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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/assay_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title": "ISA Assay JSON Schema", | ||
| "name": "ISA Assay JSON Schema", | ||
| "description": "JSON Schema describing an ISA model Assay object", | ||
| "type": "object", | ||
| "properties": { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["Assay"] }, | ||
| "filename" : { "type" : "string" }, | ||
| "measurementType" : { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| }, | ||
| "technologyType" : { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| }, | ||
| "technologyPlatform" : { "type" : "string"}, | ||
| "dataFiles" : { | ||
| "type": "array", | ||
| "items" : { | ||
| "$ref": "data_schema.json#" | ||
| } | ||
| }, | ||
| "materials": { | ||
| "type": "object", | ||
| "properties": { | ||
| "samples": { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "sample_schema.json#" | ||
| } | ||
| }, | ||
| "otherMaterials": { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "material_schema.json#" | ||
| } | ||
| } | ||
| } | ||
| }, | ||
| "characteristicCategories": { | ||
| "description": "List of all the characteristics categories (or material attributes) defined in the study, used to avoid duplication of their declaration when each material_attribute_value is created. ", | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "material_attribute_schema.json#" | ||
| } | ||
| }, | ||
| "unitCategories": { | ||
| "description": "List of all the unitsdefined in the study, used to avoid duplication of their declaration when each value is created. ", | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| } | ||
| }, | ||
| "processSequence": { | ||
| "type": "array", | ||
| "items" : { | ||
| "$ref" : "process_schema.json#" | ||
| } | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/comment_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title": "ISA Comment schema - it corresponds to ISA Comment[] construct", | ||
| "name" : "ISA Comment schema", | ||
| "description": "JSON-schema representing an ISA model Comment object", | ||
| "type": "object", | ||
| "properties": { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["Comment"] }, | ||
| "name": { | ||
| "type": "string" | ||
| }, | ||
| "value": { | ||
| "type": "string" | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
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| @@ -0,0 +1,43 @@ | ||
| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/data_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title": "ISA Data schema", | ||
| "name" : "ISA Data schema", | ||
| "description": "JSON-schema representing an ISA model Data object", | ||
| "type": "object", | ||
| "properties": { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["Data"] }, | ||
| "name": { | ||
| "type": "string" | ||
| }, | ||
| "type": { | ||
| "type": "string", | ||
| "enum": [ | ||
| "Raw Data File", | ||
| "Derived Data File", | ||
| "Image File", | ||
| "Acquisition Parameter Data File", | ||
| "Derived Spectral Data File", | ||
| "Protein Assignment File", | ||
| "Raw Spectral Data File", | ||
| "Peptide Assignment File", | ||
| "Array Data File", | ||
| "Derived Array Data File", | ||
| "Post Translational Modification Assignment File", | ||
| "Derived Array Data Matrix File", | ||
| "Free Induction Decay Data File", | ||
| "Metabolite Assignment File", | ||
| "Array Data Matrix File" | ||
| ] | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/factor_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title": "ISA Factor schema", | ||
| "name": "ISA Factor schema", | ||
| "description": "JSON-schema representing an ISA model Factor object", | ||
| "type": "object", | ||
| "properties": { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["Factor"] }, | ||
| "factorName": { | ||
| "type": "string" | ||
| }, | ||
| "factorType": { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
33 changes: 33 additions & 0 deletions
33
isatools/resources/schemas/v1.0.1/factor_value_schema.json
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/factor_value_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title": "ISA Factor Value schema", | ||
| "name": "ISA Factor Value schema", | ||
| "description": "JSON-schema representing an ISA model Factor Value object", | ||
| "type": "object", | ||
| "properties": { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["FactorValue"] }, | ||
| "category" : { | ||
| "$ref": "factor_schema.json#" | ||
| }, | ||
| "value": { | ||
| "anyOf" : [ | ||
| { "$ref": "ontology_annotation_schema.json#"}, | ||
| { "type": "string"}, | ||
| { "type": "number"} | ||
| ] | ||
| }, | ||
| "unit": { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
63 changes: 63 additions & 0 deletions
63
isatools/resources/schemas/v1.0.1/investigation_schema.json
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/investigation_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title" : "ISA investigation schema", | ||
| "name" : "ISA Investigation schema", | ||
| "description" : "JSON-schema representing an ISA mode Investigation object", | ||
| "type" : "object", | ||
| "properties" : { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["Investigation"] }, | ||
