Skip to content

Commit

Permalink
update IDs
Browse files Browse the repository at this point in the history
  • Loading branch information
@ahwagner
ahwagner committed Nov 27, 2024
1 parent 4d9f544 commit 9f40a87
Show file tree
Hide file tree
Showing 25 changed files with 75 additions and 75 deletions.
2 changes: 1 addition & 1 deletion schema/va-spec/base/cohort-allele-frequency-study-result-profile-source.yaml
View file
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
$schema: "https://json-schema.org/draft/2020-12/schema"
$id: "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/2-cohort-allele-frequency-study-result-profile-source.yaml"
$id: "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/2-cohort-allele-frequency-study-result-profile-source.yaml"
title: Cohort Allele Frequency Study Result Standard Profile
strict: true

Expand Down
2 changes: 1 addition & 1 deletion schema/va-spec/base/domain-entities-source.yaml
View file
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
$schema: "https://json-schema.org/draft/2020-12/schema"
$id: "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/domain-entities-source.yaml"
$id: "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/domain-entities-source.yaml"
title: VA Spec Shared Domain Entity Data Structures
strict: true

Expand Down
2 changes: 1 addition & 1 deletion schema/va-spec/base/experimental-functional-impact-study-result-profile-source.yaml
View file
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
$schema: "https://json-schema.org/draft/2020-12/schema"
$id: "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/experimental-functional-impact-study-result-profile-source.yaml"
$id: "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/experimental-functional-impact-study-result-profile-source.yaml"
title: Experimental Variant Functional Impact Study Result Standard Profile
strict: true

