STY: correct for tailing spaces and newline at end of file

miykael · miykael · commit 8fc2771e2cc4 · 2018-01-05T16:28:12.000+01:00
diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
@@ -16,8 +16,8 @@
 * The person who accepts/merges your PR will include an update to the CHANGES file: prefix: description (URL of pull request)
 * Run `make check-before-commit` before submitting the PR.
   This will require you to either install or be in developer mode with: `python setup.py install/develop`.
-* In general, do not catch exceptions without good reason. 
-  * catching non-fatal exceptions. 
+* In general, do not catch exceptions without good reason.
+  * catching non-fatal exceptions.
     Log the exception as a warning.
   * adding more information about what may have caused the error.
     Raise a new exception using ``raise_from(NewException("message"), oldException)`` from ``future``.
diff --git a/codecov.yml b/codecov.yml
@@ -25,4 +25,4 @@ coverage:
   ignore:          # files and folders that will be removed during processing
     - "nipype/external/*"
     - "tools/*"
-    - "doc/*"
+    - "doc/*"
diff --git a/doc/_static/nipype.css b/doc/_static/nipype.css
@@ -57,4 +57,4 @@ div.doc2.container ul{
 
 div.doc2 .reference.internal{
     font-size: 14px;
-}
+}
diff --git a/doc/devel/gitwash/git_links.inc b/doc/devel/gitwash/git_links.inc
@@ -2,7 +2,7 @@
    and name substitutions.  It may be included in many files,
    therefore it should only contain link targets and name
    substitutions.  Try grepping for "^\.\. _" to find plausible
-   candidates for this list.  
+   candidates for this list.
 
 .. NOTE: reST targets are
    __not_case_sensitive__, so only one target definition is needed for
@@ -42,7 +42,7 @@
 .. _git config: http://www.kernel.org/pub/software/scm/git/docs/git-config.html
 .. _why the -a flag?: http://www.gitready.com/beginner/2009/01/18/the-staging-area.html
 .. _git staging area: http://www.gitready.com/beginner/2009/01/18/the-staging-area.html
-.. _tangled working copy problem: http://tomayko.com/writings/the-thing-about-git 
+.. _tangled working copy problem: http://tomayko.com/writings/the-thing-about-git
 .. _git management: http://kerneltrap.org/Linux/Git_Management
 .. _linux git workflow: http://www.mail-archive.com/dri-devel@lists.sourceforge.net/msg39091.html
 .. _git parable: http://tom.preston-werner.com/2009/05/19/the-git-parable.html
diff --git a/doc/searchresults.rst b/doc/searchresults.rst
@@ -170,4 +170,4 @@ Search results
       .gsc-resultsHeader {
          clear: none;
       }
-    </style>
+    </style>
diff --git a/doc/users/aws.rst b/doc/users/aws.rst
@@ -99,4 +99,4 @@ s3://mybucket/path/to/output/dir/sub001/motion/realigned_file1.nii.gz
 
 Using S3DataGrabber
 ======================
-Coming soon...
+Coming soon...
diff --git a/doc/users/config_file.rst b/doc/users/config_file.rst
@@ -170,7 +170,7 @@ Resource Monitor
     Indicates where the summary file collecting all profiling information from the
     resource monitor should be stored after execution of a workflow.
     The ``summary_file`` does not apply to interfaces run independently.
-    (unset by default, in which case the summary file will be written out to 
+    (unset by default, in which case the summary file will be written out to
     ``<base_dir>/resource_monitor.json`` of the top-level workflow).
 
 *summary_append*
diff --git a/doc/users/install.rst b/doc/users/install.rst
@@ -117,4 +117,4 @@ Developers should start `here <../devel/testing_nipype.html>`_.
 
 Developers can also use this docker container: `docker pull nipype/nipype:master`
 
-.. include:: ../links_names.txt
+.. include:: ../links_names.txt
diff --git a/doc/users/plugins.rst b/doc/users/plugins.rst
@@ -82,9 +82,9 @@ Optional arguments::
   exceed the total amount of resources available (memory and threads), when
   ``False`` (default), only a warning will be issued.
 
