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codespell: add config and action to codespell the code to avoid known typos #2

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merged 4 commits into from
Oct 4, 2023
Merged

codespell: add config and action to codespell the code to avoid known typos #2

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c1ed65d
Add github action to codespell main on push and PRs
yarikoptic Jul 23, 2023
f660fa8
Add rudimentary codespell config
yarikoptic Jul 23, 2023
dcf3ea8
[DATALAD RUNCMD] run codespell throughout
yarikoptic Jul 23, 2023
70b7f01
Merge branch 'main' into enh-codespell
apdavison Oct 4, 2023
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4 changes: 4 additions & 0 deletions .codespellrc
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[codespell]
skip = .git,*.pdf,*.svg
#
# ignore-words-list =
22 changes: 22 additions & 0 deletions .github/workflows/codespell.yml
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---
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
2 changes: 1 addition & 1 deletion schemas/latest/SANDS/atlas/parcellationEntity.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/hasParent": {
"_instruction": "Add all anatomical parent structures for this parcellation entity as defined within the corrsponding brain atlas.",
"_instruction": "Add all anatomical parent structures for this parcellation entity as defined within the corresponding brain atlas.",
"_linkedTypes": [
"https://openminds.ebrains.eu/sands/ParcellationEntity"
],
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2 changes: 1 addition & 1 deletion schemas/latest/SANDS/miscellaneous/anatomicalTargetPosition.schema.omi.json
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"name": "AnatomicalTargetPosition",
"properties": {
"https://openminds.ebrains.eu/vocab/additionalRemarks": {
"_instruction": "Enter any additional remarks concering this anatomical target position.",
"_instruction": "Enter any additional remarks concerning this anatomical target position.",
"description": "Mention of what deserves additional attention or notice.",
"formatting": "text/markdown",
"label": "Additional remarks",
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2 changes: 1 addition & 1 deletion schemas/latest/chemicals/chemicalMixture.schema.omi.json
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"name": "ChemicalMixture",
"properties": {
"https://openminds.ebrains.eu/vocab/additionalRemarks": {
"_instruction": "Enter any additional remarks concering this chemical mixture.",
"_instruction": "Enter any additional remarks concerning this chemical mixture.",
"description": "Mention of what deserves additional attention or notice.",
"formatting": "text/markdown",
"label": "Additional remarks",
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2 changes: 1 addition & 1 deletion schemas/latest/chemicals/chemicalSubstance.schema.omi.json
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"name": "ChemicalSubstance",
"properties": {
"https://openminds.ebrains.eu/vocab/additionalRemarks": {
"_instruction": "Enter any additional remarks concering this chemical substance.",
"_instruction": "Enter any additional remarks concerning this chemical substance.",
"description": "Mention of what deserves additional attention or notice.",
"formatting": "text/markdown",
"label": "Additional remarks",
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/UBERONParcellation.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/actionStatusType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/ageCategory.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/analysisTechnique.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/anatomicalAxesOrientation.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/anatomicalIdentificationType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/anatomicalPlane.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/annotationCriteriaType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/annotationType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/atlasType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/auditoryStimulusType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/biologicalOrder.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/biologicalSex.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/breedingType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/cellCultureType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/cellType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/chemicalMixtureType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/colormap.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/contributionType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/cranialWindowConstructionType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/cranialWindowReinforcementType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/criteriaQualityType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/dataType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/deviceType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/differenceMeasure.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/disease.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/diseaseModel.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/educationalLevel.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/electricalStimulusType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/ethicsAssessment.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/experimentalApproach.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/fileBundleGrouping.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/fileRepositoryType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/fileUsageRole.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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2 changes: 1 addition & 1 deletion schemas/latest/controlledTerms/geneticStrainType.schema.omi.json
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"type": "string"
},
"https://openminds.ebrains.eu/vocab/synonym": {
"_instruction": "Enter one or several synonyms (inlcuding abbreviations) for this controlled term.",
"_instruction": "Enter one or several synonyms (including abbreviations) for this controlled term.",
"description": "Words or expressions used in the same language that have the same or nearly the same meaning in some or all senses.",
"formatting": "text/plain",
"items": {
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