Expand Down
2 changes: 1 addition & 1 deletion schema/va-spec/base/json/Agent
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Agent",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Agent",
"title": "Agent",
"type": "object",
"maturity": "trial use",
Expand Down
14 changes: 7 additions & 7 deletions schema/va-spec/base/json/CohortAlleleFrequencyStudyResult
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/CohortAlleleFrequencyStudyResult",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/CohortAlleleFrequencyStudyResult",
"title": "CohortAlleleFrequencyStudyResult",
"maturity": "trial use",
"type": "object",
Expand Down Expand Up @@ -42,7 +42,7 @@
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Method"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Method"
}
],
"description": "A specification that describes all or part of the process that led to creation of the Information Entity",
Expand All @@ -52,7 +52,7 @@
"type": "array",
"ordered": false,
"items": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Contribution"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Contribution"
},
"description": "Specific actions taken by an Agent toward the creation, modification, validation, or deprecation of an Information Entity.",
"$comment": "This attribute holds one or more Contribution objects, which provide structured descriptions of a contribution made to the Information Entity by a particular agent."
Expand All @@ -66,7 +66,7 @@
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document"
}
]
},
Expand All @@ -80,7 +80,7 @@
"default": "CohortAlleleFrequencyStudyResult"
},
"sourceDataSet": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/DataSet",
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/DataSet",
"description": "The dataset from which the CohortAlleleFrequencyStudyResult was reported.",
"$comment": "In most cases, a StudyResult will be generated using data from one source dataset - but it is possible multiple datasets related to a single study contain data about a particular focus that get collected into a single StudyResult instance."
},
Expand Down Expand Up @@ -109,15 +109,15 @@
"description": "The frequency of the focusAllele in the cohort."
},
"cohort": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/StudyGroup",
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/StudyGroup",
"description": "The cohort from which the frequency was derived."
},
"subCohortFrequency": {
"type": "array",
"ordered": false,
"description": "A list of CohortAlleleFrequency objects describing subcohorts of the cohort currently being described. Subcohorts can be further subdivided into more subcohorts. This enables, for example, the description of different ancestry groups and sexes among those ancestry groups.",
"items": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/CohortAlleleFrequencyStudyResult"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/CohortAlleleFrequencyStudyResult"
}
},
"ancillaryResults": {
Expand Down
4 changes: 2 additions & 2 deletions schema/va-spec/base/json/Condition
View file
Original file line number Diff line number Diff line change
@@ -1,12 +1,12 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Condition",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Condition",
"title": "Condition",
"maturity": "trial use",
"description": "A set of traits (TraitSet) or a single trait (Disease, Phenotype, etc.) that represents the object of a Variant Pathogenicity statement.",
"oneOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/TraitSet"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/TraitSet"
},
{
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/MappableConcept"
Expand Down
4 changes: 2 additions & 2 deletions schema/va-spec/base/json/Contribution
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Contribution",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Contribution",
"title": "Contribution",
"type": "object",
"maturity": "trial use",
Expand Down Expand Up @@ -44,7 +44,7 @@
"default": "Contribution"
},
"contributor": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Agent",
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Agent",
"description": "The agent that made the contribution."
},
"activityType": {
Expand Down
4 changes: 2 additions & 2 deletions schema/va-spec/base/json/DataSet
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/DataSet",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/DataSet",
"title": "DataSet",
"type": "object",
"maturity": "trial use",
Expand Down Expand Up @@ -53,7 +53,7 @@
"reportedIn": {
"oneOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document"
},
{
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
Expand Down
2 changes: 1 addition & 1 deletion schema/va-spec/base/json/Document
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document",
"title": "Document",
"type": "object",
"maturity": "trial use",
Expand Down
26 changes: 13 additions & 13 deletions schema/va-spec/base/json/EvidenceLine
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/EvidenceLine",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/EvidenceLine",
"title": "EvidenceLine",
"type": "object",
"maturity": "trial use",
Expand Down Expand Up @@ -40,7 +40,7 @@
"specifiedBy": {
"oneOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Method"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Method"
},
{
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
Expand All @@ -53,7 +53,7 @@
"type": "array",
"ordered": false,
"items": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Contribution"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Contribution"
},
"description": "Specific actions taken by an Agent toward the creation, modification, validation, or deprecation of an Information Entity.",
"$comment": "This attribute holds one or more Contribution objects, which provide structured descriptions of a contribution made to the Information Entity by a particular agent."
Expand All @@ -64,7 +64,7 @@
"items": {
"oneOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document"
},
{
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
Expand All @@ -84,22 +84,22 @@
"description": "The possible fact against which evidence items contained in an Evidence Line were collectively evaluated, in determining the overall strength and direction of support they provide. For example, in an ACMG Guideline-based assessment of variant pathogenicity, the support provided by distinct lines of evidence are assessed against a target proposition that the variant is pathogenic for a specific disease.",
"oneOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/ExperimentalVariantFunctionalImpactProposition"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/ExperimentalVariantFunctionalImpactProposition"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/VariantDiagnosticProposition"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/VariantDiagnosticProposition"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/VariantOncogenicityProposition"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/VariantOncogenicityProposition"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/VariantPathogenicityProposition"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/VariantPathogenicityProposition"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/VariantPrognosticProposition"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/VariantPrognosticProposition"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/VariantTherapeuticResponseProposition"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/VariantTherapeuticResponseProposition"
}
]
},
Expand All @@ -109,13 +109,13 @@
"items": {
"anyOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/StudyResult"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/StudyResult"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Statement"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Statement"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/EvidenceLine"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/EvidenceLine"
},
{
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
Expand Down
4 changes: 2 additions & 2 deletions schema/va-spec/base/json/ExperimentalVariantFunctionalImpactProposition
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/ExperimentalVariantFunctionalImpactProposition",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/ExperimentalVariantFunctionalImpactProposition",
"title": "ExperimentalVariantFunctionalImpactProposition",
"maturity": "trial use",
"type": "object",
Expand Down Expand Up @@ -83,7 +83,7 @@
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document"
},
{
"type": "object",
Expand Down
10 changes: 5 additions & 5 deletions schema/va-spec/base/json/ExperimentalVariantFunctionalImpactStudyResult
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/ExperimentalVariantFunctionalImpactStudyResult",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/ExperimentalVariantFunctionalImpactStudyResult",
"title": "ExperimentalVariantFunctionalImpactStudyResult",
"maturity": "trial use",
"type": "object",
Expand Down Expand Up @@ -40,7 +40,7 @@
"type": "array",
"ordered": false,
"items": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Contribution"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Contribution"
},
"description": "Specific actions taken by an Agent toward the creation, modification, validation, or deprecation of an Information Entity.",
"$comment": "This attribute holds one or more Contribution objects, which provide structured descriptions of a contribution made to the Information Entity by a particular agent."
Expand All @@ -54,7 +54,7 @@
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document"
}
]
},
Expand Down Expand Up @@ -89,14 +89,14 @@
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
},
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Method"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Method"
}
],
"description": "The assay that was performed to generate the reported functional impact score.",
"$comment": "Examples: a specific experimental protocol or data analysis specification that describes how data were generated; an evidence interpretation guideline that describes steps taken to interpret data in making a variant pathogenicity classification; a method for using electron microscopy to image cell membrane proteins. Note that this attribute captures a specific *instance* of a specification or method (e.g. the specific electron microscopy method described in https://doi.org/10.1002/cpz1.1045) - as opposed to reporting a *type* of method applied (e.g. 'Transmission Electron Microscopy')."
},
"sourceDataSet": {
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/DataSet",
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/DataSet",
"description": "The full data set that provided the reported the functional impact score. ",
"$comment": "In most cases, a StudyResult will be generated using data from one source dataset - but it is possible multiple datasets related to a single study contain data about a particular focus that get collected into a single StudyResult instance."
}
Expand Down
4 changes: 2 additions & 2 deletions schema/va-spec/base/json/Method
View file
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
{
"$schema": "https://json-schema.org/draft/2020-12/schema",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Method",
"$id": "https://w3id.org/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Method",
"title": "Method",
"type": "object",
"maturity": "trial use",
Expand Down Expand Up @@ -52,7 +52,7 @@
"reportedIn": {
"oneOf": [
{
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.1/base/json/Document"
"$ref": "/ga4gh/schema/va-spec/1.0.0-ballot.2024-11.2/base/json/Document"
},
{
"$ref": "/ga4gh/schema/gks-core/1.0.0-snapshot.2024-11.1/json/iriReference"
Expand Down
Loading

0 comments on commit 9f40a87

Please sign in to comment.