From e25ff1fc428d9580c7777e865fc82348b31fb366 Mon Sep 17 00:00:00 2001 From: Pierre-Alexandre Fonta Date: Tue, 25 Sep 2018 17:10:36 +0200 Subject: [PATCH 1/7] Initialize Literature Annotation domain model --- build.sbt | 13 +- .../commons/annotation/v0.1.0.json | 201 ++++++++++++++++++ .../commons/parameter/v0.1.0.json | 20 ++ .../commons/selectors/v0.1.0.json | 174 +++++++++++++++ .../commons/variables/v0.1.0.json | 136 ++++++++++++ .../core/annotation/v0.1.0.json | 62 ++++++ .../core/selectors/v0.1.0.json | 63 ++++++ .../core/variables/v0.1.0.json | 56 +++++ .../functionparameter/v0.1.0.json | 53 +++++ .../numericaltraceparameter/v0.1.0.json | 61 ++++++ .../parameterannotation/v0.1.0.json | 61 ++++++ .../pointvalueparameter/v0.1.0.json | 47 ++++ .../v0.1.0/auto-all-fields.json | 41 ++++ .../v0.1.0/auto-min-fields.json | 19 ++ .../all-fields-compound-compound-ignored.json | 5 + .../all-fields-simple-compound-ignored.json | 5 + .../auto-all-fields-compound-simple.json | 56 +++++ .../v0.1.0/auto-all-fields-simple-simple.json | 51 +++++ .../auto-min-fields-compound-simple.json | 49 +++++ .../v0.1.0/auto-min-fields-simple-simple.json | 39 ++++ .../min-fields-compound-compound-ignored.json | 5 + .../min-fields-simple-compound-ignored.json | 5 + .../v0.1.0/auto-all-fields-area.json | 35 +++ .../v0.1.0/auto-all-fields-equation.json | 47 ++++ .../v0.1.0/auto-all-fields-figure.json | 41 ++++ .../v0.1.0/auto-all-fields-table.json | 53 +++++ .../v0.1.0/auto-all-fields-text.json | 58 +++++ .../v0.1.0/auto-min-fields-area.json | 29 +++ .../v0.1.0/auto-min-fields-equation.json | 36 ++++ .../v0.1.0/auto-min-fields-figure.json | 28 +++ .../v0.1.0/auto-min-fields-table.json | 30 +++ .../v0.1.0/auto-min-fields-text.json | 37 ++++ .../v0.1.0/auto-all-fields-compound.json | 34 +++ .../v0.1.0/auto-all-fields-simple.json | 21 ++ .../v0.1.0/auto-min-fields-compound.json | 27 +++ .../v0.1.0/auto-min-fields-simple.json | 14 ++ .../v0.1.0/auto-missing-equation.json | 18 ++ ...uto-missing-indpendentvariable-simple.json | 22 ++ ...riable-series-compound-instead-simple.json | 54 +++++ ...riable-series-simple-instead-compound.json | 39 ++++ .../v0.1.0/auto-missing-contribution.json | 25 +++ .../auto-missing-contributionshape-agent.json | 26 +++ .../v0.1.0/auto-missing-entityshape-name.json | 36 ++++ ...sing-fragmentselectorshape-conformsto.json | 28 +++ ...o-missing-fragmentselectorshape-value.json | 28 +++ .../v0.1.0/auto-missing-hasbody.json | 27 +++ .../v0.1.0/auto-missing-hastarget.json | 28 +++ ...auto-missing-indexselectorshape-index.json | 27 +++ ...missing-selectortargetshape-hassource.json | 36 ++++ ...missing-textpositionselectorshape-end.json | 36 ++++ ...ssing-textpositionselectorshape-start.json | 36 ++++ ...g-textpositiontargetshape-hasselector.json | 32 +++ .../v0.1.0/empty-contributionshape-agent.json | 28 +++ .../v0.1.0/empty-hasbody.json | 28 +++ ...g-algebraicvalueshape-unitcode-simple.json | 13 ++ .../v0.1.0/auto-missing-series-compound.json | 10 + .../v0.1.0/auto-missing-series-simple.json | 10 + .../auto-missing-valueshape-value-simple.json | 13 ++ ...g-variableshape-quantitytype-compound.json | 26 +++ ...ing-variableshape-quantitytype-simple.json | 13 ++ ...algebraicvalueshape-unitcode-compound.json | 26 +++ .../missing-valueshape-value-compound.json | 26 +++ .../series-compound-instead-simple.json | 27 +++ .../series-simple-instead-compound.json | 14 ++ 64 files changed, 2443 insertions(+), 1 deletion(-) create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json create mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json create mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json create mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-simple-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-text.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-area.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-equation.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-figure.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-table.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-text.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-compound.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-compound.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-missing-equation.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-missing-indpendentvariable-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-compound-instead-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contribution.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contributionshape-agent.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-entityshape-name.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hastarget.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-indexselectorshape-index.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-selectortargetshape-hassource.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-start.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositiontargetshape-hasselector.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-contributionshape-agent.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-hasbody.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json diff --git a/build.sbt b/build.sbt index af8797d7..72507cd5 100644 --- a/build.sbt +++ b/build.sbt @@ -100,12 +100,23 @@ lazy val simulation = project moduleName := "nsg-simulation-schemas" ) +lazy val literatureannotation = project + .in(file("modules/literatureannotation")) + .enablePlugins(WorkbenchPlugin) + .disablePlugins(ScapegoatSbtPlugin, DocumentationPlugin) + .dependsOn(core) + .settings(common) + .settings( + name := "nsg-literatureannotation-schemas", + moduleName := "nsg-literatureannotation-schemas" + ) + lazy val root = project .in(file(".")) .settings(name := "nsg-schemas", moduleName := "nsg-schemas") .settings(common, noPublish) - .aggregate(core, experiment, atlas, morphology, electrophysiology, simulation, nexusschema,nsgcommons) + .aggregate(core, experiment, atlas, morphology, electrophysiology, simulation, nexusschema, nsgcommons, literatureannotation) lazy val common = Seq( scalacOptions in (Compile, console) ~= (_ filterNot (_ == "-Xfatal-warnings")), diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json new file mode 100644 index 00000000..5c43b1c6 --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json @@ -0,0 +1,201 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/" + } + ], + "imports": [ + "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0", + "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0" + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "AnnotationShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" + }, + { + "property": [ + { + "path": "nsg:contribution", + "name": "Contribution", + "description": "Information about the agent involved in the creation of this Annotation.", + "node": "ContributionShape", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:hasTarget", + "name": "Target", + "description": "The relationship between an Annotation and its Target.", + "node": "TargetShape", + "minCount": 1 + }, + { + "path": "nsg:hasBody", + "name": "Body", + "description": "The relationship between an Annotation and its Body.", + "node": "BodyShape" + } + ] + } + ] + }, + { + "@id": "TargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI" + }, + { + "@id": "SelectorTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "TargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSource", + "name": "Source", + "description": "The relationship between a Specific Resource and the resource that it is a more specific representation of.", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:hasSelector", + "name": "Selector", + "description": "The relationship between a Specific Resource and a Selector.", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/SelectorShape" + } + ] + } + ] + }, + { + "@id": "TextPositionTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TextPositionSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "FigureTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FigureSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "EquationTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/EquationSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "TableTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TableSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "AreaTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/AreaSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "BodyShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI" + }, + { + "@id": "ContributionShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "property": [ + { + "path": "prov:agent", + "name": "Agent", + "nodeKind": "sh:IRI", + "class": "prov:Agent", + "minCount": 1 + } + ] + } + ] +} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json new file mode 100644 index 00000000..c57ac3cb --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json @@ -0,0 +1,20 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/" + } + ], + "imports": [ + "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0" + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "ParameterShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" + } + ] +} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json new file mode 100644 index 00000000..f86adf12 --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json @@ -0,0 +1,174 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/" + } + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "SelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "property": [ + { + "path": "rdf:type", + "name": "Selector type", + "description": "The class of the Selector.", + "minCount": 1, + "maxCount": 1 + } + ] + }, + { + "@id": "TextPositionSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:TextPositionSelector", + "and": [ + { + "node": "SelectorShape" + }, + { + "property": [ + { + "path": "nsg:start", + "name": "Start offset", + "description": "The starting position of the segment of text. The first character in the full text is character position 0, and the character is included within the segment.", + "datatype": "xsd:integer", + "minInclusive": 0, + "lessThan": "nsg:end", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:end", + "name": "End offset", + "description": "The end position of the segment of text. The character is not included within the segment.", + "datatype": "xsd:integer", + "minInclusive": 0, + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:text", + "name": "Text", + "description": "The segment of text.", + "datatype": "xsd:string", + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "IndexSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorShape" + }, + { + "property": [ + { + "path": "nsg:index", + "name": "Index", + "description": "The index in the document, verbatim (e.g. '1', '2.a', 'III').", + "datatype": "xsd:string", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "FigureSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:FigureSelector", + "node": "IndexSelectorShape" + }, + { + "@id": "EquationSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:EquationSelector", + "node": "IndexSelectorShape" + }, + { + "@id": "TableSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:TableSelector", + "and": [ + { + "node": "IndexSelectorShape" + }, + { + "property": [ + { + "path": "row", + "name": "Row index", + "description": "The index(es) in the table of the row(s) (e.g. '1', '1, 3')." + }, + { + "path": "column", + "name": "Column index", + "description": "The index(es) in the table of the columns(s) (e.g. '1', '1, 3')." + } + ] + } + ] + }, + { + "@id": "FragmentSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorShape" + }, + { + "property": [ + { + "path": "rdf:value", + "name": "Fragment value", + "description": "The contents of the fragment component of an IRI that describes the Segment.", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "dcterms:conformsTo", + "name": "Fragment specification", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "AreaSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:AreaSelector", + "and": [ + { + "node": "FragmentSelectorShape" + }, + { + "property": [ + { + "path": "dcterms:conformsTo", + "comment": "Used format is page=&viewrect=,,,. , and are measured from the top left corner of the page.", + "hasValue": "http://tools.ietf.org/rfc/rfc3778" + } + ] + } + ] + } + ] +} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json new file mode 100644 index 00000000..e265877a --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json @@ -0,0 +1,136 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/" + } + ], + "@type": "nxv:Schema", + "shapes": [ 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"independentVariable": [ + { + "@type": "nsg:AlgebraicVariable", + "quantityType": "nsg:BBP-010001", + "unitCode": "mV" + } + ], + "equation": "prop_inact_ion_curr = 1/(1+exp((potential_membrane - mid_amp_inact)/slope_factor_inact))", + "equationParameters": [ + { + "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/762f45f0-eade-11e5-94e2-64006a4c56ef", + "@type": "nsg:Parameter" + }, + { + "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/7f3542e0-eb82-11e5-ac32-64006a4c56ef", + "@type": "nsg:Parameter" + } + ], + "requiredTag": [ + { + "rootId": "nifext_8054", + "id": "NIFMOL:nifext_8054", + "label": "Transmembrane ionic current" + }, + { + "rootId": "sao1813327414", + "id": "NIFCELL:sao1813327414", + "label": "Cell" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json 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a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json new file mode 100644 index 00000000..6a9a7425 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json @@ -0,0 +1,5 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "comment": "No data on 24.09.18" +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json 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"requiredTag": [ + { + "rootId": "NIFCELL:sao1813327414", + "id": "NIFCELL:nifext_46", + "label": "Thalamus interneuron small" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json new file mode 100644 index 00000000..4df9d0dd --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json @@ -0,0 +1,51 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "name": "p-neuron_density-0ebdc338", + "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "dependentVariable": { + "@type": 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15.0, + 16.0 + ] + } + ] + }, + "independentVariable": [ + { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-002001", + "series": { + "unitCode": "day", + "value": [ + 14.0, + 21.0 + ] + } + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json new file mode 100644 index 00000000..00f05649 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json @@ -0,0 +1,39 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "name": "p-neuron_density-0ebdc338", + "providerId": 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"{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "comment": "No data on 24.09.18" +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json new file mode 100644 index 00000000..9a7a4a5f --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json @@ -0,0 +1,35 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-position-52afbf40", + "providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", + "contribution": { + "agent": [ + { + "@id": 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(m*h). Q_10 = 3" +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json new file mode 100644 index 00000000..36f59599 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json @@ -0,0 +1,41 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-figure-1132613e", + "providerId": "1132613e-31b1-11e8-b594-64006a67e5d0", + "contribution": { + "agent": [ + { + "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", + "@type": "prov:Agent" + } + ] + }, + "hasTarget": { + "@type": 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diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json new file mode 100644 index 00000000..19d624e4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json @@ -0,0 +1,27 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-text-e6914b74", + "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", + "contribution": { + "agent": [ + { + "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", + "@type": "prov:Agent" + }, + { + "@id": 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+} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json new file mode 100644 index 00000000..034cb1c3 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json @@ -0,0 +1,36 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-text-e6914b74", + "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", + "contribution": { + "agent": [ + { + "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", + "@type": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json new file mode 100644 index 00000000..9eaab4fc --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json @@ -0,0 +1,13 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": { + "value": 9864.0 + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json