FIX: PEP8 - W391 blank line at end of file

miykael · miykael · commit e9dc25618d1d · 2015-11-01T10:30:43.000+01:00
diff --git a/build_docs.py b/build_docs.py
@@ -193,5 +193,3 @@ def run(self):
             'api_docs': APIDocs,
             'clean': Clean,
             }
-
-
diff --git a/doc/sphinxext/numpy_ext/numpydoc.py b/doc/sphinxext/numpy_ext/numpydoc.py
@@ -176,4 +176,3 @@ def run(self):
             return base_directive.run(self)
 
     return directive
-
diff --git a/examples/dmri_dtk_dti.py b/examples/dmri_dtk_dti.py
@@ -214,5 +214,3 @@ def getstripdir(subject_id):
 if __name__ == '__main__':
     dwiproc.run()
     dwiproc.write_graph()
-
-
diff --git a/examples/dmri_dtk_odf.py b/examples/dmri_dtk_odf.py
@@ -208,5 +208,3 @@
 if __name__ == '__main__':
     dwiproc.run()
     dwiproc.write_graph()
-
-
diff --git a/examples/dmri_fsl_dti.py b/examples/dmri_fsl_dti.py
@@ -274,5 +274,3 @@ def getstripdir(subject_id):
 if __name__ == '__main__':
     dwiproc.run()
     dwiproc.write_graph()
-
-
diff --git a/examples/fmri_freesurfer_smooth.py b/examples/fmri_freesurfer_smooth.py
@@ -648,4 +648,3 @@ def list2tuple(listoflist):
 if __name__ == '__main__':
     l2flow.run()
     l2flow.write_graph(graph2use='flat')
-
diff --git a/examples/fmri_fsl.py b/examples/fmri_fsl.py
@@ -648,5 +648,3 @@ def subjectinfo(subject_id):
     l1pipeline.write_graph()
     outgraph = l1pipeline.run()
     # l1pipeline.run(plugin='MultiProc', plugin_args={'n_procs':2})
-
-
diff --git a/examples/fmri_fsl_reuse.py b/examples/fmri_fsl_reuse.py
@@ -259,5 +259,3 @@ def subjectinfo(subject_id):
     # level1_workflow.write_graph()
     level1_workflow.run()
     # level1_workflow.run(plugin='MultiProc', plugin_args={'n_procs':2})
-
-
diff --git a/examples/fmri_nipy_glm.py b/examples/fmri_nipy_glm.py
@@ -268,4 +268,3 @@ def subjectinfo(subject_id):
 
 if __name__ == '__main__':
     l1pipeline.run()
-
diff --git a/examples/fmri_spm_auditory.py b/examples/fmri_spm_auditory.py
@@ -396,4 +396,3 @@ def getstripdir(subject_id):
 if __name__ == '__main__':
     level1.run()
     level1.write_graph()
-
diff --git a/examples/fmri_spm_dartel.py b/examples/fmri_spm_dartel.py
@@ -531,5 +531,3 @@ def getstripdir(subject_id):
 
 if __name__ == '__main__':
     l2pipeline.run()
-
-
diff --git a/examples/fmri_spm_face.py b/examples/fmri_spm_face.py
@@ -488,4 +488,3 @@ def getstripdir(subject_id):
 if __name__ == '__main__':
     level1.run()
     level1.write_graph()
-
diff --git a/examples/fmri_spm_nested.py b/examples/fmri_spm_nested.py
@@ -484,4 +484,3 @@ def getstripdir(subject_id):
 
 if __name__ == '__main__':
     l2pipeline.run('MultiProc')
-
diff --git a/examples/howto_caching_example.py b/examples/howto_caching_example.py
@@ -46,6 +46,3 @@
 
 # or what wasn't used since the start of 2011
 # mem.clear_runs_since(year=2011)
-
-
-
diff --git a/nipype/algorithms/__init__.py b/nipype/algorithms/__init__.py
@@ -7,5 +7,3 @@
 
