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re-run make all #53

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Oct 2, 2024
Merged

re-run make all #53

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8 changes: 4 additions & 4 deletions schema/cat-vrs/core/cat-vrs-core-source.yaml
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Expand Up @@ -67,7 +67,7 @@ $defs:
type: object
inherits: Constraint
description: >-
The location or location-state, congruent with other reference sequences,
The location or location-state, congruent with other reference sequences,
about which categorical variation is being described.
properties:
type:
Expand All @@ -91,8 +91,8 @@ $defs:
description: >-
Defined relationships between members of the categorical variant and the defining context.
``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a
human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection``
refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation``
human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection``
refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation``
refers to variants or locations that translate from the codon(s) represented by the defined concept.
required:
- definingContext
Expand Down Expand Up @@ -133,7 +133,7 @@ $defs:
items:
properties:
code:
enum:
enum:
- EFO:0030069
- EFO:0020073
- EFO:0030068
Expand Down
4 changes: 2 additions & 2 deletions schema/cat-vrs/core/def/DefiningContextConstraint.rst
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@@ -1,6 +1,6 @@
**Computational Definition**

The location or location-state, congruent with other reference sequences, about which categorical variation is being described.
The location or location-state, congruent with other reference sequences, about which categorical variation is being described.

**Information Model**

Expand All @@ -27,4 +27,4 @@ Some DefiningContextConstraint attributes are inherited from :ref:`Constraint`.
* - relations
- _Not Specified_
- 0..m
- Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` refers to variants or locations that translate from the codon(s) represented by the defined concept.
- Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` refers to variants or locations that translate from the codon(s) represented by the defined concept.
4 changes: 2 additions & 2 deletions schema/cat-vrs/core/json/DefiningContextConstraint
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Expand Up @@ -4,7 +4,7 @@
"title": "DefiningContextConstraint",
"type": "object",
"maturity": "draft",
"description": "The location or location-state, congruent with other reference sequences, about which categorical variation is being described.",
"description": "The location or location-state, congruent with other reference sequences, about which categorical variation is being described.",
"properties": {
"type": {
"type": "string",
Expand Down Expand Up @@ -35,7 +35,7 @@
"codon_translation"
]
},
"description": "Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. \"GRCh37\" and \"GRCh38\") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` refers to variants or locations that translate from the codon(s) represented by the defined concept."
"description": "Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. \"GRCh37\" and \"GRCh38\") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` refers to variants or locations that translate from the codon(s) represented by the defined concept."
}
},
"required": [
Expand Down
2 changes: 1 addition & 1 deletion schema/cat-vrs/profiles/def/CanonicalAlleleProperties.rst
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Expand Up @@ -17,5 +17,5 @@ Cat-VRS Constraints found in Canonical Alleles.
- Description
* - constraints
- _Not Specified_
- 0..1
- 1..1
-
2 changes: 1 addition & 1 deletion schema/cat-vrs/profiles/def/CategoricalCnvProperties.rst
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Expand Up @@ -17,5 +17,5 @@ Cat-VRS Constraints found in CategoricalCnvs.
- Description
* - constraints
- _Not Specified_
- 0..1
- 1..1
-
2 changes: 1 addition & 1 deletion schema/cat-vrs/profiles/def/ProteinSequenceConsequenceProperties.rst
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Expand Up @@ -17,5 +17,5 @@ Cat-VRS Constraints found in Protein Sequence Consequences.
- Description
* - constraints
- _Not Specified_
- 0..1
- 1..1
-
7 changes: 5 additions & 2 deletions schema/cat-vrs/profiles/json/CanonicalAlleleProperties
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Expand Up @@ -27,13 +27,16 @@
"const": "transcript_projection"
}
}
]
],
"maxContains": 2
}
}
}
]
}
}
},
"required": []
"required": [
"constraints"
]
}
4 changes: 3 additions & 1 deletion schema/cat-vrs/profiles/json/CategoricalCnvProperties
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Expand Up @@ -42,5 +42,7 @@
]
}
},
"required": []
"required": [
"constraints"
]
}
7 changes: 5 additions & 2 deletions schema/cat-vrs/profiles/json/ProteinSequenceConsequenceProperties
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Expand Up @@ -18,13 +18,16 @@
"relations": {
"contains": {
"const": "codon_translation"
}
},
"maxContains": 1
}
}
}
]
}
}
},
"required": []
"required": [
"constraints"
]
}
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