| "filename": { "type" : "string"}, | ||
| "identifier" : { "type" : "string" }, | ||
| "title" : { "type" : "string"}, | ||
| "description" : { "type" : "string"}, | ||
| "submissionDate" : { | ||
| "anyOf": [ | ||
| { "type": "string", "format": "date-time"}, | ||
| { "type": "string", "format": "date"}, | ||
| { "type": "string", "maxLength": 0 } | ||
| ]}, | ||
| "publicReleaseDate" : { | ||
| "anyOf": [ | ||
| { "type": "string", "format": "date-time"}, | ||
| { "type": "string", "format": "date"}, | ||
| { "type": "string", "maxLength": 0 } | ||
| ]}, | ||
| "ontologySourceReferences" : { | ||
| "type" : "array", | ||
| "items" : { | ||
| "$ref": "ontology_source_reference_schema.json#" | ||
| } | ||
| }, | ||
| "publications" : { | ||
| "type" : "array", | ||
| "items" : { | ||
| "$ref": "publication_schema.json#" | ||
|
|
||
| } | ||
| }, | ||
| "people" : { | ||
| "type" : "array", | ||
| "items" : { | ||
| "$ref": "person_schema.json#" | ||
|
|
||
| } | ||
| }, | ||
| "studies" : { | ||
| "type" : "array", | ||
| "items" : { | ||
| "$ref": "study_schema.json#" | ||
|
|
||
| } | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
17 changes: 17 additions & 0 deletions
17
isatools/resources/schemas/v1.0.1/material_attribute_schema.json
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/material_attribute_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title" : "ISA material attribute schema", | ||
| "name" : "ISA Material Attribute schema", | ||
| "description" : "JSON-schema representing a characteristics category (what appears between the brackets in Characteristics[]) in the ISA model", | ||
| "type" : "object", | ||
| "properties" : { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["MaterialAttribute"] }, | ||
| "characteristicType": { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
33 changes: 33 additions & 0 deletions
33
isatools/resources/schemas/v1.0.1/material_attribute_value_schema.json
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/material_attribute_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title" : "ISA Material Attribute schema", | ||
| "name" : "ISA Material Attribute schema", | ||
| "description" : "JSON-schema representing an ISA model material attribute (or characteristic) value object", | ||
| "type" : "object", | ||
| "properties" : { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["MaterialAttributeValue"] }, | ||
| "category" : { | ||
| "$ref": "material_attribute_schema.json#" | ||
| }, | ||
| "value": { | ||
| "anyOf" : [ | ||
| { "$ref": "ontology_annotation_schema.json#"}, | ||
| { "type": "string" }, | ||
| { "type": "number" } | ||
| ] | ||
| }, | ||
| "unit": { | ||
| "$ref": "ontology_annotation_schema.json#" | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/material_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title" : "ISA Material schema", | ||
| "name" : "ISA Material schema", | ||
| "description" : "JSON-schema representing an ISA model material object, which is not a source or a sample (as they have specific schemas) - this will correspond to 'Extract Name', 'Labeled Extract Name'", | ||
| "type" : "object", | ||
| "properties" : { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["Material"] }, | ||
| "name" : { "type" : "string" }, | ||
| "type": { | ||
| "type": "string", | ||
| "enum": [ | ||
| "Extract Name", | ||
| "Labeled Extract Name" | ||
| ] | ||
| }, | ||
| "characteristics" : { | ||
| "type" : "array", | ||
| "items" : { | ||
| "$ref": "material_attribute_value_schema.json#" | ||
| } | ||
| }, | ||
| "derivesFrom": { | ||
| "type" : "array", | ||
| "items" : { | ||
| "$ref": "material_schema.json#" | ||
| } | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
34 changes: 34 additions & 0 deletions
34
isatools/resources/schemas/v1.0.1/ontology_annotation_schema.json
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| { | ||
| "id": "https://raw.githubusercontent.com/ISA-tools/isa-api/master/isatools/resources/schemas/v1.0.1/ontology_annotation_schema.json", | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "title" : "ISA ontology reference schema", | ||
| "name" : "ISA ontology reference schema", | ||
| "description" : "JSON-schema representing an ISA model Ontology Reference or annotation (for fields that are required to be ontology annotations)", | ||
| "type" : "object", | ||
| "properties" : { | ||
| "@id": { "type": "string", "format": "uri-reference" }, | ||
| "@context": { "type": "string", "format": "uri-reference"}, | ||
| "@type" : { "type": "string", "enum": ["OntologyAnnotation"] }, | ||
| "annotationValue": { | ||
| "anyOf": [ | ||
| { "type": "string" }, | ||
| { "type": "number"} | ||
| ] | ||
| }, | ||
| "termSource" : { | ||
| "type" : "string", | ||
| "description" : "The abbreviated ontology name. It should correspond to one of the sources as specified in the ontologySourceReference section of the Investigation." | ||
| }, | ||
| "termAccession" : { | ||
| "type" : "string", | ||
| "format" : "uri-reference" | ||
| }, | ||
| "comments" : { | ||
| "type": "array", | ||
| "items": { | ||
| "$ref": "comment_schema.json#" | ||
| } | ||
| } | ||
| }, | ||
| "additionalProperties": false | ||
| } |
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