fix spelling

Author: Remi-Gau

CHANGELOG.md

@@ -260,7 +260,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 * [DOC] general doc update by [Remi-Gau](https://github.com/Remi-Gau) in [446](https://github.com/cpp-lln-lab/bidspm/pull/446)
 * [DOC] Add figures for some workflows by [Remi-Gau](https://github.com/Remi-Gau) in [463](https://github.com/cpp-lln-lab/bidspm/pull/463)
 * [DOC] adds link and references to other SPM material by [Remi-Gau](https://github.com/Remi-Gau) in [464](https://github.com/cpp-lln-lab/bidspm/pull/464)
-* [DOC] improve resuls doc and associated how to by [Remi-Gau](https://github.com/Remi-Gau) in [470](https://github.com/cpp-lln-lab/bidspm/pull/470)
+* [DOC] improve results doc and associated how to by [Remi-Gau](https://github.com/Remi-Gau) in [470](https://github.com/cpp-lln-lab/bidspm/pull/470)
 * [DOC] Misc doc updates by [Remi-Gau](https://github.com/Remi-Gau) in [484](https://github.com/cpp-lln-lab/bidspm/pull/484)
 * [DOC] update doc on how to filter files and what files gets upsampled by [Remi-Gau](https://github.com/Remi-Gau) in [494](https://github.com/cpp-lln-lab/bidspm/pull/494)
 * [DOC] update templates by [Remi-Gau](https://github.com/Remi-Gau) in [455](https://github.com/cpp-lln-lab/bidspm/pull/455)

demos/MoAE/moae_01_bids_app.ipynb

@@ -253,7 +253,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "% for the stats we need to specifcy where the preprocessed data is\n",
+    "% for the stats we need to specify where the preprocessed data is\n",
     "preproc_dir = fullfile(output_dir, 'bidspm-preproc');"
    ]
   },

demos/MoAE/moae_01_bids_app.m

@@ -132,7 +132,7 @@
 
 % ## Stats
 
-% for the stats we need to specifcy where the preprocessed data is;
+% for the stats we need to specify where the preprocessed data is;
 preproc_dir = fullfile(output_dir, 'bidspm-preproc');
 
 % ### BIDS stats model

docs/source/examples/preprocess.md

@@ -36,7 +36,7 @@ target resolution: 1 mm;
 interpolation: 4th degree b-spline)
 using a unified segmentation.
 
-The tissue propability maps generated by the segmentation
+The tissue probability maps generated by the segmentation
 were used to skullstripp the bias corrected image removing any voxel with
 p(gray matter) + p(white matter) + p(CSF) > 0.75.
 

docs/source/examples/preprocess_citation.md

@@ -34,7 +34,7 @@ target resolution: 1 mm;
 interpolation: 4th degree b-spline)
 using a unified segmentation.
 
-The tissue propability maps generated by the segmentation
+The tissue probability maps generated by the segmentation
 were used to skullstripp the bias corrected image removing any voxel with
 p(gray matter) + p(white matter) + p(CSF) > 0.75.
 

lib/utils/cprintf.m

@@ -621,7 +621,7 @@ function showDemo(majorVersion,minorVersion)
        'cprintf([1,0.5,0], ''and multi-\nline orange\n'');' 10];
    if boldFlag
        % In R2011b+ the internal bug that causes the need for an extra space
-       % is apparently fixed, so we must insert the sparator spaces manually...
+       % is apparently fixed, so we must insert the separator spaces manually...
        % On the other hand, 2011b enables *bold* format
        s = [s 'cprintf(''*blue'',   ''and *bold* (R2011b+ only)\n'');' 10];
        s = strrep(s, ''')',' '')');

pyproject.toml

@@ -100,7 +100,7 @@ addopts = "-ra -vv"
 
 [tool.codespell]
 skip = "*.tsv,*.json,*.nii*,*.js,*.svg,*.eps,*.log,.git,env,build,lib,options,outputs,inputs,bids-examples,stats_model,coverage_html,stats.md,preprocess.md,ds001734"
-ignore-words-list = "fo,te,als,ane,nin,fot,fwe,commun"
+ignore-words-list = "fo,te,als,ane,nin,fot,fwe,commun,ons"
 builtin = "clear,rare"
 
 [tool.coverage.run]

src/batches/setBatchReorient.m

@@ -16,7 +16,7 @@
   % :param images:
   % :type  images: cell string
   %
-  % :param reorientMatrix:  4 X 4 transformation matric or .mat file containing
+  % :param reorientMatrix:  4 X 4 transformation matrix or .mat file containing
   %                         a ``transformationMatrix`` variable
   %
   % :param prefix:

src/messages/bidspmHelp.m

@@ -343,7 +343,7 @@ function bidspmHelp()
   %                       quality controls into a single 4D image.
   % :type  ignore:        cell string
   %
-  % :param concatenate:   will contatenate the beta images of the
+  % :param concatenate:   will concatenate the beta images of the
   %                       conditions of interest convolved by an HRF.
   % :type  concatenate:   logical
   %

src/reports/partials/skullstripping.mustache

@@ -1,3 +1,3 @@
-The tissue propability maps generated by the segmentation
+The tissue probability maps generated by the segmentation
 were used to skullstripp the bias corrected image removing any voxel with
 p(gray matter) + p(white matter) + p(CSF) > {{threshold}}.

src/stats/results/renamePngCsvResults.m

@@ -1,6 +1,6 @@
 function renamedFiles = renamePngCsvResults(opt, result, ext, subLabel)
   %
-  % Rename the reuslts png and csv files to a bids friendly filename.
+  % Rename the results png and csv files to a bids friendly filename.
   %
   % USAGE::
   %

src/stats/results/renameSpmT.m

@@ -1,6 +1,6 @@
 function renameSpmT(result)
   %
-  % Rename the reuslts spmT (theresholed or binarized) outputted in GLM.
+  % Rename the results spmT (theresholed or binarized) outputted in GLM.
   %
   % USAGE::
   %