new file mode 100644 index 00000000..c37b34c4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json @@ -0,0 +1,10 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json new file mode 100644 index 00000000..b244792d --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json @@ -0,0 +1,10 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json new file mode 100644 index 00000000..f97014c1 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json @@ -0,0 +1,13 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": { + "unitCode": "um^2" + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json new file mode 100644 index 00000000..8288767d --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json @@ -0,0 +1,26 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + "statistic": "sem", + "unitCode": "mV", + "value": 1.0 + }, + { + "statistic": "N", + "unitCode": "dimensionless", + "value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json new file mode 100644 index 00000000..0d4ca9af --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json @@ -0,0 +1,13 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "series": { + "unitCode": "um^2", + "value": 9864.0 + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json new file mode 100644 index 00000000..54368c3c --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json @@ -0,0 +1,26 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + "statistic": "sem", + "value": 1.0 + }, + { + "statistic": "N", + "unitCode": "dimensionless", + "value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json new file mode 100644 index 00000000..b66920c2 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json @@ -0,0 +1,26 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + "statistic": "sem", + "unitCode": "mV" + }, + { + "statistic": "N", + "unitCode": "dimensionless", + "value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json new file mode 100644 index 00000000..9d822390 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json @@ -0,0 +1,27 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + "statistic": "sem", + "unitCode": "mV", + "value": 1.0 + }, + { + "statistic": "N", + "unitCode": "dimensionless", + "value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json new file mode 100644 index 00000000..091eeca4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json @@ -0,0 +1,14 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002", + "series": { + "unitCode": "um^2", + "value": 9864.0 + } + } +} \ No newline at end of file From 31ed2c23146da83d6a5b64c9adfeca1ddce9e4be Mon Sep 17 00:00:00 2001 From: Pierre-Alexandre Fonta Date: Wed, 24 Oct 2018 18:18:18 +0200 Subject: [PATCH 2/7] Literature Annotation domain model v.0.2.0 --- .../neurosciencegraph/core/data/v1.0.6.json | 629 ++++++++++++++++++ .../neurosciencegraph/core/schema/v0.2.0.json | 9 + .../annotation/{v0.1.0.json => v0.2.0.json} | 37 +- .../parameter/{v0.1.0.json => v0.2.0.json} | 4 +- .../selectors/{v0.1.0.json => v0.2.0.json} | 20 +- .../variables/{v0.1.0.json => v0.2.0.json} | 4 +- .../annotation/{v0.1.0.json => v0.2.0.json} | 24 +- .../selectors/{v0.1.0.json => v0.2.0.json} | 28 +- .../variables/{v0.1.0.json => v0.2.0.json} | 20 +- .../{v0.1.0.json => v0.2.0.json} | 14 +- .../{v0.1.0.json => v0.2.0.json} | 18 +- .../{v0.1.0.json => v0.2.0.json} | 22 +- .../{v0.1.0.json => v0.2.0.json} | 14 +- .../v0.1.0/auto-all-fields.json | 41 -- .../v0.1.0/auto-min-fields.json | 19 - .../v0.2.0/auto-all-fields.json | 51 ++ .../v0.2.0/auto-min-fields.json | 25 + .../auto-all-fields-compound-simple.json | 56 -- .../v0.1.0/auto-all-fields-simple-simple.json | 51 -- .../auto-min-fields-compound-simple.json | 49 -- .../v0.1.0/auto-min-fields-simple-simple.json | 39 -- .../all-fields-compound-compound-ignored.json | 6 +- .../all-fields-simple-compound-ignored.json | 6 +- .../auto-all-fields-compound-simple.json | 62 ++ .../v0.2.0/auto-all-fields-simple-simple.json | 57 ++ .../auto-min-fields-compound-simple.json | 55 ++ .../v0.2.0/auto-min-fields-simple-simple.json | 45 ++ .../min-fields-compound-compound-ignored.json | 6 +- .../min-fields-simple-compound-ignored.json | 6 +- .../v0.1.0/auto-all-fields-area.json | 35 - .../v0.1.0/auto-all-fields-equation.json | 47 -- .../v0.1.0/auto-all-fields-figure.json | 41 -- .../v0.1.0/auto-all-fields-table.json | 53 -- .../v0.1.0/auto-all-fields-text.json | 58 -- .../v0.1.0/auto-min-fields-area.json | 29 - .../v0.1.0/auto-min-fields-equation.json | 36 - .../v0.1.0/auto-min-fields-figure.json | 28 - .../v0.1.0/auto-min-fields-table.json | 30 - .../v0.1.0/auto-min-fields-text.json | 37 -- .../v0.2.0/auto-all-fields-area.json | 46 ++ .../v0.2.0/auto-all-fields-equation.json | 62 ++ .../v0.2.0/auto-all-fields-figure.json | 54 ++ .../v0.2.0/auto-all-fields-table.json | 64 ++ .../v0.2.0/auto-all-fields-text.json | 75 +++ .../v0.2.0/auto-min-fields-area.json | 40 ++ .../v0.2.0/auto-min-fields-equation.json | 51 ++ .../v0.2.0/auto-min-fields-figure.json | 39 ++ .../v0.2.0/auto-min-fields-table.json | 41 ++ .../v0.2.0/auto-min-fields-text.json | 52 ++ .../v0.1.0/auto-all-fields-compound.json | 34 - .../v0.1.0/auto-all-fields-simple.json | 21 - .../v0.1.0/auto-min-fields-compound.json | 27 - .../v0.1.0/auto-min-fields-simple.json | 14 - .../v0.2.0/auto-all-fields-compound.json | 38 ++ .../v0.2.0/auto-all-fields-simple.json | 25 + .../v0.2.0/auto-min-fields-compound.json | 31 + .../v0.2.0/auto-min-fields-simple.json | 18 + .../v0.1.0/auto-missing-equation.json | 18 - .../v0.2.0/auto-missing-equation.json | 24 + ...uto-missing-indpendentvariable-simple.json | 22 - ...riable-series-compound-instead-simple.json | 54 -- ...riable-series-simple-instead-compound.json | 39 -- ...uto-missing-indpendentvariable-simple.json | 26 + ...riable-series-compound-instead-simple.json | 60 ++ ...riable-series-simple-instead-compound.json | 45 ++ .../v0.1.0/auto-missing-contribution.json | 25 - .../auto-missing-contributionshape-agent.json | 26 - .../v0.1.0/auto-missing-entityshape-name.json | 36 - ...sing-fragmentselectorshape-conformsto.json | 28 - ...o-missing-fragmentselectorshape-value.json | 28 - .../v0.1.0/auto-missing-hasbody.json | 27 - .../v0.1.0/auto-missing-hastarget.json | 28 - ...auto-missing-indexselectorshape-index.json | 27 - ...missing-selectortargetshape-hassource.json | 36 - ...missing-textpositionselectorshape-end.json | 36 - ...ssing-textpositionselectorshape-start.json | 36 - ...g-textpositiontargetshape-hasselector.json | 32 - .../v0.1.0/empty-contributionshape-agent.json | 28 - .../v0.1.0/empty-hasbody.json | 28 - .../v0.2.0/auto-missing-contribution.json | 36 + .../auto-missing-contributionshape-agent.json | 37 ++ .../v0.2.0/auto-missing-entityshape-name.json | 51 ++ ...sing-fragmentselectorshape-conformsto.json | 39 ++ ...o-missing-fragmentselectorshape-value.json | 39 ++ .../v0.2.0/auto-missing-hasbody.json | 38 ++ .../v0.2.0/auto-missing-hastarget.json | 39 ++ ...auto-missing-indexselectorshape-index.json | 38 ++ ...missing-selectortargetshape-hassource.json | 51 ++ ...missing-textpositionselectorshape-end.json | 51 ++ ...ssing-textpositionselectorshape-start.json | 51 ++ ...g-textpositiontargetshape-hasselector.json | 45 ++ .../v0.2.0/empty-contributionshape-agent.json | 39 ++ .../v0.2.0/empty-hasbody.json | 39 ++ ...g-algebraicvalueshape-unitcode-simple.json | 13 - .../v0.1.0/auto-missing-series-compound.json | 10 - .../v0.1.0/auto-missing-series-simple.json | 10 - .../auto-missing-valueshape-value-simple.json | 13 - ...g-variableshape-quantitytype-compound.json | 26 - ...ing-variableshape-quantitytype-simple.json | 13 - ...algebraicvalueshape-unitcode-compound.json | 26 - .../missing-valueshape-value-compound.json | 26 - .../series-compound-instead-simple.json | 27 - .../series-simple-instead-compound.json | 14 - ...g-algebraicvalueshape-unitcode-simple.json | 17 + .../v0.2.0/auto-missing-series-compound.json | 14 + .../v0.2.0/auto-missing-series-simple.json | 14 + .../auto-missing-valueshape-value-simple.json | 17 + ...g-variableshape-quantitytype-compound.json | 30 + ...ing-variableshape-quantitytype-simple.json | 17 + ...algebraicvalueshape-unitcode-compound.json | 30 + .../missing-valueshape-value-compound.json | 30 + .../series-compound-instead-simple.json | 31 + .../series-simple-instead-compound.json | 18 + 113 files changed, 2655 insertions(+), 1586 deletions(-) create mode 100644 modules/commons/src/main/resources/contexts/neurosciencegraph/core/data/v1.0.6.json create mode 100644 modules/commons/src/main/resources/contexts/neurosciencegraph/core/schema/v0.2.0.json rename modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/{v0.1.0.json => v0.2.0.json} (84%) rename modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/{v0.1.0.json => v0.2.0.json} (83%) rename modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/{v0.1.0.json => v0.2.0.json} (91%) rename modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/{v0.1.0.json => v0.2.0.json} (97%) rename modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/{v0.1.0.json => v0.2.0.json} (76%) rename modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/{v0.1.0.json => v0.2.0.json} (72%) rename modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/{v0.1.0.json => v0.2.0.json} (77%) rename modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/{v0.1.0.json => v0.2.0.json} (79%) rename modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/{v0.1.0.json => v0.2.0.json} (76%) rename modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/{v0.1.0.json => v0.2.0.json} (72%) rename modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/{v0.1.0.json => v0.2.0.json} (75%) delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-min-fields.