ref: eddy to remove setting inputs

Author: satra

nipype/interfaces/fsl/epi.py

@@ -398,9 +398,9 @@ class EddyInputSpec(FSLCommandInputSpec):
     in_bval = File(exists=True, mandatory=True, argstr='--bvals=%s',
                    desc=('File containing the b-values for all volumes in '
                          '--imain'))
-    out_base = File(argstr='--out=%s',
-                    desc=('basename for output (warped) image'))
-
+    out_base = traits.Unicode('eddy_corrected', argstr='--out=%s',
+                              usedefault=True,
+                              desc=('basename for output (warped) image'))
     session = File(exists=True, argstr='--session=%s',
                    desc=('File containing session indices for all volumes in '
                          '--imain'))
@@ -459,7 +459,7 @@ class Eddy(FSLCommand):
     >>> eddy.cmdline #doctest: +ELLIPSIS
     'eddy --acqp=epi_acqp.txt --bvals=bvals.scheme --bvecs=bvecs.scheme \
 --imain=epi.nii --index=epi_index.txt --mask=epi_mask.nii \
---out=.../eddy_corrected'
+--out=eddy_corrected'
     >>> res = eddy.run() # doctest: +SKIP
 
     """
@@ -491,14 +491,6 @@ def _format_arg(self, name, spec, value):
             return spec.argstr % value.split('_fieldcoef')[0]
         return super(Eddy, self)._format_arg(name, spec, value)
 
-    def _parse_inputs(self, skip=None):
-        if skip is None:
-            skip = []
-
-        if not isdefined(self.inputs.out_base):
-            self.inputs.out_base = os.path.abspath('eddy_corrected')
-        return super(Eddy, self)._parse_inputs(skip=skip)
-
     def _list_outputs(self):
         outputs = self.output_spec().get()
         outputs['out_corrected'] = '%s.nii.gz' % self.inputs.out_base