Merge pull request #122 from yarikoptic/enh-codespell

add codespell: config, workflow and have typos fixed
hed-standard · Oct 2, 2023 · f6e46c0 · f6e46c0
2 parents 226590d + 210bd9c
commit f6e46c0
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diff --git a/.codespellrc b/.codespellrc
@@ -0,0 +1,4 @@
+[codespell]
+skip = .git,*.pdf,*.svg,deprecated
+#
+# ignore-words-list =
diff --git a/.github/workflows/codespell.yml b/.github/workflows/codespell.yml
@@ -0,0 +1,22 @@
+---
+name: Codespell
+
+on:
+  push:
+    branches: [main]
+  pull_request:
+    branches: [main]
+
+permissions:
+  contents: read
+
+jobs:
+  codespell:
+    name: Check for spelling errors
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v3
+      - name: Codespell
+        uses: codespell-project/actions-codespell@v2
diff --git a/library_schemas/lisa/prerelease/HED_lisa_0.0.1.xml b/library_schemas/lisa/prerelease/HED_lisa_0.0.1.xml
@@ -773,7 +773,7 @@ LISA allows for annotation of language stimuli on different levels through the o
             </node>
             <node>
                <name>Predict</name>
-               <description>Say or estimate that something will happen or will be a consequence of something without having exact informaton.</description>
+               <description>Say or estimate that something will happen or will be a consequence of something without having exact information.</description>
             </node>
             <node>
                <name>Recall</name>
@@ -2015,7 +2015,7 @@ LISA allows for annotation of language stimuli on different levels through the o
                   </node>
                   <node>
                      <name>Tool</name>
-                     <description>A component that is not part of a device but is designed to support its assemby or operation.</description>
+                     <description>A component that is not part of a device but is designed to support its assembly or operation.</description>
                   </node>
                </node>
                <node>
@@ -2203,7 +2203,7 @@ LISA allows for annotation of language stimuli on different levels through the o
                   </node>
                   <node>
                      <name>Truck</name>
-                     <description>A motor vehicle which, as its primary funcion, transports cargo rather than human passangers.</description>
+                     <description>A motor vehicle which, as its primary function, transports cargo rather than human passangers.</description>
                   </node>
                </node>
             </node>
@@ -2245,7 +2245,7 @@ LISA allows for annotation of language stimuli on different levels through the o
             <description>Mechanical vibrations transmitted by an elastic medium. Something that can be heard.</description>
             <node>
                <name>Environmental-sound</name>
-               <description>Sounds occuring in the environment. An accumulation of noise pollution that occurs outside. This noise can be caused by transport, industrial, and recreational activities.</description>
+               <description>Sounds occurring in the environment. An accumulation of noise pollution that occurs outside. This noise can be caused by transport, industrial, and recreational activities.</description>
                <node>
                   <name>Crowd-sound</name>
                   <description>Noise produced by a mixture of sounds from a large group of people.</description>
@@ -4185,7 +4185,7 @@ LISA allows for annotation of language stimuli on different levels through the o
                   </node>
                   <node>
                      <name>Statistical-recall</name>
-                     <description>Sensitivity is a measurement datum qualifying a binary classification test and is computed by substracting the false negative rate to the integral numeral 1.</description>
+                     <description>Sensitivity is a measurement datum qualifying a binary classification test and is computed by subtracting the false negative rate to the integral numeral 1.</description>
                      <node>
                         <name>#</name>
                         <attribute>
@@ -4351,7 +4351,7 @@ LISA allows for annotation of language stimuli on different levels through the o
                <description>Characterization of the physical features of a tract of land.</description>
                <node>
                   <name>Composite-terrain</name>
-                  <description>Tracts of land characterized by a mixure of physical features.</description>
+                  <description>Tracts of land characterized by a mixture of physical features.</description>
                </node>
                <node>
                   <name>Dirt-terrain</name>

