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ENH: add more inputs to AFNI 3dAllineate interface #2149

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Merged
merged 2 commits into from
Sep 11, 2017
Merged

ENH: add more inputs to AFNI 3dAllineate interface #2149

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78c3568
add more inputs
salma1601 Aug 13, 2017
25e9b57
update autotest
salma1601 Aug 15, 2017
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14 changes: 13 additions & 1 deletion nipype/interfaces/afni/preprocess.py
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Original file line number Diff line number Diff line change
Expand Up @@ -144,7 +144,7 @@ class AllineateInputSpec(AFNICommandInputSpec):
desc='Use a two pass alignment strategy for all volumes, searching '
'for a large rotation+shift and then refining the alignment.')
two_blur = traits.Float(
argstr='-twoblur',
argstr='-twoblur %f',
desc='Set the blurring radius for the first pass in mm.')
two_first = traits.Bool(
argstr='-twofirst',
Expand Down Expand Up @@ -222,6 +222,18 @@ class AllineateInputSpec(AFNICommandInputSpec):
'EPI slices, and the base as comprising anatomically '
'\'true\' images. Only phase-encoding direction image '
'shearing and scaling will be allowed with this option.')
maxrot = traits.Float(
argstr='-maxrot %f',
desc='Maximum allowed rotation in degrees.')
maxshf = traits.Float(
argstr='-maxshf %f',
desc='Maximum allowed shift in mm.')
maxscl = traits.Float(
argstr='-maxscl %f',
desc='Maximum allowed scaling factor.')
maxshr = traits.Float(
argstr='-maxshr %f',
desc='Maximum allowed shearing factor.')
master = File(
exists=True,
argstr='-master %s',
Expand Down
10 changes: 9 additions & 1 deletion nipype/interfaces/afni/tests/test_auto_Allineate.py
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Expand Up @@ -46,6 +46,14 @@ def test_Allineate_inputs():
),
master=dict(argstr='-master %s',
),
maxrot=dict(argstr='-maxrot %f',
),
maxscl=dict(argstr='-maxscl %f',
),
maxshf=dict(argstr='-maxshf %f',
),
maxshr=dict(argstr='-maxshr %f',
),
newgrid=dict(argstr='-newgrid %f',
),
nmatch=dict(argstr='-nmatch %d',
Expand Down Expand Up @@ -88,7 +96,7 @@ def test_Allineate_inputs():
),
two_best=dict(argstr='-twobest %d',
),
two_blur=dict(argstr='-twoblur',
two_blur=dict(argstr='-twoblur %f',
),
two_first=dict(argstr='-twofirst',
),
Expand Down