-  maxtasksperchild : number of nodes to run on each process before refreshing 
+  maxtasksperchild : number of nodes to run on each process before refreshing
   the worker (default: 10).
-  
+
 
 To distribute processing on a multicore machine, simply call::
 
diff --git a/doc/users/sphinx_ext.rst b/doc/users/sphinx_ext.rst
@@ -11,4 +11,4 @@ and simplify the generation process.
 
 .. automodule:: nipype.sphinxext.plot_workflow
     :undoc-members:
-    :noindex:
+    :noindex:
diff --git a/examples/nipype_tutorial.ipynb b/examples/nipype_tutorial.ipynb
@@ -1747,4 +1747,4 @@
    "metadata": {}
   }
  ]
-}
+}
diff --git a/nipype/external/d3.js b/nipype/external/d3.js
@@ -9252,4 +9252,4 @@
   } else {
     this.d3 = d3;
   }
-}();
+}();
diff --git a/nipype/interfaces/fsl/model_templates/feat_fe_header.tcl b/nipype/interfaces/fsl/model_templates/feat_fe_header.tcl
@@ -259,7 +259,7 @@ set fmri(regstandard_dof) 12
 set fmri(regstandard_nonlinear_yn) 0
 
 # Control nonlinear warp field resolution
-set fmri(regstandard_nonlinear_warpres) 10 
+set fmri(regstandard_nonlinear_warpres) 10
 
 # High pass filter cutoff
 set fmri(paradigm_hp) 100
diff --git a/nipype/interfaces/fsl/model_templates/feat_header.tcl b/nipype/interfaces/fsl/model_templates/feat_header.tcl
@@ -17,7 +17,7 @@ set fmri(level) 1
 # 2 :             Stats
 # 6 :             Stats + Post-stats
 # 4 :                     Post-stats
-set fmri(analysis) $analysis_stages 
+set fmri(analysis) $analysis_stages
 
 # Use relative filenames
 set fmri(relative_yn) 0
@@ -57,7 +57,7 @@ set fmri(inputtype) 1
 # Carry out pre-stats processing?
 set fmri(filtering_yn) 0
 
-# Brain/background threshold, 
+# Brain/background threshold,
 set fmri(brain_thresh) 10
 
 # Critical z for design efficiency calculation
@@ -157,7 +157,7 @@ set fmri(evs_real) $num_evs
 set fmri(evs_vox) 0
 
 # Number of contrasts
-set fmri(ncon_orig) $num_contrasts 
+set fmri(ncon_orig) $num_contrasts
 set fmri(ncon_real) $num_contrasts
 
 # Number of F-tests
@@ -259,7 +259,7 @@ set fmri(regstandard_dof) 12
 set fmri(regstandard_nonlinear_yn) 0
 
 # Control nonlinear warp field resolution
-set fmri(regstandard_nonlinear_warpres) 10 
+set fmri(regstandard_nonlinear_warpres) 10
 
 # High pass filter cutoff
 set fmri(paradigm_hp) 100
diff --git a/nipype/interfaces/fsl/model_templates/feat_header_l1.tcl b/nipype/interfaces/fsl/model_templates/feat_header_l1.tcl
@@ -57,7 +57,7 @@ set fmri(inputtype) 2
 # Carry out pre-stats processing?
 set fmri(filtering_yn) 0
 
-# Brain/background threshold, 
+# Brain/background threshold,
 set fmri(brain_thresh) 10
 
 # Critical z for design efficiency calculation
@@ -259,7 +259,7 @@ set fmri(regstandard_dof) 0
 set fmri(regstandard_nonlinear_yn) 0
 
 # Control nonlinear warp field resolution
-set fmri(regstandard_nonlinear_warpres) 10 
+set fmri(regstandard_nonlinear_warpres) 10
 
 # High pass filter cutoff
 set fmri(paradigm_hp) $high_pass_filter_cutoff
diff --git a/nipype/interfaces/fsl/model_templates/featreg_header.tcl b/nipype/interfaces/fsl/model_templates/featreg_header.tcl
@@ -259,7 +259,7 @@ set fmri(regstandard_dof) $regdof
 set fmri(regstandard_nonlinear_yn) 0
 
 # Control nonlinear warp field resolution
-set fmri(regstandard_nonlinear_warpres) 10 
+set fmri(regstandard_nonlinear_warpres) 10
 
