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Commit c6e11f1

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DOC: Fix typos found by copdespell
1 parent 8f405f6 commit c6e11f1

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‎doc/changelog/1.X.X-changelog.rst‎

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@@ -47,8 +47,8 @@ graph nodes might conflict with pydot parsing.
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Bug-fix release in the 1.8.x series.
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The previous release vendored ``distutils.version.LooseVersion``, and the vendored objects did not
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preserve compatiblity with the ``distutils`` objects. This release switches to the
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``looseversion`` package that ensures compatiblity.
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preserve compatibility with the ``distutils`` objects. This release switches to the
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``looseversion`` package that ensures compatibility.
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1.8.0 (May 10, 2022)

‎doc/devel/cmd_interface_devel.rst‎

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@@ -65,7 +65,7 @@ extra inputs: environ (a dictionary of environmental variables), and args (a
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string defining extra flags). In addition input spec can define the relation
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between the inputs and the generated command line. To achieve this we have
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added two metadata: ``argstr`` (string defining how the argument should be
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formated) and ``position`` (number defining the order of the arguments).
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formatted) and ``position`` (number defining the order of the arguments).
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For example
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.. testcode::
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In addition one can add functionality to your class or base class, to allow
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changing extensions specific to package or interface. This overload function is
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trigerred only if keep_extension is not defined.
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triggered only if keep_extension is not defined.
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.. testcode::
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‎doc/devel/filename_generation.rst‎

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@@ -148,8 +148,8 @@ case?
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Out[115]: 'bet foo.nii /Users/cburns/tmp/junk/not_bar.nii'
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In this case we provide ``outfile`` but not as an absolue path, so the
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absolue path is generated and used for the ``cmdline`` when run, but
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In this case we provide ``outfile`` but not as an absolute path, so the
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absolute path is generated and used for the ``cmdline`` when run, but
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``mybet.inputs.outfile`` is not updated with the absolute path.
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.. sourcecode:: ipython

‎doc/devel/interface_specs.rst‎

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^^^
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``field``
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name of the structure refered by the SPM job manager
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name of the structure referred by the SPM job manager
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**Required:** This metadata is required by all SPM-mediated
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interface classes.

‎doc/devel/matlab_interface_devel.rst‎

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+++++++++
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This is a minimal script for wrapping MATLAB code. You should replace the MATLAB
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code template, and define approriate inputs and outputs.
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code template, and define appropriate inputs and outputs.
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.. literalinclude:: matlab_example1.py
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‎nipype/algorithms/__init__.py‎

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"""
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Package contains pure python neuroimaging algorithms
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Exaples: artifactdetect
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Examples: artifactdetect
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"""
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__docformat__ = "restructuredtext"

‎nipype/algorithms/confounds.py‎

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@@ -1152,7 +1152,7 @@ def is_outlier(points, thresh=3.5):
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a modified z-score (based on the median absolute deviation) greater
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than this value will be classified as outliers.
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:return: A bolean mask, of size numobservations-length array.
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:return: A boolean mask, of size numobservations-length array.
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.. note:: References
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‎nipype/algorithms/metrics.py‎

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@@ -42,13 +42,13 @@ class DistanceInputSpec(BaseInterfaceInputSpec):
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"eucl_wmean",
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"eucl_max",
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desc='""eucl_min": Euclidean distance between two closest points\
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"eucl_cog": mean Euclidian distance between the Center of Gravity\
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"eucl_cog": mean Euclidean distance between the Center of Gravity\
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of volume1 and CoGs of volume2\
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"eucl_mean": mean Euclidian minimum distance of all volume2 voxels\
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"eucl_mean": mean Euclidean minimum distance of all volume2 voxels\
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to volume1\
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"eucl_wmean": mean Euclidian minimum distance of all volume2 voxels\
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"eucl_wmean": mean Euclidean minimum distance of all volume2 voxels\
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to volume1 weighted by their values\
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"eucl_max": maximum over minimum Euclidian distances of all volume2\
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"eucl_max": maximum over minimum Euclidean distances of all volume2\
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voxels to volume1 (also known as the Hausdorff distance)',
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usedefault=True,
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)

‎nipype/algorithms/misc.py‎

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class SplitROIsInputSpec(TraitedSpec):
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in_file = File(exists=True, mandatory=True, desc="file to be splitted")
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in_file = File(exists=True, mandatory=True, desc="file to be split")
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in_mask = File(exists=True, desc="only process files inside mask")
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roi_size = traits.Tuple(traits.Int, traits.Int, traits.Int, desc="desired ROI size")
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‎nipype/algorithms/rapidart.py‎

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def _get_affine_matrix(params, source):
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"""Return affine matrix given a set of translation and rotation parameters
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params : np.array (upto 12 long) in native package format
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params : np.array (up to 12 long) in native package format
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source : the package that generated the parameters
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supports SPM, AFNI, FSFAST, FSL, NIPY
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"""

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