 """
 __docformat__ = 'restructuredtext'
-
-
diff --git a/nipype/caching/__init__.py b/nipype/caching/__init__.py
@@ -1,2 +1 @@
 from .memory import Memory
-
diff --git a/nipype/caching/memory.py b/nipype/caching/memory.py
@@ -300,4 +300,3 @@ def _clear_all_but(self, runs, warn=True):
     def __repr__(self):
         return '%s(base_dir=%s)' % (self.__class__.__name__,
                                     self.base_dir)
-
diff --git a/nipype/caching/tests/test_memory.py b/nipype/caching/tests/test_memory.py
@@ -50,4 +50,3 @@ def test_caching():
 
 if __name__ == '__main__':
     test_caching()
-
diff --git a/nipype/fixes/numpy/testing/nosetester.py b/nipype/fixes/numpy/testing/nosetester.py
@@ -409,4 +409,3 @@ def bench(self, label='fast', verbose=1, extra_argv=None):
         add_plugins = [Unplugger('doctest')]
 
         return nose.run(argv=argv, addplugins=add_plugins)
-
diff --git a/nipype/interfaces/ants/resampling.py b/nipype/interfaces/ants/resampling.py
@@ -401,4 +401,3 @@ def _format_arg(self, opt, spec, val):
         if opt == "transforms":
             return self._getTransformFileNames()
         return super(ApplyTransformsToPoints, self)._format_arg(opt, spec, val)
-
diff --git a/nipype/interfaces/camino/connectivity.py b/nipype/interfaces/camino/connectivity.py
@@ -153,4 +153,3 @@ def _gen_filename(self, name):
             _, filename, _ = split_filename(self.inputs.in_file)
             filename = filename + "_"
         return filename
-
diff --git a/nipype/interfaces/camino/odf.py b/nipype/interfaces/camino/odf.py
@@ -438,5 +438,3 @@ def _list_outputs(self):
     def _gen_outfilename(self):
         _, name, _ = split_filename(self.inputs.in_file)
         return name + '_peaks.Bdouble'
-
-
diff --git a/nipype/interfaces/dcmstack.py b/nipype/interfaces/dcmstack.py
@@ -424,4 +424,3 @@ def _list_outputs(self):
         outputs = self._outputs().get()
         outputs['out_list'] = self.out_list
         return outputs
-
diff --git a/nipype/interfaces/diffusion_toolkit/odf.py b/nipype/interfaces/diffusion_toolkit/odf.py
@@ -233,4 +233,3 @@ def _list_outputs(self):
         outputs = self.output_spec().get()
         outputs['track_file'] = os.path.abspath(self.inputs.out_file)
         return outputs
-
diff --git a/nipype/interfaces/freesurfer/tests/test_preprocess.py b/nipype/interfaces/freesurfer/tests/test_preprocess.py
@@ -117,4 +117,3 @@ def test_synthesizeflash():
     syn2 = freesurfer.SynthesizeFLASH(t1_image=filelist[0], pd_image=filelist[1], flip_angle=20, te=5, tr=25)
     yield assert_equal, syn2.cmdline, ('mri_synthesize 25.00 20.00 5.000 %s %s %s'
                                        % (filelist[0], filelist[1], os.path.join(outdir, 'synth-flash_20.mgz')))
-
diff --git a/nipype/interfaces/fsl/model.py b/nipype/interfaces/fsl/model.py
@@ -1961,4 +1961,3 @@ def _list_outputs(self):
                 self.inputs.out_vnscales_name)
 
         return outputs
-
diff --git a/nipype/interfaces/fsl/tests/test_XFibres.py b/nipype/interfaces/fsl/tests/test_XFibres.py
@@ -1,3 +1,2 @@
 from nipype.testing import assert_equal
 from nipype.interfaces.fsl.dti import XFibres
-
diff --git a/nipype/interfaces/fsl/tests/test_dti.py b/nipype/interfaces/fsl/tests/test_dti.py
@@ -503,4 +503,3 @@ def test_distancemap():
 
