add to init, cosmetic changes

Author: juhuntenburg

nipype/interfaces/fsl/__init__.py

@@ -19,7 +19,7 @@
                     Complex, InvWarp, WarpUtils, ConvertWarp, WarpPoints, WarpPointsToStd)
 
 from .epi import (PrepareFieldmap, TOPUP, ApplyTOPUP, Eddy, EPIDeWarp,
-                  SigLoss, EddyCorrect)
+                  SigLoss, EddyCorrect, EpiReg)
 
 from .dti import (BEDPOSTX, DTIFit, ProbTrackX, ProbTrackX2,
                   VecReg, ProjThresh, FindTheBiggest, DistanceMap,

nipype/interfaces/fsl/epi.py

@@ -709,10 +709,9 @@ def _run_interface(self, runtime):
         if runtime.stderr:
             self.raise_exception(runtime)
         return runtime
-    
-    
+
+
 class EpiRegInputSpec(FSLCommandInputSpec):
-    
     epi = File(exists=True, argstr='--epi=%s', mandatory=True, position=-4, desc='EPI image')
     t1_head = File(exists=True, argstr='--t1=%s', mandatory=True, position=-3, desc='wholehead T1 image')
     t1_brain = File(exists=True, argstr='--t1brain=%s', mandatory=True, position=-2, desc='brain extracted T1 image')
@@ -724,8 +723,8 @@ class EpiRegInputSpec(FSLCommandInputSpec):
     echospacing = traits.Float(argstr='--echospacing=%f', desc='Effective EPI echo spacing (sometimes called dwell time) - in seconds')
     pedir = traits.Enum('x', 'y', 'z', '-x', '-y', '-z',argstr='--pedir=%s',desc='phase encoding direction, dir = x/y/z/-x/-y/-z')
 
-class EpiRegOutputSpec( TraitedSpec ):
-    
+
+class EpiRegOutputSpec(TraitedSpec):
     out_file = File(exists=True, desc='epi input unwarped and registered to anatomy')     
     out_flirt_file = File(exists=True, desc='output of last flirt bbr fieldmap registration, basically the same as out_file but different interpolation?') 
     fmap2str_mat = File(exists=True, desc='affine fieldmap to structural transformation')
@@ -743,7 +742,10 @@ class EpiRegOutputSpec( TraitedSpec ):
 #     _fieldmap2str_init.mat  
 #     _fieldmaprads2str_dilated.nii.gz  
 
+
 class EpiReg(FSLCommand):
+    """
+    """
     _cmd = 'epi_reg'
     input_spec = EpiRegInputSpec
     output_spec = EpiRegOutputSpec
@@ -774,3 +776,4 @@ def _list_outputs(self):
                                     self.inputs.out_base + '_fieldmaprads2epi_shift.nii.gz')
 
         return outputs
+