diff --git a/library_schemas/score/hedwiki/HED_score_1.0.0.mediawiki b/library_schemas/score/hedwiki/HED_score_1.0.0.mediawiki
@@ -94,8 +94,8 @@ For more information see https://hed-schema-library.readthedocs.io/en/latest/ind
     * Frontal-arousal-rhythm <nowiki> {suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Prolonged (up to 20s) rhythmical sharp or spiky activity over the frontal areas (maximum over the frontal midline) seen at arousal from sleep in children with minimal cerebral dysfunction.] </nowiki>
     * Vertex-wave <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [Sharp potential, maximal at the vertex, negative relative to other areas, apparently occurring spontaneously during sleep or in response to a sensory stimulus during sleep or wakefulness. May be single or repetitive. Amplitude varies but rarely exceeds 250 microV. Abbreviation: V wave. Synonym: vertex sharp wave.]</nowiki>
     * K-complex <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [A burst of somewhat variable appearance, consisting most commonly of a high voltage negative slow wave followed by a smaller positive slow wave frequently associated with a sleep spindle. Duration greater than 0.5 s. Amplitude is generally maximal in the frontal vertex. K complexes occur during nonREM sleep, apparently spontaneously, or in response to sudden sensory / auditory stimuli, and are not specific for any individual sensory modality.]</nowiki>
-    * Saw-tooth-waves <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [Vertex negative 2-5 Hz waves occuring in series during REM sleep]</nowiki>
-    * POSTS <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [Positive occipital sharp transients of sleep. Sharp transient maximal over the occipital regions, positive relative to other areas, apparently occurring spontaneously during sleep. May be single or repetitive. Amplitude varies but is generally bellow 50 microV.]</nowiki>
+    * Saw-tooth-waves <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [Vertex negative 2-5 Hz waves occurring in series during REM sleep]</nowiki>
+    * POSTS <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [Positive occipital sharp transients of sleep. Sharp transient maximal over the occipital regions, positive relative to other areas, apparently occurring spontaneously during sleep. May be single or repetitive. Amplitude varies but is generally below 50 microV.]</nowiki>
     * Hypnagogic-hypersynchrony <nowiki> {suggestedTag=Finding-significance-to-recording, suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Finding-amplitude-asymmetry} [Bursts of bilateral, synchronous delta or theta activity of large amplitude, occasionally with superimposed faster components, occurring during falling asleep or during awakening, in children.]</nowiki>
     * Non-reactive-sleep <nowiki> [EEG activity consisting of normal sleep graphoelements, but which cannot be interrupted by external stimuli/ the patient cannot be waken.]</nowiki>
 
@@ -174,7 +174,7 @@ For more information see https://hed-schema-library.readthedocs.io/en/latest/ind
     * Small-sharp-spikes <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Benign epileptiform Transients of Sleep (BETS). Small sharp spikes (SSS) of very short duration and low amplitude, often followed by a small theta wave, occurring in the temporal regions during drowsiness and light sleep. They occur on one or both sides (often asynchronously). The main negative and positive components are of about equally spiky character. Rarely seen in children, they are seen most often in adults and the elderly. Two thirds of the patients have a history of epileptic seizures.] </nowiki>
     * Fourteen-six-Hz-positive-burst <nowiki>{suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Burst of arch-shaped waves at 13-17 Hz and/or 5-7-Hz but most commonly at 14 and or 6 Hz seen generally over the posterior temporal and adjacent areas of one or both sides of the head during sleep. The sharp peaks of its component waves are positive with respect to other regions. Amplitude varies but is generally below 75  micro V. Comments: (1) best demonstrated by referential recording using contralateral earlobe or other remote, reference electrodes. (2) This pattern has no established clinical significance.] </nowiki>
     * Six-Hz-spike-slow-wave <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Spike and slow wave complexes at 4-7Hz, but mostly at 6 Hz occurring generally in brief bursts bilaterally and synchronously, symmetrically or asymmetrically, and either confined to or of larger amplitude over the posterior or anterior regions of the head. The spike has a strong positive component. Amplitude varies but is generally smaller than that of spike-and slow-wave complexes repeating at slower rates. Comment: this pattern should be distinguished from epileptiform discharges. Synonym: wave and spike phantom.] </nowiki>
-    * Rudimentary-spike-wave-complex <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Synonym: Pseudo petit mal discharge. Paroxysmal discharge that consists of generalized or nearly generalized high voltage 3 to 4/sec waves with poorly developed spike in the positive trough between the slow waves, occurring in drowsiness only. It is found only in infancy and early childhood when marked hypnagogic rhythmical theta activity is paramount in the drowsy state.]</nowiki>
+    * Rudimentary-spike-wave-complex <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Synonym: Pseudo petit mal discharge. Paroxysmal discharge that consists of generalized or nearly generalized high voltage 3 to 4/sec waves with poorly developed spike in the positive through between the slow waves, occurring in drowsiness only. It is found only in infancy and early childhood when marked hypnagogic rhythmical theta activity is paramount in the drowsy state.]</nowiki>
     * Slow-fused-transient <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [A posterior slow-wave preceded by a sharp-contoured potential that blends together with the ensuing slow wave, in children.] </nowiki>
     * Needle-like-occipital-spikes-blind <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Spike discharges of a particularly fast and needle-like character develop over the occipital region in most congenitally blind children. Completely disappear during childhood or adolescence.] </nowiki>
     * Subclinical-rhythmic-EEG-discharge-adults <nowiki> {suggestedTag=Brain-laterality, suggestedTag=Brain-region, suggestedTag=Sensors, suggestedTag=Appearance-mode, suggestedTag=Discharge-pattern} [Subclinical rhythmic EEG discharge of adults (SERDA). A rhythmic pattern seen in the adult age group, mainly in the waking state or drowsiness. It consists of a mixture of frequencies, often predominant in the theta range. The onset may be fairly abrupt with widespread sharp rhythmical theta and occasionally with delta activity. As to the spatial distribution, a maximum of this discharge is usually found over the centroparietal region and especially over the vertex. It may resemble a seizure discharge but is not accompanied by any clinical signs or symptoms.] </nowiki>