specs

Author: kesshijordan

nipype/interfaces/dcm2nii.py

@@ -264,7 +264,7 @@ class Dcm2niixInputSpec(CommandLineInputSpec):
         position=-1,
         copyfile=False,
         mandatory=True,
-        desc=('A set of filenames to be converted. Note that the current ' 
+        desc=('A set of filenames to be converted. Note that the current '
               'version (1.0.20180328) of dcm2niix converts any files in the '
               'directory. To only convert specific files they should be in an '
               'isolated directory'),

nipype/tests/test_nipype.py

@@ -12,7 +12,7 @@ def test_nipype_info():
     assert exception_not_raised
 
 
-@pytest.mark.skipif(not get_nipype_gitversion(), 
+@pytest.mark.skipif(not get_nipype_gitversion(),
                     reason="not able to get version from get_nipype_gitversion")
 def test_git_hash():
     # removing the first "g" from gitversion

nipype/workflows/dmri/dtitk/tensor_registration.py

@@ -52,7 +52,7 @@ def diffeomorphic_tensor_pipeline(name='DiffeoTen',
                                   params={'array_size': (128, 128, 64)}):
     """
     Workflow that performs a diffeomorphic registration
-    (Rigid and Affine follwed by Diffeomorphic)
+    (Rigid and Affine followed by Diffeomorphic)
     Note: the requirements for a diffeomorphic registration specify that
     the dimension 0 is a power of 2 so images are resliced prior to
     registration. Remember to move origin and reslice prior to applying xfm to
@@ -143,7 +143,7 @@ def diffeomorphic_tensor_pipeline(name='DiffeoTen',
 
     return wf
 
-
+'''
 def apply_diffeo(name='ApplyDiffeo', params={'array_size': (128, 128, 64)}):
 
     """
@@ -167,10 +167,9 @@ def apply_diffeo(name='ApplyDiffeo', params={'array_size': (128, 128, 64)}):
     outputnode = pe.Node(niu.IdentityInterface(
                          fields=['out_file']),
                          name='outputnode')
-    origin_node = pe.Node(dtitk.TVAdjustVoxSp(origin=(0, 0, 0)),
+    origin_node = pe.Node(dtitk.SVAdjustVoxSp(origin=(0, 0, 0)),
                           name='origin_node')
-    reslice_node_pow2 = pe.Node(dtitk.TVResample(
-                                origin=(0, 0, 0),
+    reslice_node_pow2 = pe.Node(dtitk.SVResample(
                                 array_size=params['array_size']),
                                 name='reslice_node_pow2')
     apply_xfm_node = pe.Node(dtitk.DiffeoScalarVol(), name='apply_xfm_node')
@@ -183,4 +182,4 @@ def apply_diffeo(name='ApplyDiffeo', params={'array_size': (128, 128, 64)}):
     wf.connect(inputnode, 'xfm_file', apply_xfm_node, 'transform')
     wf.connect(apply_xfm_node, 'out_file', outputnode, 'out_file')
 
-    return wf
+    return wf'''

tools/checkspecs.py

@@ -287,7 +287,7 @@ def test_specs(self, uri):
                         and "requires" not in trait.__dict__\
                         and "xor" not in trait.__dict__:
                     if trait.trait_type.__class__.__name__ is "Range"\
-                            and trait.default == trait.trait_type._low: 
+                            and trait.default == trait.trait_type._low:
                         continue
                     bad_specs.append(
                         [uri, c, 'Inputs', traitname, 'default value is set, no value for usedefault'])