def test_BRAINSFit_outputs():
output_map = dict(outputVolume=dict(),
bsplineTransform=dict(),
outputTransform=dict(),
outputFixedVolumeROI=dict(),
strippedOutputTransform=dict(),
outputMovingVolumeROI=dict(),
linearTransform=dict(),
)
outputs = BRAINSFit.output_spec()
for key, metadata in output_map.items():
for metakey, value in metadata.items():
yield assert_equal, getattr(outputs.traits()[key], metakey), value
def test_BRAINSFit_outputs():
output_map = dict(bsplineTransform=dict(),
linearTransform=dict(),
outputFixedVolumeROI=dict(),
outputMovingVolumeROI=dict(),
outputTransform=dict(),
outputVolume=dict(),
strippedOutputTransform=dict(),
)
outputs = BRAINSFit.output_spec()
for key, metadata in output_map.items():
for metakey, value in metadata.items():
yield assert_equal, getattr(outputs.traits()[key], metakey), value
def test_BRAINSFit_inputs():
input_map = dict(initialTransform=dict(argstr='--initialTransform %s',
),
permitParameterVariation=dict(argstr='--permitParameterVariation %s',
sep=',',
),
costFunctionConvergenceFactor=dict(argstr='--costFunctionConvergenceFactor %f',
),
medianFilterSize=dict(argstr='--medianFilterSize %s',
sep=',',
),
backgroundFillValue=dict(argstr='--backgroundFillValue %f',
),
relaxationFactor=dict(argstr='--relaxationFactor %f',
),
translationScale=dict(argstr='--translationScale %f',
),
bsplineTransform=dict(hash_files=False,
argstr='--bsplineTransform %s',
),
numberOfMatchPoints=dict(argstr='--numberOfMatchPoints %d',
),
numberOfIterations=dict(argstr='--numberOfIterations %s',
sep=',',
),
histogramMatch=dict(argstr='--histogramMatch ',
),
failureExitCode=dict(argstr='--failureExitCode %d',
),
NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_02=dict(argstr='--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_02 ',
),
maskProcessingMode=dict(argstr='--maskProcessingMode %s',
),
maskInferiorCutOffFromCenter=dict(argstr='--maskInferiorCutOffFromCenter %f',
),
NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_01=dict(argstr='--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_01 ',
),
reproportionScale=dict(argstr='--reproportionScale %f',
),
skewScale=dict(argstr='--skewScale %f',
),
NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_00=dict(argstr='--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_00 ',
),
fixedVolume=dict(argstr='--fixedVolume %s',
),
costMetric=dict(argstr='--costMetric %s',
),
useCachingOfBSplineWeightsMode=dict(argstr='--useCachingOfBSplineWeightsMode %s',
),
useScaleSkewVersor3D=dict(argstr='--useScaleSkewVersor3D ',
),
useExplicitPDFDerivativesMode=dict(argstr='--useExplicitPDFDerivativesMode %s',
),
outputTransform=dict(hash_files=False,
argstr='--outputTransform %s',
),
useBSpline=dict(argstr='--useBSpline ',
),
fixedVolumeTimeIndex=dict(argstr='--fixedVolumeTimeIndex %d',
),
promptUser=dict(argstr='--promptUser ',
),
environ=dict(nohash=True,
usedefault=True,
),
linearTransform=dict(hash_files=False,
argstr='--linearTransform %s',
),
maxBSplineDisplacement=dict(argstr='--maxBSplineDisplacement %f',
),
numberOfHistogramBins=dict(argstr='--numberOfHistogramBins %d',
),
outputMovingVolumeROI=dict(hash_files=False,
argstr='--outputMovingVolumeROI %s',
