Merge pull request #3512 from DimitriPapadopoulos/codespell

DOC: Fix typos found by codespell

Author: effigies

THANKS.rst

@@ -19,4 +19,3 @@ and `UL1 TR000442	University of Iowa Clinical and Translational Science Program
 
 
 We would also like to thank `JetBrains <http://www.jetbrains.com/>`__ for providing `Pycharm <http://www.jetbrains.com/pycharm/>`__ licenses.
-

doc/_templates/indexsidebar.html

@@ -11,4 +11,4 @@ <h3>{{ _('Links') }}</h3>
     <a href='https://pypi.python.org/pypi/nipype/'><img src='https://img.shields.io/pypi/pyversions/nipype.svg' alt='Python Versions' /></a></li>
 </ul>
 
-{% endblock %} 
+{% endblock %}

doc/_templates/navbar.html

@@ -13,4 +13,3 @@
 <a class="navbar" href="{{pathto('developers')}}">Developers</a> ·
 <a class="navbar" href="{{pathto('about')}}">About</a> ·
 <a class="navbar" href="http://nipy.org">Nipy</a>
-

doc/devel/filename_generation.rst

@@ -169,4 +169,3 @@ absolute path is generated and used for the ``cmdline`` when run, but
 
     In [80]: res.interface.inputs.outfile
     Out[80]: 'bar.nii'
-

doc/devel/gitwash/forking_hell.rst

@@ -30,4 +30,3 @@ Create your own forked copy of nipype_
    should find yourself at the home page for your own forked copy of nipype_.
 
 .. include:: links.inc
-

doc/devel/gitwash/git_development.rst

@@ -13,4 +13,3 @@ Contents:
    set_up_fork
    configure_git
    development_workflow
-

doc/devel/gitwash/index.rst

@@ -14,5 +14,3 @@ Contents:
    patching
    git_development
    git_resources
-
-

doc/devel/gitwash/set_up_fork.rst

@@ -65,4 +65,3 @@ Just for your own satisfaction, show yourself that you now have a new
    origin	[email protected]:your-user-name/nipype.git (push)
 
 .. include:: links.inc
-

nipype/caching/memory.py

@@ -287,7 +287,7 @@ def clear_runs_since(self, day=None, month=None, year=None, warn=True):
             os.remove(log_name)
 
     def _clear_all_but(self, runs, warn=True):
-        """Remove all the runs appart from those given to the function
+        """Remove all the runs apart from those given to the function
         input.
         """
         rm_all_but(self.base_dir, set(runs.keys()), warn=warn)

nipype/interfaces/afni/base.py

@@ -262,8 +262,8 @@ def _gen_fname(self, basename, cwd=None, suffix=None, change_ext=True, ext=None)
         Generate a filename based on the given parameters.
 
         The filename will take the form: cwd/basename<suffix><ext>.
-        If change_ext is True, it will use the extentions specified in
-        <instance>intputs.output_type.
+        If change_ext is True, it will use the extensions specified in
+        <instance>inputs.output_type.
 
         Parameters
         ----------