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trial use
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ahwagner committed Aug 22, 2024
1 parent 8f2c248 commit e8b36cf
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Showing 18 changed files with 34 additions and 34 deletions.
2 changes: 1 addition & 1 deletion schema/vrs/json/Adjacency
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/Adjacency",
"title": "Adjacency",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"prefix": "AJ",
"keys": [
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2 changes: 1 addition & 1 deletion schema/vrs/json/Allele
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/Allele",
"title": "Allele",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"prefix": "VA",
"keys": [
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2 changes: 1 addition & 1 deletion schema/vrs/json/CisPhasedBlock
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/CisPhasedBlock",
"title": "CisPhasedBlock",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"prefix": "CPB",
"keys": [
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2 changes: 1 addition & 1 deletion schema/vrs/json/CopyNumberChange
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/CopyNumberChange",
"title": "CopyNumberChange",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"copyChange",
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2 changes: 1 addition & 1 deletion schema/vrs/json/CopyNumberCount
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/CopyNumberCount",
"title": "CopyNumberCount",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"copies",
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2 changes: 1 addition & 1 deletion schema/vrs/json/DerivativeMolecule
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/DerivativeMolecule",
"title": "DerivativeMolecule",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"prefix": "DM",
"keys": [
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2 changes: 1 addition & 1 deletion schema/vrs/json/Expression
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/Expression",
"title": "Expression",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"description": "Representation of a variation by a specified nomenclature or syntax for a Variation object. Common examples of expressions for the description of molecular variation include the HGVS and ISCN nomenclatures.",
"properties": {
"syntax": {
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2 changes: 1 addition & 1 deletion schema/vrs/json/LengthExpression
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/LengthExpression",
"title": "LengthExpression",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"length",
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2 changes: 1 addition & 1 deletion schema/vrs/json/LiteralSequenceExpression
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/LiteralSequenceExpression",
"title": "LiteralSequenceExpression",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"sequence",
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2 changes: 1 addition & 1 deletion schema/vrs/json/Range
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/Range",
"title": "Range",
"type": "array",
"maturity": "draft",
"maturity": "trial use",
"description": "An inclusive range of values bounded by one or more integers.",
"ordered": true,
"items": {
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2 changes: 1 addition & 1 deletion schema/vrs/json/ReferenceLengthExpression
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/ReferenceLengthExpression",
"title": "ReferenceLengthExpression",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"length",
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2 changes: 1 addition & 1 deletion schema/vrs/json/Residue
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/Residue",
"title": "Residue",
"type": "string",
"maturity": "draft",
"maturity": "trial use",
"description": "A character representing a specific residue (i.e., molecular species) or groupings of these (\"ambiguity codes\"), using [one-letter IUPAC abbreviations](https://en.wikipedia.org/wiki/International_Union_of_Pure_and_Applied_Chemistry#Amino_acid_and_nucleotide_base_codes) for nucleic acids and amino acids.",
"pattern": "[A-Z*\\-]"
}
2 changes: 1 addition & 1 deletion schema/vrs/json/SequenceLocation
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/SequenceLocation",
"title": "SequenceLocation",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"end",
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2 changes: 1 addition & 1 deletion schema/vrs/json/SequenceReference
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/SequenceReference",
"title": "SequenceReference",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"refgetAccession",
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2 changes: 1 addition & 1 deletion schema/vrs/json/SequenceString
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/SequenceString",
"title": "SequenceString",
"type": "string",
"maturity": "draft",
"maturity": "trial use",
"description": "A character string of Residues that represents a biological sequence using the conventional sequence order (5\u2019-to-3\u2019 for nucleic acid sequences, and amino-to-carboxyl for amino acid sequences). IUPAC ambiguity codes are permitted in Sequence Strings.",
"pattern": "^[A-Z*\\-]*$"
}
2 changes: 1 addition & 1 deletion schema/vrs/json/Terminus
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/Terminus",
"title": "Terminus",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"prefix": "TM",
"keys": [
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2 changes: 1 addition & 1 deletion schema/vrs/json/TraversalBlock
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"$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-ballot.2024-08.1/json/TraversalBlock",
"title": "TraversalBlock",
"type": "object",
"maturity": "draft",
"maturity": "trial use",
"ga4ghDigest": {
"keys": [
"type",
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34 changes: 17 additions & 17 deletions schema/vrs/vrs-source.yaml
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Expand Up @@ -64,7 +64,7 @@ $defs:

Expression:
type: object
maturity: draft
maturity: trial use
# protectedClassOf: Variation
description: >-
Representation of a variation by a specified nomenclature or syntax for a Variation object.
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# Molecular Variation

Allele:
maturity: draft
maturity: trial use
ga4ghDigest:
prefix: VA
keys:
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required: [ "location", "state" ]

CisPhasedBlock:
maturity: draft
maturity: trial use
ga4ghDigest:
prefix: CPB
keys:
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heritableRequired: [ "location" ]

CopyNumberCount:
maturity: draft
maturity: trial use
ga4ghDigest:
keys:
- copies
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required: [ "copies" ]

CopyNumberChange:
maturity: draft
maturity: trial use
ga4ghDigest:
keys:
- copyChange
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propertyName: type

SequenceLocation:
maturity: draft
maturity: trial use
ga4ghDigest:
keys:
- start
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$ref: "#/$defs/SequenceString"

SequenceReference:
maturity: draft
maturity: trial use
inherits: gks.core-im:Entity
ga4ghDigest:
keys:
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- type

ReferenceLengthExpression:
maturity: draft
maturity: trial use
inherits: SequenceExpression
ga4ghDigest:
keys:
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- repeatSubunitLength

LengthExpression:
maturity: draft
maturity: trial use
inherits: SequenceExpression
ga4ghDigest:
keys:
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- type: integer

LiteralSequenceExpression:
maturity: draft
maturity: trial use
inherits: SequenceExpression
ga4ghDigest:
keys:
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# Numerics, Comparators, and Ranges

Range:
maturity: draft
maturity: trial use
description: An inclusive range of values bounded by one or more integers.
type: array
ordered: true
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minItems: 2

Residue:
maturity: draft
maturity: trial use
description: >-
A character representing a specific residue (i.e., molecular species)
or groupings of these ("ambiguity codes"), using `one-letter IUPAC
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pattern: '[A-Z*\-]'

SequenceString:
maturity: draft
maturity: trial use
description: >-
A character string of :ref:`Residues <Residue>` that represents a biological
sequence using the conventional sequence order (5’-to-3’ for
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# =============================================================================

Adjacency:
maturity: draft
maturity: trial use
ga4ghDigest:
prefix: AJ
keys:
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- adjoinedSequences

Terminus:
maturity: draft
maturity: trial use
ga4ghDigest:
prefix: TM
keys:
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- location

DerivativeMolecule:
maturity: draft
maturity: trial use
ga4ghDigest:
prefix: DM
keys:
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- components

TraversalBlock:
maturity: draft
maturity: trial use
inherits: gks.core-im:Entity
type: object
# protectedClassOf: DerivativeMolecule
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