resolved conflicts

Author: satra

nipype/algorithms/tests/test_auto_Overlap.py

@@ -109,7 +109,6 @@ class SVMTestInputSpec(AFNICommandInputSpec):
     #testing options
     model = traits.Str(desc='modname is the basename for the brik containing the SVM model',
                 argstr='-model %s',
-                exists=True,
                 mandatory=True)
     in_file = File(desc='A 3D or 3D+t AFNI brik dataset to be used for testing.',
                 argstr='-testvol %s',

nipype/interfaces/afni/svm.py

@@ -17,7 +17,6 @@ def test_SVMTest_inputs():
     mandatory=True,
     ),
     model=dict(argstr='-model %s',
-    exists=True,
     mandatory=True,
     ),
     multiclass=dict(argstr='-multiclass %s',

nipype/interfaces/afni/tests/test_auto_SVMTest.py

@@ -0,0 +1,97 @@
+# AUTO-GENERATED by tools/checkspecs.py - DO NOT EDIT
+from nipype.testing import assert_equal
+from nipype.interfaces.ants.segmentation import antsCorticalThickness
+
+def test_antsCorticalThickness_inputs():
+    input_map = dict(anatomical_image=dict(argstr='-a %s',
+    mandatory=True,
+    ),
+    args=dict(argstr='%s',
+    ),
+    b_spline_smoothing=dict(argstr='-v',
+    ),
+    brain_probability_mask=dict(argstr='-m %s',
+    copyfile=False,
+    mandatory=True,
+    ),
+    brain_template=dict(argstr='-e %s',
+    mandatory=True,
+    ),
+    cortical_label_image=dict(),
+    debug=dict(argstr='-z 1',
+    ),
+    dimension=dict(argstr='-d %d',
+    usedefault=True,
+    ),
+    environ=dict(nohash=True,
+    usedefault=True,
+    ),
+    extraction_registration_mask=dict(argstr='-f %s',
+    ),
+    ignore_exception=dict(nohash=True,
+    usedefault=True,
+    ),
+    image_suffix=dict(argstr='-s %s',
+    usedefault=True,
+    ),
+    keep_temporary_files=dict(argstr='-k %d',
+    ),
+    label_propagation=dict(argstr='-l %s',
+    ),
+    max_iterations=dict(argstr='-i %d',
+    ),
+    num_threads=dict(nohash=True,
+    usedefault=True,
+    ),
+    out_prefix=dict(argstr='-o %s',
+    usedefault=True,
+    ),
+    posterior_formulation=dict(argstr='-b %s',
+    ),
+    prior_segmentation_weight=dict(argstr='-w %f',
+    ),
+    quick_registration=dict(argstr='-q 1',
+    ),
+    segmentation_iterations=dict(argstr='-n %d',
+    ),
+    segmentation_priors=dict(argstr='-p %s',
+    mandatory=True,
+    ),
+    t1_registration_template=dict(argstr='-t %s',
+    mandatory=True,
+    ),
+    terminal_output=dict(mandatory=True,
+    nohash=True,
+    ),
+    use_floatingpoint_precision=dict(argstr='-j %d',
+    ),
+    use_random_seeding=dict(argstr='-u %d',
+    ),
+    )
+    inputs = antsCorticalThickness.input_spec()
+
+    for key, metadata in input_map.items():
+        for metakey, value in metadata.items():
+            yield assert_equal, getattr(inputs.traits()[key], metakey), value
+
+def test_antsCorticalThickness_outputs():
+    output_map = dict(BrainExtractionMask=dict(),
+    BrainSegmentation=dict(),
+    BrainSegmentationN4=dict(),
+    BrainSegmentationPosteriorsCSF=dict(),
+    BrainSegmentationPosteriorsDGM=dict(),
+    BrainSegmentationPosteriorsGM=dict(),
+    BrainSegmentationPosteriorsWM=dict(),
+    CorticalThickness=dict(),
+    SubjectToTemplate0GenericAffine=dict(),
+    SubjectToTemplate1Warp=dict(),
+    TemplateToSubject0Warp=dict(),
+    TemplateToSubject1GenericAffine=dict(),
+    TemplateToSubjectLogJacobian=dict(),
+    )
+    outputs = antsCorticalThickness.output_spec()
+
+    for key, metadata in output_map.items():
+        for metakey, value in metadata.items():
+            yield assert_equal, getattr(outputs.traits()[key], metakey), value
+

nipype/interfaces/ants/tests/test_auto_antsCorticalThickness.py

@@ -127,7 +127,7 @@ class Denoise(BaseInterface):
     """
     input_spec = DenoiseInputSpec
     output_spec = DenoiseOutputSpec
-    
+
     def _run_interface(self, runtime):
         out_file = op.abspath(self._gen_outfilename())