     # Not much else to do here
     clean_directory(newdir, olddir)
-
diff --git a/nipype/interfaces/fsl/tests/test_epi.py b/nipype/interfaces/fsl/tests/test_epi.py
@@ -61,6 +61,3 @@ def test_eddy_correct2():
     # test arguments for opt_map
     # eddy_correct class doesn't have opt_map{}
     clean_directory(outdir, cwd)
-
-
-
diff --git a/nipype/interfaces/mrtrix/tensors.py b/nipype/interfaces/mrtrix/tensors.py
@@ -421,4 +421,3 @@ class Directions2Amplitude(CommandLine):
     _cmd = 'dir2amp'
     input_spec = Directions2AmplitudeInputSpec
     output_spec = Directions2AmplitudeOutputSpec
-
diff --git a/nipype/interfaces/nipy/model.py b/nipype/interfaces/nipy/model.py
@@ -318,4 +318,3 @@ def _list_outputs(self):
         outputs["p_maps"] = self._p_maps
         outputs["z_maps"] = self._z_maps
         return outputs
-
diff --git a/nipype/interfaces/nitime/tests/test_nitime.py b/nipype/interfaces/nitime/tests/test_nitime.py
@@ -73,5 +73,3 @@ def test_coherence_analysis():
     coh = np.mean(C.coherence[:, :, freq_idx], -1)  # Averaging on the last dimension
 
     yield assert_equal, o.outputs.coherence_array, coh
-
-
diff --git a/nipype/interfaces/tests/test_io.py b/nipype/interfaces/tests/test_io.py
@@ -420,4 +420,3 @@ def test_jsonsink():
 
     os.chdir(curdir)
     shutil.rmtree(outdir)
-
diff --git a/nipype/interfaces/traits_extension.py b/nipype/interfaces/traits_extension.py
@@ -250,6 +250,3 @@ def has_metadata(trait, metadata, value=None, recursive=True):
                 count += has_metadata(handler, metadata, recursive)
 
     return count > 0
-
-
-
diff --git a/nipype/interfaces/vista/vista.py b/nipype/interfaces/vista/vista.py
@@ -72,4 +72,3 @@ class VtoMat(CommandLine):
     _cmd = 'vtomat'
     input_spec = VtoMatInputSpec
     output_spec = VtoMatOutputSpec
-
diff --git a/nipype/pipeline/plugins/base.py b/nipype/pipeline/plugins/base.py
@@ -656,4 +656,3 @@ def _get_result(self, taskid):
             result_out['result'] = result_data
 
         return result_out
-
diff --git a/nipype/pipeline/plugins/debug.py b/nipype/pipeline/plugins/debug.py
@@ -34,4 +34,3 @@ def run(self, graph, config, updatehash=False):
         logger.info("Executing debug plugin")
         for node in nx.topological_sort(graph):
             self._callable(node, graph)
-
diff --git a/nipype/pipeline/plugins/linear.py b/nipype/pipeline/plugins/linear.py
@@ -55,4 +55,3 @@ def run(self, graph, config, updatehash=False):
                 if self._status_callback:
                     self._status_callback(node, 'exception')
         report_nodes_not_run(notrun)
-
diff --git a/nipype/pipeline/plugins/tests/test_multiproc_nondaemon.py b/nipype/pipeline/plugins/tests/test_multiproc_nondaemon.py
@@ -144,4 +144,3 @@ def test_run_multiproc_nondaemon_true():
     # with nondaemon_flag = True, the execution should succeed
     result = run_multiproc_nondaemon_with_flag(True)
     yield assert_equal, result, 180  # n_procs (2) * numberOfThreads (2) * 45 == 180
-
diff --git a/nipype/utils/__init__.py b/nipype/utils/__init__.py
@@ -2,4 +2,3 @@
 
