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Add output spec and reml script. #4

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Merged
merged 2 commits into from
Jun 23, 2017
Merged

Add output spec and reml script. #4

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dcb1862
Add outputspec and reml_script.
tsalo Jun 23, 2017
c6ecaf6
Merge remote-tracking branch 'origin/afni-deconvolve' into afni-decon…
tsalo Jun 23, 2017
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9 changes: 8 additions & 1 deletion nipype/interfaces/afni/model.py
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Original file line number Diff line number Diff line change
Expand Up @@ -191,6 +191,8 @@ class DeconvolveInputSpec(AFNICommandInputSpec):
class DeconvolveOutputSpec(AFNICommandOutputSpec):
out_file = File(desc='output statistics file',
exists=True)
reml_script = File(desc='Autogenerated script for 3dREML')
x1D = File(desc='save out X matrix')


class Deconvolve(AFNICommand):
Expand Down Expand Up @@ -230,7 +232,7 @@ class Deconvolve(AFNICommand):

_cmd = '3dDeconvolve'
input_spec = DeconvolveInputSpec
output_spec = AFNICommandOutputSpec
output_spec = DeconvolveOutputSpec

def _parse_inputs(self, skip=None):
if skip is None:
Expand All @@ -249,5 +251,10 @@ def _list_outputs(self):
else:
outputs['x1D'] = self.inputs.x1D

_gen_fname_opts = {}
_gen_fname_opts['basename'] = self.inputs.out_file
_gen_fname_opts['cwd'] = os.getcwd()
outputs['reml_script'] = self._gen_fname(suffix='.REML_cmd', **_gen_fname_opts))

outputs['out_file'] = self.inputs.out_file
return outputs