),
ignore_exception=dict(nohash=True,
usedefault=True,
),
outputVolume=dict(hash_files=False,
argstr='--outputVolume %s',
),
projectedGradientTolerance=dict(argstr='--projectedGradientTolerance %f',
),
movingVolume=dict(argstr='--movingVolume %s',
),
fixedBinaryVolume=dict(argstr='--fixedBinaryVolume %s',
),
args=dict(argstr='%s',
),
splineGridSize=dict(argstr='--splineGridSize %s',
sep=',',
),
initializeTransformMode=dict(argstr='--initializeTransformMode %s',
),
movingBinaryVolume=dict(argstr='--movingBinaryVolume %s',
),
outputVolumePixelType=dict(argstr='--outputVolumePixelType %s',
),
terminal_output=dict(mandatory=True,
nohash=True,
),
numberOfThreads=dict(argstr='--numberOfThreads %d',
),
writeTransformOnFailure=dict(argstr='--writeTransformOnFailure ',
),
debugLevel=dict(argstr='--debugLevel %d',
),
useScaleVersor3D=dict(argstr='--useScaleVersor3D ',
),
minimumStepLength=dict(argstr='--minimumStepLength %s',
sep=',',
),
transformType=dict(argstr='--transformType %s',
sep=',',
),
scaleOutputValues=dict(argstr='--scaleOutputValues ',
),
useAffine=dict(argstr='--useAffine ',
),
gui=dict(argstr='--gui ',
),
ROIAutoDilateSize=dict(argstr='--ROIAutoDilateSize %f',
),
numberOfSamples=dict(argstr='--numberOfSamples %d',
),
interpolationMode=dict(argstr='--interpolationMode %s',
),
maximumStepLength=dict(argstr='--maximumStepLength %f',
),
forceMINumberOfThreads=dict(argstr='--forceMINumberOfThreads %d',
),
strippedOutputTransform=dict(hash_files=False,
argstr='--strippedOutputTransform %s',
),
movingVolumeTimeIndex=dict(argstr='--movingVolumeTimeIndex %d',
),
ROIAutoClosingSize=dict(argstr='--ROIAutoClosingSize %f',
),
useRigid=dict(argstr='--useRigid ',
),
outputFixedVolumeROI=dict(hash_files=False,
argstr='--outputFixedVolumeROI %s',
),
removeIntensityOutliers=dict(argstr='--removeIntensityOutliers %f',
),
)
inputs = BRAINSFit.input_spec()
for key, metadata in input_map.items():
for metakey, value in metadata.items():
yield assert_equal, getattr(inputs.traits()[key], metakey), value
def test_BRAINSFit_inputs():
input_map = dict(NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_00=dict(argstr='--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_00 ',
),
NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_01=dict(argstr='--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_01 ',
),
NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_02=dict(argstr='--NEVER_USE_THIS_FLAG_IT_IS_OUTDATED_02 ',
),
ROIAutoClosingSize=dict(argstr='--ROIAutoClosingSize %f',
),
ROIAutoDilateSize=dict(argstr='--ROIAutoDilateSize %f',
),
args=dict(argstr='%s',
),
backgroundFillValue=dict(argstr='--backgroundFillValue %f',
),
bsplineTransform=dict(argstr='--bsplineTransform %s',
hash_files=False,
),
costFunctionConvergenceFactor=dict(argstr='--costFunctionConvergenceFactor %f',
),
costMetric=dict(argstr='--costMetric %s',
),
debugLevel=dict(argstr='--debugLevel %d',
),
environ=dict(nohash=True,
usedefault=True,
),
failureExitCode=dict(argstr='--failureExitCode %d',
),
fixedBinaryVolume=dict(argstr='--fixedBinaryVolume %s',
),
fixedVolume=dict(argstr='--fixedVolume %s',
),
fixedVolumeTimeIndex=dict(argstr='--fixedVolumeTimeIndex %d',
),