 # High pass filter cutoff
 set fmri(paradigm_hp) 100
diff --git a/nipype/pytest.ini b/nipype/pytest.ini
@@ -1,4 +1,4 @@
 [pytest]
 norecursedirs = .git build dist doc nipype/external tools examples src
 addopts = --doctest-modules
-doctest_optionflags = ALLOW_UNICODE NORMALIZE_WHITESPACE
+doctest_optionflags = ALLOW_UNICODE NORMALIZE_WHITESPACE
diff --git a/nipype/testing/data/bedpostxout/do_not_delete.txt b/nipype/testing/data/bedpostxout/do_not_delete.txt
@@ -1 +1 @@
-This file has to be here because git ignores empty folders.
+This file has to be here because git ignores empty folders.
diff --git a/nipype/testing/data/fmri_timeseries_nolabels.csv b/nipype/testing/data/fmri_timeseries_nolabels.csv
diff --git a/nipype/testing/data/jsongrabber.txt b/nipype/testing/data/jsongrabber.txt
@@ -1 +1 @@
-{"param2": 4, "param1": "exampleStr"}
+{"param2": 4, "param1": "exampleStr"}
diff --git a/nipype/testing/data/realign_json.json b/nipype/testing/data/realign_json.json
@@ -31,4 +31,4 @@
     "write_mask": null,
     "write_which": null,
     "write_wrap": null
-}
+}
diff --git a/nipype/testing/data/smri_ants_registration_settings.json b/nipype/testing/data/smri_ants_registration_settings.json
@@ -177,4 +177,4 @@
     ],
     "dimension": 3,
     "collapse_output_transforms": false
-}
+}
diff --git a/nipype/testing/data/tbss_dir/do_not_delete.txt b/nipype/testing/data/tbss_dir/do_not_delete.txt
@@ -1 +1 @@
-This file has to be here because git ignores empty folders.
+This file has to be here because git ignores empty folders.
diff --git a/nipype/utils/spm_flat_config.m b/nipype/utils/spm_flat_config.m
@@ -36,4 +36,4 @@
 else
   objlist = {objlist{:} astruct};
 end
-end
+end
diff --git a/nipype/workflows/data/ecc.sch b/nipype/workflows/data/ecc.sch
@@ -3,7 +3,7 @@ setscale 4
 setoption smoothing 6
 setoption paramsubset 1  0 0 0 0 0 0 1 1 1 1 1 1
 clear U
-clear UA 
+clear UA
 clear UB
 clear US
 clear UP
@@ -53,7 +53,7 @@ clear U
 setrow UG  1 0 0 0  0 1 0 0  0 0 1 0  0 0 0 1
 optimise 7 UG  0.0   0.0   0.0   0.0   0.0   0.0   0.0  abs 2
 sort U
-copy U UG 
+copy U UG
 # 1mm scale
 setscale 1
 setoption smoothing 2
diff --git a/nipype/workflows/data/hmc.sch b/nipype/workflows/data/hmc.sch
@@ -2,7 +2,7 @@
 setscale 4
 setoption smoothing 6
 clear U
-clear UA 
+clear UA
 clear UB
 clear US
 clear UP
@@ -51,7 +51,7 @@ clear U
 setrow UG  1 0 0 0  0 1 0 0  0 0 1 0  0 0 0 1
 optimise 7 UG  0.0   0.0   0.0   0.0   0.0   0.0   0.0  abs 2
 sort U
-copy U UG 
+copy U UG
 # 1mm scale
 setscale 1
 setoption smoothing 2

Original file line number	Diff line number	Diff line change
`@@ -170,4 +170,4 @@ Search results`
`170`	`170`	`.gsc-resultsHeader {`
`171`	`171`	`clear: none;`
`172`	`172`	`}`
`173`		`- </style>`
	`173`	`+ </style>`
Original file line number	Diff line number	Diff line change
@@ -117,4 +117,4 @@ Developers should start `here <../devel/testing_nipype.html>`_.
`117`	`117`
`118`	`118`	Developers can also use this docker container: `docker pull nipype/nipype:master`
`119`	`119`
`120`		`-.. include:: ../links_names.txt`
	`120`	`+.. include:: ../links_names.txt`