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BF: ANTS LaplacianThickness cmdline opts fixed up #2846

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Merged
merged 1 commit into from
Jan 16, 2019
Merged

BF: ANTS LaplacianThickness cmdline opts fixed up #2846

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26 changes: 20 additions & 6 deletions nipype/interfaces/ants/segmentation.py
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Original file line number Diff line number Diff line change
Expand Up @@ -207,13 +207,27 @@ class LaplacianThicknessInputSpec(ANTSCommandInputSpec):
name_template='%s_thickness',
keep_extension=True,
hash_files=False)
smooth_param = traits.Float(argstr='smoothparam=%d', desc='', position=4)
smooth_param = traits.Float(
argstr='%f',
desc='Sigma of the Laplacian Recursive Image Filter (defaults to 1)',
position=4)
prior_thickness = traits.Float(
argstr='priorthickval=%d', desc='', position=5)
dT = traits.Float(argstr='dT=%d', desc='', position=6)
sulcus_prior = traits.Bool(argstr='use-sulcus-prior', desc='', position=7)
opt_tolerance = traits.Float(
argstr='optional-laplacian-tolerance=%d', desc='', position=8)
argstr='%f',
desc='Prior thickness (defaults to 500)',
position=5)
dT = traits.Float(
argstr='%f',
desc='Time delta used during integration (defaults to 0.01)',
position=6)
sulcus_prior = traits.Float(
argstr='%f',
desc='Positive floating point number for sulcus prior. '
'Authors said that 0.15 might be a reasonable value',
position=7)
tolerance = traits.Float(
argstr='%f',
desc='Tolerance to reach during optimization (defaults to 0.001)',
position=8)


class LaplacianThicknessOutputSpec(TraitedSpec):
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16 changes: 8 additions & 8 deletions nipype/interfaces/ants/tests/test_auto_LaplacianThickness.py
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Original file line number Diff line number Diff line change
Expand Up @@ -7,7 +7,7 @@ def test_LaplacianThickness_inputs():
input_map = dict(
args=dict(argstr='%s', ),
dT=dict(
argstr='dT=%d',
argstr='%f',
position=6,
),
environ=dict(
Expand All @@ -30,10 +30,6 @@ def test_LaplacianThickness_inputs():
nohash=True,
usedefault=True,
),
opt_tolerance=dict(
argstr='optional-laplacian-tolerance=%d',
position=8,
),
output_image=dict(
argstr='%s',
hash_files=False,
Expand All @@ -43,17 +39,21 @@ def test_LaplacianThickness_inputs():
position=3,
),
prior_thickness=dict(
argstr='priorthickval=%d',
argstr='%f',
position=5,
),
smooth_param=dict(
argstr='smoothparam=%d',
argstr='%f',
position=4,
),
sulcus_prior=dict(
argstr='use-sulcus-prior',
argstr='%f',
position=7,
),
tolerance=dict(
argstr='%f',
position=8,
),
)
inputs = LaplacianThickness.input_spec()

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