forceMINumberOfThreads=dict(argstr='--forceMINumberOfThreads %d',
),
gui=dict(argstr='--gui ',
),
histogramMatch=dict(argstr='--histogramMatch ',
),
ignore_exception=dict(nohash=True,
usedefault=True,
),
initialTransform=dict(argstr='--initialTransform %s',
),
initializeTransformMode=dict(argstr='--initializeTransformMode %s',
),
interpolationMode=dict(argstr='--interpolationMode %s',
),
linearTransform=dict(argstr='--linearTransform %s',
hash_files=False,
),
maskInferiorCutOffFromCenter=dict(argstr='--maskInferiorCutOffFromCenter %f',
),
maskProcessingMode=dict(argstr='--maskProcessingMode %s',
),
maxBSplineDisplacement=dict(argstr='--maxBSplineDisplacement %f',
),
maximumStepLength=dict(argstr='--maximumStepLength %f',
),
medianFilterSize=dict(argstr='--medianFilterSize %s',
sep=',',
),
minimumStepLength=dict(argstr='--minimumStepLength %s',
sep=',',
),
movingBinaryVolume=dict(argstr='--movingBinaryVolume %s',
),
movingVolume=dict(argstr='--movingVolume %s',
),
movingVolumeTimeIndex=dict(argstr='--movingVolumeTimeIndex %d',
),
numberOfHistogramBins=dict(argstr='--numberOfHistogramBins %d',
),
numberOfIterations=dict(argstr='--numberOfIterations %s',
sep=',',
),
numberOfMatchPoints=dict(argstr='--numberOfMatchPoints %d',
),
numberOfSamples=dict(argstr='--numberOfSamples %d',
),
numberOfThreads=dict(argstr='--numberOfThreads %d',
),
outputFixedVolumeROI=dict(argstr='--outputFixedVolumeROI %s',
hash_files=False,
),
outputMovingVolumeROI=dict(argstr='--outputMovingVolumeROI %s',
hash_files=False,
),
outputTransform=dict(argstr='--outputTransform %s',
hash_files=False,
),
outputVolume=dict(argstr='--outputVolume %s',
hash_files=False,
),
outputVolumePixelType=dict(argstr='--outputVolumePixelType %s',
),
permitParameterVariation=dict(argstr='--permitParameterVariation %s',
sep=',',
),
projectedGradientTolerance=dict(argstr='--projectedGradientTolerance %f',
),
promptUser=dict(argstr='--promptUser ',
),
relaxationFactor=dict(argstr='--relaxationFactor %f',
),
removeIntensityOutliers=dict(argstr='--removeIntensityOutliers %f',
),
reproportionScale=dict(argstr='--reproportionScale %f',
),
scaleOutputValues=dict(argstr='--scaleOutputValues ',
),
skewScale=dict(argstr='--skewScale %f',
),
splineGridSize=dict(argstr='--splineGridSize %s',
sep=',',
),
strippedOutputTransform=dict(argstr='--strippedOutputTransform %s',
hash_files=False,
),
terminal_output=dict(mandatory=True,
nohash=True,
),
transformType=dict(argstr='--transformType %s',
sep=',',
),
translationScale=dict(argstr='--translationScale %f',
),
useAffine=dict(argstr='--useAffine ',
),
useBSpline=dict(argstr='--useBSpline ',
),
useCachingOfBSplineWeightsMode=dict(argstr='--useCachingOfBSplineWeightsMode %s',
),
useExplicitPDFDerivativesMode=dict(argstr='--useExplicitPDFDerivativesMode %s',
),
useRigid=dict(argstr='--useRigid ',
),
useScaleSkewVersor3D=dict(argstr='--useScaleSkewVersor3D ',
),
useScaleVersor3D=dict(argstr='--useScaleVersor3D ',
),
writeTransformOnFailure=dict(argstr='--writeTransformOnFailure ',
),
)
inputs = BRAINSFit.input_spec()
for key, metadata in input_map.items():
for metakey, value in metadata.items():
yield assert_equal, getattr(inputs.traits()[key], metakey), value
