STY: Clean up FLIRT._parse_inputs

Author: effigies

nipype/interfaces/fsl/preprocess.py

@@ -561,17 +561,18 @@ def aggregate_outputs(self, runtime=None, needed_outputs=None):
         return outputs
 
     def _parse_inputs(self, skip=None):
-        skip = []
-        if isdefined(self.inputs.save_log) and self.inputs.save_log:
-            if not isdefined(self.inputs.verbose) or self.inputs.verbose == 0:
-                self.inputs.verbose = 1
-        if isdefined(self.inputs.apply_xfm) and self.inputs.apply_xfm:
-            if not self.inputs.in_matrix_file and not self.inputs.uses_qform:
-                raise RuntimeError('Argument apply_xfm requires in_matrix_file '
-                                   'or uses_qform arguments to run')
+        if skip is None:
+            skip = []
+        if self.inputs.save_log and not self.inputs.verbose:
+            self.inputs.verbose = 1
+        if self.inputs.apply_xfm and not (self.inputs.in_matrix_file or
+                                          self.inputs.uses_qform):
+            raise RuntimeError('Argument apply_xfm requires in_matrix_file or '
+                               'uses_qform arguments to run')
         skip.append('save_log')
         return super(FLIRT, self)._parse_inputs(skip=skip)
 
+
 class ApplyXFMInputSpec(FLIRTInputSpec):
     apply_xfm = traits.Bool(
         True, argstr='-applyxfm',