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json rename modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/{v0.1.0 => v0.2.0}/all-fields-compound-compound-ignored.json (63%) rename modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/{v0.1.0 => v0.2.0}/all-fields-simple-compound-ignored.json (63%) create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-compound-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-compound-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-simple-simple.json rename modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/{v0.1.0 => v0.2.0}/min-fields-compound-compound-ignored.json (63%) rename modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/{v0.1.0 => v0.2.0}/min-fields-simple-compound-ignored.json (63%) delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-text.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-area.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-figure.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-table.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-text.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-area.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-equation.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-figure.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-table.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-text.json create mode 100644 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modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json diff --git a/modules/commons/src/main/resources/contexts/neurosciencegraph/core/data/v1.0.6.json b/modules/commons/src/main/resources/contexts/neurosciencegraph/core/data/v1.0.6.json new file mode 100644 index 00000000..75926752 --- /dev/null +++ b/modules/commons/src/main/resources/contexts/neurosciencegraph/core/data/v1.0.6.json @@ -0,0 +1,629 @@ +{ + "@context": [ + "{{base}}/contexts/nexus/core/provo20130430/v1.0.0", + "{{base}}/contexts/nexus/core/schemaorg/v3.3.0", + "{{base}}/contexts/nexus/core/standards/v0.1.0", + { + "@vocab": "https://bbp-nexus.epfl.ch/vocabs/bbp/neurosciencegraph/core/v0.1.0/", + "nsg": 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"sliceInterval": { + "@id": "nsg:sliceInterval" + }, + "widthResolution": { + "@id": "nsg:widthResolution" + }, + "heightResolution": { + "@id": "nsg:heightResolution" + }, + "sliceIntervalValue": { + "@id": "nsg:sliceIntervalValue" + }, + "emodelIndex": { + "@id": "nsg:emodelIndex" + }, + "morphologyIndex": { + "@id": "nsg:morphologyIndex" + }, + "eModel": { + "@id": "nsg:eModel" + }, + "emodelRelease": { + "@id": "nsg:emodelRelease" + }, + "morphologyRelease": { + "@id": "nsg:morphologyRelease" + }, + "memodelIndex": { + "@id": "nsg:memodelIndex" + }, + "circuitCellProperties": { + "@id": "nsg:circuitCellProperties" + }, + "property": { + "@id": "nsg:property" + }, + "edgeCollection": { + "@id": "nsg:edgeCollection" + }, + "morphology": { + "@id": "nsg:morphology" + }, + "mainModelScript": { + "@id": "nsg:mainModelScript" + }, + "name": { + "@id": "schema:name" + }, + "version": { + "@id": "schema:version" + }, + "isPartOf": { + "@id": "dcterms:isPartOf", + "@type": "@id" + }, + "view2d": { + "@id": "nsg:view2d" + }, + "view3d": { + "@id": "nsg:view3d" + }, + "wasDerivedFrom": { + "@id": "prov:wasDerivedFrom" + }, + "experimentalCellList": { + "@id": "nsg:experimentalCellList" + }, + "masterListConfiguration": { + "@id": "nsg:masterListConfiguration" + }, + "experimentalTraceLocation": { + "@id": "nsg:experimentalTraceLocation" + }, + "stimuliToExperimentMap": { + "@id": "nsg:stimuliToExperimentMap" + }, + "featureExtractionConfiguration": { + "@id": "nsg:featureExtractionConfiguration" + }, + "configurationUsed": { + "@id": "nsg:configurationUsed" + }, + "features": { + "@id": "nsg:features" + }, + "hypampThreshold": { + "@id": "nsg:hypampThreshold" + }, + "storageType": { + "@type": "@id", + "@id": "nsg:storageType" + }, + "gpfs": { + "@id": "http://bbp.epfl.ch/neurosciencegraph/taxonomies/storagetypes/gpfs" + }, + "cellLine": { + "@id": "nsg:cellLine" + }, + "ionChannelGene": { + "@id": "nsg:ionChannelGene" + }, + "atlasSpatialReferenceSystem": { + "@id": "nsg:atlasSpatialReferenceSystem" + }, + "repository": { + "@id": "nsg:repository" + }, + "image": { + "@id": "schema:image" + }, + "mTypeAnnotation": { + "@id": "nsg:mTypeAnnotation" + }, + "oa:hasBody": { + "@type": "@id" + }, + "oa:hasTarget": { + "@type": "@id" + }, + "oa:hasSource": { + "@type": "@id" + }, + "oa:hasSelector": { + "@type": "@id" + }, + "dcterms:conformsTo": { + "@type": "@id" + } + } + ] +} diff --git a/modules/commons/src/main/resources/contexts/neurosciencegraph/core/schema/v0.2.0.json b/modules/commons/src/main/resources/contexts/neurosciencegraph/core/schema/v0.2.0.json new file mode 100644 index 00000000..34bc58c1 --- /dev/null +++ b/modules/commons/src/main/resources/contexts/neurosciencegraph/core/schema/v0.2.0.json @@ -0,0 +1,9 @@ +{ + "@context": [ + "{{base}}/contexts/nexus/core/schema/v0.2.0", + { + "nsg": "https://bbp-nexus.epfl.ch/vocabs/bbp/neurosciencegraph/core/v0.1.0/", + "oa": "http://www.w3.org/ns/oa#" + } + ] +} diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json similarity index 84% rename from modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json rename to modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json index 5c43b1c6..a2c6e640 100644 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json @@ -1,13 +1,13 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/" } ], "imports": [ "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0", - "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ @@ -15,6 +15,7 @@ "@id": "AnnotationShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", + "class": "oa:Annotation", "and": [ { "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" @@ -30,14 +31,14 @@ "maxCount": 1 }, { - "path": "nsg:hasTarget", + "path": "oa:hasTarget", "name": "Target", "description": "The relationship between an Annotation and its Target.", "node": "TargetShape", "minCount": 1 }, { - "path": "nsg:hasBody", + "path": "oa:hasBody", "name": "Body", "description": "The relationship between an Annotation and its Body.", "node": "BodyShape" @@ -62,17 +63,17 @@ { "property": [ { - "path": "nsg:hasSource", + "path": "oa:hasSource", "name": "Source", "description": "The relationship between a Specific Resource and the resource that it is a more specific representation of.", "minCount": 1, "maxCount": 1 }, { - "path": "nsg:hasSelector", + "path": "oa:hasSelector", "name": "Selector", "description": "The relationship between a Specific Resource and a Selector.", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/SelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/SelectorShape" } ] } @@ -89,8 +90,8 @@ { "property": [ { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TextPositionSelectorShape", + "path": "oa:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TextPositionSelectorShape", "minCount": 1, "maxCount": 1 } @@ -109,8 +110,8 @@ { "property": [ { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FigureSelectorShape", + "path": "oa:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/FigureSelectorShape", "minCount": 1, "maxCount": 1 } @@ -129,8 +130,8 @@ { "property": [ { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/EquationSelectorShape", + "path": "oa:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/EquationSelectorShape", "minCount": 1, "maxCount": 1 } @@ -149,8 +150,8 @@ { "property": [ { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TableSelectorShape", + "path": "oa:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TableSelectorShape", "minCount": 1, "maxCount": 1 } @@ -169,8 +170,8 @@ { "property": [ { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/AreaSelectorShape", + "path": "oa:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/AreaSelectorShape", "minCount": 1, "maxCount": 1 } diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json similarity index 83% rename from modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json rename to modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json index c57ac3cb..b4d392ed 100644 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json @@ -1,8 +1,8 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/" } ], "imports": [ diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.2.0.json similarity index 91% rename from modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json rename to modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.2.0.json index f86adf12..273b98af 100644 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.2.0.json @@ -1,8 +1,8 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/" } ], "@type": "nxv:Schema", @@ -25,7 +25,7 @@ "@id": "TextPositionSelectorShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:TextPositionSelector", + "class": "oa:TextPositionSelector", "and": [ { "node": "SelectorShape" @@ -33,17 +33,17 @@ { "property": [ { - "path": "nsg:start", + "path": "oa:start", "name": "Start offset", "description": "The starting position of the segment of text. The first character in the full text is character position 0, and the character is included within the segment.", "datatype": "xsd:integer", "minInclusive": 0, - "lessThan": "nsg:end", + "lessThan": "oa:end", "minCount": 1, "maxCount": 1 }, { - "path": "nsg:end", + "path": "oa:end", "name": "End offset", "description": "The end position of the segment of text. The character is not included within the segment.", "datatype": "xsd:integer", @@ -110,12 +110,12 @@ { "property": [ { - "path": "row", + "path": "nsg:row", "name": "Row index", "description": "The index(es) in the table of the row(s) (e.g. '1', '1, 3')." }, { - "path": "column", + "path": "nsg:column", "name": "Column index", "description": "The index(es) in the table of the columns(s) (e.g. '1', '1, 3')." } @@ -164,7 +164,9 @@ { "path": "dcterms:conformsTo", "comment": "Used format is page=&viewrect=,,,. , and are measured from the top left corner of the page.", - "hasValue": "http://tools.ietf.org/rfc/rfc3778" + "hasValue": { + "@id": "http://tools.ietf.org/rfc/rfc3778" + } } ] } diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json similarity index 97% rename from modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json rename to modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json index e265877a..acc4e0c2 100644 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json @@ -1,8 +1,8 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/" } ], "@type": "nxv:Schema", diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json similarity index 76% rename from modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json rename to modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json index 1e039f30..f71658cd 100644 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json +++ b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json @@ -1,62 +1,62 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/core/annotation/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/core/annotation/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ { "@id": "AnnotationShape", "@type": "sh:NodeShape", - "targetClass": "nsg:Annotation", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AnnotationShape" + "targetClass": "oa:Annotation", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AnnotationShape" }, { "@id": "SelectorTargetShape", "@type": "sh:NodeShape", "targetClass": "nsg:SelectorTargetShape", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/SelectorTarget" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/SelectorTarget" }, { "@id": "TextPositionTargetShape", "@type": "sh:NodeShape", "targetClass": "nsg:TextPositionTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TextPositionTargetShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TextPositionTargetShape" }, { "@id": "FigureTargetShape", "@type": "sh:NodeShape", "targetClass": "nsg:FigureTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/FigureTargetShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/FigureTargetShape" }, { "@id": "EquationTargetShape", "@type": "sh:NodeShape", "targetClass": "nsg:EquationTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/EquationTargetShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/EquationTargetShape" }, { "@id": "TableTargetShape", "@type": "sh:NodeShape", "targetClass": "nsg:TableTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TableTargetShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TableTargetShape" }, { "@id": "AreaTargetShape", "@type": "sh:NodeShape", "targetClass": "nsg:AreaTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AreaTargetShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AreaTargetShape" }, { "@id": "ContributionShape", "@type": "sh:NodeShape", "targetClass": "nsg:Contribution", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/ContributionShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/ContributionShape" } ] } \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json similarity index 72% rename from modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json rename to modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json index 3a40b13f..e7ae619d 100644 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json +++ b/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json @@ -1,63 +1,63 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/core/selectors/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/core/selectors/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ { "@id": "SelectorShape", "@type": "sh:NodeShape", - "targetClass": "nsg:Selector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/SelectorShape" + "targetClass": "oa:Selector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/SelectorShape" }, { "@id": "TextPositionSelectorShape", "@type": "sh:NodeShape", - "targetClass": "nsg:TextPositionSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TextPositionSelectorShape" + "targetClass": "oa:TextPositionSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TextPositionSelectorShape" }, { "@id": "IndexSelectorShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", "targetClass": "nsg:IndexSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/IndexSelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/IndexSelectorShape" }, { "@id": "FigureSelectorShape", "@type": "sh:NodeShape", "targetClass": "nsg:FigureSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FigureSelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/FigureSelectorShape" }, { "@id": "EquationSelectorShape", "@type": "sh:NodeShape", "targetClass": "nsg:EquationSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/EquationSelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/EquationSelectorShape" }, { "@id": "TableSelectorShape", "@type": "sh:NodeShape", "targetClass": "nsg:TableSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TableSelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TableSelectorShape" }, { "@id": "FragmentSelectorShape", "@type": "sh:NodeShape", - "targetClass": "nsg:FragmentSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FragmentSelectorShape" + "targetClass": "oa:FragmentSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/FragmentSelectorShape" }, { "@id": "AreaSelectorShape", "@type": "sh:NodeShape", "targetClass": "nsg:AreaSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/AreaSelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/AreaSelectorShape" } ] } \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json similarity index 77% rename from modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json rename to modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json index eb921061..0ed03661 100644 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json +++ b/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json @@ -1,12 +1,12 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ @@ -14,43 +14,43 @@ "@id": "AlgebraicValueShape", "@type": "sh:NodeShape", "targetClass": "nsg:AlgebraicValue", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicValueShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicValueShape" }, { "@id": "ValueShape", "@type": "sh:NodeShape", "targetClass": "nsg:Value", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/ValueShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/ValueShape" }, { "@id": "VariableShape", "@type": "sh:NodeShape", "targetClass": "nsg:Variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/VariableShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/VariableShape" }, { "@id": "NumericalVariableShape", "@type": "sh:NodeShape", "targetClass": "nsg:NumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/NumericalVariableShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/NumericalVariableShape" }, { "@id": "SimpleNumericalVariableShape", "@type": "sh:NodeShape", "targetClass": "nsg:SimpleNumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape" }, { "@id": "CompoundNumericalVariableShape", "@type": "sh:NodeShape", "targetClass": "nsg:CompoundNumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape" }, { "@id": "AlgebraicVariableShape", "@type": "sh:NodeShape", "targetClass": "nsg:AlgebraicVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicVariableShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicVariableShape" } ] } \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json similarity index 79% rename from modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json rename to modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json index a1a42b42..d68222d2 100644 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json +++ b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json @@ -1,13 +1,13 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0", + "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ @@ -19,21 +19,21 @@ "comment": "Parameter shape for a functional relationship between independent and dependent variables.", "and": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/ParameterShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/ParameterShape" }, { "property": [ { "path": "nsg:dependentVariable", "name": "Dependent variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicVariableShape", "class": "nsg:AlgebraicVariable", "minCount": 1 }, { "path": "nsg:independentVariable", "name": "Independent variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicVariableShape", "class": "nsg:AlgebraicVariable", "minCount": 1 }, diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json similarity index 76% rename from modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0.json rename to modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json index 76908b5d..ae2e9250 100644 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0.json +++ b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json @@ -1,13 +1,13 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0", + "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ @@ -19,7 +19,7 @@ "comment": "Parameter shape for the values of (an) independent variable(s) associated with the values of (a) dependent variable(s).", "and": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/ParameterShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/ParameterShape" }, { "property": [ @@ -28,11 +28,11 @@ "name": "Dependent variable", "sh:xone": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape", "class": "nsg:SimpleNumericalVariable" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape", "class": "nsg:CompoundNumericalVariable" } ], @@ -43,11 +43,11 @@ "name": "Independent variable", "sh:xone": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape", "class": "nsg:SimpleNumericalVariable" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape", "class": "nsg:CompoundNumericalVariable" } ], diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json similarity index 72% rename from modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json rename to modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json index 3e31bbe3..f8863d04 100644 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json +++ b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json @@ -1,12 +1,12 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/core/annotation/v0.1.0" + "{{base}}/schemas/neurosciencegraph/core/annotation/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ @@ -17,38 +17,38 @@ "targetClass": "nsg:ParameterAnnotation", "and": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AnnotationShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AnnotationShape" }, { "property": [ { - "path": "nsg:hasTarget", + "path": "oa:hasTarget", "sh:xone": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TextPositionTargetShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TextPositionTargetShape", "class": "nsg:TextPositionTarget" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/FigureTargetShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/FigureTargetShape", "class": "nsg:FigureTarget" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/EquationTargetShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/EquationTargetShape", "class": "nsg:EquationTarget" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TableTargetShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TableTargetShape", "class": "nsg:TableTarget" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AreaTargetShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AreaTargetShape", "class": "nsg:AreaTarget" } ], "maxCount": 1 }, { - "path": "nsg:hasBody", + "path": "oa:hasBody", "nodeKind": "sh:IRI", "class": "nsg:Parameter", "minCount": 1 diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json similarity index 75% rename from modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json rename to modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json index 0f2257cc..806fefd3 100644 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json +++ b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json @@ -1,13 +1,13 @@ { "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/shapes/" + "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/shapes/" } ], "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0" + "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0", + "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ @@ -19,7 +19,7 @@ "comment": "Parameter shape for the value(s) of an unidimensional variable (i.e., not establishing a relationship between a dependant and an independent variable).", "and": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/ParameterShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/ParameterShape" }, { "property": [ @@ -28,11 +28,11 @@ "name": "Dependent variable", "sh:xone": [ { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape", "class": "nsg:SimpleNumericalVariable" }, { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape", + "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape", "class": "nsg:CompoundNumericalVariable" } ], diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json deleted file mode 100644 index 5301afa2..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json +++ /dev/null @@ -1,41 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:FunctionParameter", - "name": "p-prop_inact_ion_curr-71233092", - "providerId": "71233092-eb80-11e5-a9b7-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:AlgebraicVariable", - "quantityType": "nsg:BBP-050002", - "unitCode": "dimensionless" - }, - "independentVariable": [ - { - "@type": "nsg:AlgebraicVariable", - "quantityType": "nsg:BBP-010001", - "unitCode": "mV" - } - ], - "equation": "prop_inact_ion_curr = 1/(1+exp((potential_membrane - mid_amp_inact)/slope_factor_inact))", - "equationParameters": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/762f45f0-eade-11e5-94e2-64006a4c56ef", - "@type": "nsg:Parameter" - }, - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/7f3542e0-eb82-11e5-ac32-64006a4c56ef", - "@type": "nsg:Parameter" - } - ], - "requiredTag": [ - { - "rootId": "nifext_8054", - "id": "NIFMOL:nifext_8054", - "label": "Transmembrane ionic current" - }, - { - "rootId": "sao1813327414", - "id": "NIFCELL:sao1813327414", - "label": "Cell" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json deleted file mode 100644 index 8191aba2..