transform "BSplineTransform")
(NumberOfParameters 722)
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3.303914 -0.293413 -3.395393 -4.791059 -5.525470 -5.388663 -5.457763 -5.651818 -5.030289 -3.779626 -1.216955 2.796333 0.412170 1.977772 4.343635 1.665250 -2.949788 -1.723266 -2.038868 1.410657 -1.227989 -3.588951 -4.800098 -5.537406 -5.391021 -5.042687 -5.418429 -4.894212 -3.738298 -1.910949 0.530025 0.403036 2.485423 -4.108577 6.431977 3.574931 0.357706 -4.191449 -7.127765 -4.720383 -4.381197 -4.920362 -5.465416 -5.275857 -4.551994 -5.094303 -4.665762 -3.821774 -2.569077 -1.551708 -2.740241 -2.007746 -2.710926 2.014191 2.443109 0.649396 -2.579619 -5.545824 -5.299243 -4.900675 -5.092487 -5.312958 -5.027621 -4.076468 -4.645640 -4.392586 -3.884793 -3.149200 -2.787350 -3.647165 -4.281798 -2.989016 -1.307309 -0.715204 -1.328664 -3.256158 -4.915648 -5.134740 -4.863261 -4.988565 -5.134724 -4.733023 -2.763624 -3.251033 -3.207432 -3.067273 -2.861244 -2.799529 -3.059140 -3.271614 -3.013550 -2.538976 -2.084266 -1.980492 -2.556963 -3.226087 -3.499139 -3.617384 -3.805748 -3.928953 -3.574482)
(InitialTransformParametersFileName "exampleoutput\TransformParameters.0.txt")
(HowToCombineTransforms "Compose")
// Image specific
(FixedImageDimension 2)
(MovingImageDimension 2)
(FixedInternalImagePixelType "float")
(MovingInternalImagePixelType "float")
(Size 256 256)
(Index 0 0)
(Spacing 1.0000000000 1.0000000000)
(Origin 0.0000000000 0.0000000000)
(Direction 1.0000000000 0.0000000000 0.0000000000 1.0000000000)
(UseDirectionCosines "true")
// BSplineTransform specific
(GridSize 19 19)
(GridIndex 0 0)
(GridSpacing 16.0028513433 16.0028513433)
(GridOrigin -17.9502905293 -16.9875303662)
(GridDirection 1.0000000000 0.0000000000 0.0000000000 1.0000000000)
(BSplineTransformSplineOrder 3)
(UseCyclicTransform "false")
// ResampleInterpolator specific
(ResampleInterpolator "FinalBSplineInterpolator")
(FinalBSplineInterpolationOrder 3)
// Resampler specific
(Resampler "DefaultResampler")
(DefaultPixelValue 0.000000)
(ResultImageFormat "mhd")
(ResultImagePixelType "short")
(CompressResultImage "false")