modified boolean traits to type enumerator

Author: josephmje

nipype/interfaces/fsl/epi.py

@@ -689,8 +689,8 @@ class EddyInputSpec(FSLCommandInputSpec):
         desc=("Final resampling method (jacobian/least " "squares)"),
     )
 
-    repol = traits.Bool(
-        False, argstr="--repol", desc="Detect and replace outlier slices"
+    repol = traits.Enum(
+        True, argstr="--repol", desc="Detect and replace outlier slices"
     )
     outlier_nstd = traits.Int(
         argstr="--ol_nstd",
@@ -785,8 +785,8 @@ class EddyInputSpec(FSLCommandInputSpec):
         min_ver="6.0.1",
     )
 
-    estimate_move_by_susceptibility = traits.Bool(
-        False,
+    estimate_move_by_susceptibility = traits.Enum(
+        True,
         argstr="--estimate_move_by_susceptibility",
         desc="Estimate how susceptibility field changes with subject movement",
         min_ver="6.0.1",
@@ -823,7 +823,7 @@ class EddyInputSpec(FSLCommandInputSpec):
         ),
     )
 
-    use_cuda = traits.Bool(False, desc="Run eddy using cuda gpu")
+    use_cuda = traits.Enum(True, desc="Run eddy using cuda gpu")
     cnr_maps = traits.Bool(
         False, desc="Output CNR-Maps", argstr="--cnr_maps", min_ver="5.0.10"
     )
@@ -963,19 +963,9 @@ class Eddy(FSLCommand):
 --acqp=epi_acqp.txt --bvals=bvals.scheme --bvecs=bvecs.scheme \
 --imain=epi.nii --index=epi_index.txt --mask=epi_mask.nii \
 --interp=spline --resamp=jac --niter=5 --nvoxhp=1000 \
---out=.../eddy_corrected --slm=none'
-
-    Running eddy on a CPU using OpenMP:
-    >>> eddy.inputs.use_cuda = False
-    >>> eddy.cmdline          # doctest: +ELLIPSIS
-    'eddy_openmp --flm=quadratic --ff=10.0 \
---acqp=epi_acqp.txt --bvals=bvals.scheme --bvecs=bvecs.scheme \
---imain=epi.nii --index=epi_index.txt --mask=epi_mask.nii \
---interp=spline --resamp=jac --niter=5 --nvoxhp=1000 \
 --out=.../eddy_corrected --slm=none'
 
     Running eddy with slice-to-volume motion correction:
-    >>> eddy.inputs.use_cuda = True
     >>> eddy.inputs.mporder = 6
     >>> eddy.inputs.slice2vol_niter = 5
     >>> eddy.inputs.slice2vol_lambda = 1