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json +++ /dev/null @@ -1,19 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:FunctionParameter", - "name": "p-prop_inact_ion_curr-71233092", - "providerId": "71233092-eb80-11e5-a9b7-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:AlgebraicVariable", - "quantityType": "nsg:BBP-050002", - "unitCode": "dimensionless" - }, - "independentVariable": [ - { - "@type": "nsg:AlgebraicVariable", - "quantityType": "nsg:BBP-010001", - "unitCode": "mV" - } - ], - "equation": "prop_inact_ion_curr = 1/(1+exp((potential_membrane - mid_amp_inact)/slope_factor_inact))" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json new file mode 100644 index 00000000..5d10209f --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json @@ -0,0 +1,51 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:FunctionParameter" + ], + "schema:name": "p-prop_inact_ion_curr-71233092", + "nsg:providerId": "71233092-eb80-11e5-a9b7-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:AlgebraicVariable" + ], + "nsg:quantityType": "BBP-050002", + "schema:unitCode": "dimensionless" + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:AlgebraicVariable" + ], + "nsg:quantityType": "BBP-010001", + "schema:unitCode": "mV" + } + ], + "nsg:equation": "prop_inact_ion_curr = 1/(1+exp((potential_membrane - mid_amp_inact)/slope_factor_inact))", + "nsg:equationParameter": [ + { + "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/762f45f0-eade-11e5-94e2-64006a4c56ef", + "@type": [ + "nsg:Parameter" + ] + }, + { + "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/7f3542e0-eb82-11e5-ac32-64006a4c56ef", + "@type": [ + "nsg:Parameter" + ] + } + ], + "nsg:requiredTag": [ + { + "nsg:rootId": "nifext_8054", + "@id": "NIFMOL:nifext_8054", + "rdfs:label": "Transmembrane ionic current" + }, + { + "nsg:rootId": "sao1813327414", + "@id": "NIFCELL:sao1813327414", + "rdfs:label": "Cell" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-min-fields.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-min-fields.json new file mode 100644 index 00000000..d789fd7b --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-min-fields.json @@ -0,0 +1,25 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:FunctionParameter" + ], + "schema:name": "p-prop_inact_ion_curr-71233092", + "nsg:providerId": "71233092-eb80-11e5-a9b7-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:AlgebraicVariable" + ], + "nsg:quantityType": "BBP-050002", + "schema:unitCode": "dimensionless" + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:AlgebraicVariable" + ], + "nsg:quantityType": "BBP-010001", + "schema:unitCode": "mV" + } + ], + "nsg:equation": "prop_inact_ion_curr = 1/(1+exp((potential_membrane - mid_amp_inact)/slope_factor_inact))" +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json deleted file mode 100644 index a2eaf7c8..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json +++ /dev/null @@ -1,56 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-spine_number_per_cell-db0e39fe", - "providerId": "db0e39fe-9a9c-11e6-974a-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-121008", - "series": [ - { - "statistic": "mean", - "unitCode": "dimensionless", - "value": [ - 109.6, - 81.6 - ] - }, - { - "statistic": "sem", - "unitCode": "dimensionless", - "value": [ - 27.1, - 15.1 - ] - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": [ - 15.0, - 16.0 - ] - } - ] - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 14.0, - 21.0 - ] - } - } - ], - "requiredTag": [ - { - "rootId": "NIFCELL:sao1813327414", - "id": "NIFCELL:nifext_46", - "label": "Thalamus interneuron small" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json deleted file mode 100644 index 4df9d0dd..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json +++ /dev/null @@ -1,51 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-neuron_density-0ebdc338", - "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-131001", - "series": { - "statistic": "mean", - "unitCode": "mm^-3", - "value": [ - 278146.0, - 170264.0, - 88874.4, - 51258.8, - 50132.7, - 27815.8 - ] - } - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 0.0, - 3.0, - 6.0, - 12.0, - 21.0, - 30.0 - ] - } - } - ], - "requiredTag": [ - { - "rootId": "NIFGA:birnlex_1167", - "id": "NIFGA:birnlex_1116", - "label": "Ventral posterior nucleus" - }, - { - "rootId": "NIFCELL:sao1813327414", - "id": "NIFCELL:nlx_cell_20081203", - "label": "Thalamus relay cell" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json deleted file mode 100644 index f042d918..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json +++ /dev/null @@ -1,49 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-spine_number_per_cell-db0e39fe", - "providerId": "db0e39fe-9a9c-11e6-974a-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-121008", - "series": [ - { - "statistic": "mean", - "unitCode": "dimensionless", - "value": [ - 109.6, - 81.6 - ] - }, - { - "statistic": "sem", - "unitCode": "dimensionless", - "value": [ - 27.1, - 15.1 - ] - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": [ - 15.0, - 16.0 - ] - } - ] - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 14.0, - 21.0 - ] - } - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json deleted file mode 100644 index 00f05649..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json +++ /dev/null @@ -1,39 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-neuron_density-0ebdc338", - "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-131001", - "series": { - "statistic": "mean", - "unitCode": "mm^-3", - "value": [ - 278146.0, - 170264.0, - 88874.4, - 51258.8, - 50132.7, - 27815.8 - ] - } - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 0.0, - 3.0, - 6.0, - 12.0, - 21.0, - 30.0 - ] - } - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-compound-compound-ignored.json similarity index 63% rename from modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json rename to modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-compound-compound-ignored.json index 6a9a7425..bf2202eb 100644 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-compound-compound-ignored.json @@ -1,5 +1,7 @@ { - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], "comment": "No data on 24.09.18" } \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-simple-compound-ignored.json similarity index 63% rename from modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json rename to modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-simple-compound-ignored.json index 6a9a7425..bf2202eb 100644 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-simple-compound-ignored.json @@ -1,5 +1,7 @@ { - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], "comment": "No data on 24.09.18" } \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-compound-simple.json new file mode 100644 index 00000000..0c80e0cd --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-compound-simple.json @@ -0,0 +1,62 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], + "schema:name": "p-spine_number_per_cell-db0e39fe", + "nsg:providerId": "db0e39fe-9a9c-11e6-974a-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-121008", + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "dimensionless", + "schema:value": [ + 109.6, + 81.6 + ] + }, + { + "nsg:statistic": "sem", + "schema:unitCode": "dimensionless", + "schema:value": [ + 27.1, + 15.1 + ] + }, + { + "nsg:statistic": "N", + "schema:unitCode": "dimensionless", + "schema:value": [ + 15.0, + 16.0 + ] + } + ] + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-002001", + "nsg:series": { + "schema:unitCode": "day", + "schema:value": [ + 14.0, + 21.0 + ] + } + } + ], + "nsg:requiredTag": [ + { + "nsg:rootId": "NIFCELL:sao1813327414", + "@id": "NIFCELL:nifext_46", + "rdfs:label": "Thalamus interneuron small" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json new file mode 100644 index 00000000..c4b291af --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json @@ -0,0 +1,57 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], + "schema:name": "p-neuron_density-0ebdc338", + "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-131001", + "nsg:series": { + "nsg:statistic": "mean", + "schema:unitCode": "mm^-3", + "schema:value": [ + 278146.0, + 170264.0, + 88874.4, + 51258.8, + 50132.7, + 27815.8 + ] + } + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-002001", + "nsg:series": { + "schema:unitCode": "day", + "schema:value": [ + 0.0, + 3.0, + 6.0, + 12.0, + 21.0, + 30.0 + ] + } + } + ], + "nsg:requiredTag": [ + { + "nsg:rootId": "NIFGA:birnlex_1167", + "@id": "NIFGA:birnlex_1116", + "rdfs:label": "Ventral posterior nucleus" + }, + { + "nsg:rootId": "NIFCELL:sao1813327414", + "@id": "NIFCELL:nlx_cell_20081203", + "rdfs:label": "Thalamus relay cell" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-compound-simple.json new file mode 100644 index 00000000..84fd46c8 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-compound-simple.json @@ -0,0 +1,55 