 from .onetime import OneTimeProperty, setattr_on_read
 from .tmpdirs import TemporaryDirectory, InTemporaryDirectory
-
diff --git a/nipype/utils/config.py b/nipype/utils/config.py
@@ -175,4 +175,3 @@ def update_matplotlib(self):
     def enable_provenance(self):
         self._config.set('execution', 'write_provenance', 'true')
         self._config.set('execution', 'hash_method', 'content')
-
diff --git a/nipype/utils/misc.py b/nipype/utils/misc.py
@@ -242,6 +242,3 @@ def unflatten(in_list, prev_structure):
         for item in prev_structure:
             out.append(unflatten(in_list, item))
         return out
-
-
-
diff --git a/nipype/utils/tests/__init__.py b/nipype/utils/tests/__init__.py
@@ -18,4 +18,3 @@
 you contribute. Often, writing tests for your code before the code is written
 helps to frame your thoughts about what the code should look like.
 """
-
diff --git a/nipype/utils/tmpdirs.py b/nipype/utils/tmpdirs.py
@@ -44,5 +44,3 @@ def __enter__(self):
     def __exit__(self, exc, value, tb):
         os.chdir(self._pwd)
         return super(InTemporaryDirectory, self).__exit__(exc, value, tb)
-
-
diff --git a/nipype/workflows/dmri/camino/__init__.py b/nipype/workflows/dmri/camino/__init__.py
@@ -2,4 +2,3 @@
 from .diffusion import create_camino_dti_pipeline
 from .connectivity_mapping import create_connectivity_pipeline
 from .group_connectivity import create_group_connectivity_pipeline
-
diff --git a/nipype/workflows/dmri/connectivity/group_connectivity.py b/nipype/workflows/dmri/connectivity/group_connectivity.py
@@ -524,4 +524,3 @@ def create_average_networks_by_group_workflow(group_list, data_dir, subjects_dir
 
     l4pipeline.connect([(merge_gexf_averages, l4datasink, [('out', '@l4output.gexf')])])
     return l4pipeline
-
diff --git a/nipype/workflows/dmri/fsl/tests/test_dti.py b/nipype/workflows/dmri/fsl/tests/test_dti.py
@@ -84,4 +84,3 @@ def test_create_bedpostx_pipeline():
 
     pipeline.run(plugin='Linear')
     shutil.rmtree(pipeline.base_dir)
-
diff --git a/nipype/workflows/dmri/fsl/tests/test_epi.py b/nipype/workflows/dmri/fsl/tests/test_epi.py
@@ -45,4 +45,3 @@ def test_create_eddy_correct_pipeline():
 
     pipeline.run(plugin='Linear')
     shutil.rmtree(pipeline.base_dir)
-
diff --git a/nipype/workflows/fmri/fsl/preprocess.py b/nipype/workflows/fmri/fsl/preprocess.py
@@ -1241,4 +1241,3 @@ def create_reg_workflow(name='registration'):
                      outputnode, 'anat2target_transform')
 
     return register
-
diff --git a/nipype/workflows/graph/__init__.py b/nipype/workflows/graph/__init__.py
@@ -1 +0,0 @@
-
diff --git a/nipype/workflows/misc/__init__.py b/nipype/workflows/misc/__init__.py
@@ -1 +0,0 @@
-
diff --git a/nipype/workflows/warp/__init__.py b/nipype/workflows/warp/__init__.py
@@ -1 +0,0 @@
-
diff --git a/tools/make_examples.py b/tools/make_examples.py
@@ -97,4 +97,3 @@ def show():
         figure_basename = pjoin('fig', os.path.splitext(script)[0])
         execfile(script)
         plt.close('all')
-
diff --git a/tools/nipype_nightly.py b/tools/nipype_nightly.py
@@ -88,6 +88,3 @@ def setup_paths():
     build_docs()
     # push_to_sf()
     os.chdir(prev_dir)
-
-
-
diff --git a/tools/setup.py b/tools/setup.py
@@ -10,4 +10,3 @@
       url='http://nipy.sourceforge.net',
       scripts=['./nipype_nightly.py', './report_coverage.py']
       )
-

Original file line number	Diff line number	Diff line change
`@@ -193,5 +193,3 @@ def run(self):`
`193`	`193`	`'api_docs': APIDocs,`
`194`	`194`	`'clean': Clean,`
`195`	`195`	`}`
`196`		`-`
`197`		`-`
Original file line number	Diff line number	Diff line change
`@@ -176,4 +176,3 @@ def run(self):`
`176`	`176`	`return base_directive.run(self)`
`177`	`177`
`178`	`178`	`return directive`
`179`		`-`
Original file line number	Diff line number	Diff line change
`@@ -268,4 +268,3 @@ def subjectinfo(subject_id):`
`268`	`268`
`269`	`269`	`if __name__ == '__main__':`
`270`	`270`	`l1pipeline.run()`
`271`		`-`