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], + "schema:name": "p-spine_number_per_cell-db0e39fe", + "nsg:providerId": "db0e39fe-9a9c-11e6-974a-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-121008", + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "dimensionless", + "schema:value": [ + 109.6, + 81.6 + ] + }, + { + "nsg:statistic": "sem", + "schema:unitCode": "dimensionless", + "schema:value": [ + 27.1, + 15.1 + ] + }, + { + "nsg:statistic": "N", + "schema:unitCode": "dimensionless", + "schema:value": [ + 15.0, + 16.0 + ] + } + ] + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-002001", + "nsg:series": { + "schema:unitCode": "day", + "schema:value": [ + 14.0, + 21.0 + ] + } + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-simple-simple.json new file mode 100644 index 00000000..f867052c --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-simple-simple.json @@ -0,0 +1,45 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], + "schema:name": "p-neuron_density-0ebdc338", + "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-131001", + "nsg:series": { + "nsg:statistic": "mean", + "schema:unitCode": "mm^-3", + "schema:value": [ + 278146.0, + 170264.0, + 88874.4, + 51258.8, + 50132.7, + 27815.8 + ] + } + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-002001", + "nsg:series": { + "schema:unitCode": "day", + "schema:value": [ + 0.0, + 3.0, + 6.0, + 12.0, + 21.0, + 30.0 + ] + } + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json similarity index 63% rename from modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json rename to modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json index 6a9a7425..bf2202eb 100644 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json @@ -1,5 +1,7 @@ { - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], "comment": "No data on 24.09.18" } \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-simple-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json similarity index 63% rename from modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-simple-compound-ignored.json rename to modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json index 6a9a7425..bf2202eb 100644 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-simple-compound-ignored.json +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json @@ -1,5 +1,7 @@ { - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], "comment": "No data on 24.09.18" } \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json deleted file mode 100644 index 9a7a4a5f..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json +++ /dev/null @@ -1,35 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-position-52afbf40", - "providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - "@type": "nsg:AreaTarget", - "hasSource": "https://doi.org/10.1038/367069a0", - "hasSelector": { - "@type": "nsg:AreaSelector", - "rdf:value": "page=1&viewrect=0.23699421965317918,0.8180169286577993,0.14285714285714285,0.012091898428053138", - "dcterms:conformsTo": "http://tools.ietf.org/rfc/rfc3778" - } - }, - "hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/dd8c0513-25e8-4aba-aa73-ef750648f250", - "@type": "nsg:Parameter" - } - ], - "keywords": [ - { - "@id": "NIFORG:birnlex_254", - "label": "Wistar Rat" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json deleted file mode 100644 index 1fe138e6..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json +++ /dev/null @@ -1,47 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-equation-c3af1a82", - "providerId": "c3af1a82-c5a7-11e5-b8a7-3417ebb8f5ca", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": "prov:Agent" - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - "@type": "nsg:EquationTarget", - "hasSource": "https://doi.org/10.1152/jn.00647.2013", - "hasSelector": { - "@type": "nsg:EquationSelector", - "index": "(7) and (8) and (9)" - } - }, - "hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/b6ea1f34-0a31-4b3d-af7c-99cc9eee7e13", - "@type": "nsg:Parameter" - }, - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/1eff4a5b-4b80-42c7-bfdd-ed500d4470a8", - "@type": "nsg:Parameter" - } - ], - "keywords": [ - { - "@id": "nlx_151691", - "label": "Thalamus ventroposterior nucleus principal neuron" - }, - { - "@id": "NIFORG:birnlex_167", - "label": "Mouse" - } - ], - "comment": "Sodium persistend current, from mesencephalic tregeminal sensory neurons rats. (m*h). Q_10 = 3" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json deleted file mode 100644 index 36f59599..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json +++ /dev/null @@ -1,41 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-figure-1132613e", - "providerId": "1132613e-31b1-11e8-b594-64006a67e5d0", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - "@type": "nsg:FigureTarget", - "hasSource": "https://doi.org/10.1097/nen.0b013e31815f3899", - "hasSelector": { - "@type": "nsg:FigureSelector", - "index": "1.B" - } - }, - "hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/fce8e4a0-15bf-4be1-a6ec-be08d9398c53", - "@type": "nsg:Parameter" - } - ], - "keywords": [ - { - "@id": "NIFORG:birnlex_393", - "label": "C57BL/6J" - } - ], - "comment": "Used N=5.5 since in the paper it is written as 5-6.", - "experimentalProperties": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/9e7de368-894d-4d68-8c75-97fc251da323", - "@type": "nsg:Parameter" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json deleted file mode 100644 index 2188bbeb..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json +++ /dev/null @@ -1,53 +0,0 @@ -{ - 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"nsg:AlgebraicVariable" + ], + "nsg:quantityType": "BBP-010001", + "schema:unitCode": "mV" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-missing-indpendentvariable-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-missing-indpendentvariable-simple.json deleted file mode 100644 index 348eebe8..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-missing-indpendentvariable-simple.json +++ /dev/null @@ -1,22 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-neuron_density-0ebdc338", - "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "dependentVariable": { - "@type": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json deleted file mode 100644 index 4fa572e4..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json +++ /dev/null @@ -1,39 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-neuron_density-0ebdc338", - "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-131001", - "series": { - "statistic": "mean", - "unitCode": 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"{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], + "schema:name": "p-neuron_density-0ebdc338", + "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-131001", + "nsg:series": { + "nsg:statistic": "mean", + "schema:unitCode": "mm^-3", + "schema:value": [ + 278146.0, + 170264.0, + 88874.4, + 51258.8, + 50132.7, + 27815.8 + ] + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/independentvariable-series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/independentvariable-series-compound-instead-simple.json new file mode 100644 index 00000000..84d57baf --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/independentvariable-series-compound-instead-simple.json @@ -0,0 +1,60 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:NumericalTraceParameter" + ], + "schema:name": "p-neuron_density-0ebdc338", + "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-131001", + "nsg:series": { + "nsg:statistic": "mean", + "schema:unitCode": "mm^-3", + "schema:value": [ + 278146.0, + 170264.0, + 88874.4, + 51258.8, + 50132.7, + 27815.8 + ] + } + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-002001", + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "dimensionless", + "schema:value": [ + 109.6, + 81.6 + ] + }, + { + "nsg:statistic": 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"nsg:NumericalTraceParameter" + ], + "schema:name": "p-neuron_density-0ebdc338", + "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-131001", + "nsg:series": { + "nsg:statistic": "mean", + "schema:unitCode": "mm^-3", + "schema:value": [ + 278146.0, + 170264.0, + 88874.4, + 51258.8, + 50132.7, + 27815.8 + ] + } + }, + "nsg:independentVariable": [ + { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-002001", + "nsg:series": { + "schema:unitCode": "day", + "schema:value": [ + 0.0, + 3.0, + 6.0, + 12.0, + 21.0, + 30.0 + ] + } + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contribution.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contribution.json deleted file mode 100644 index b9b0e27a..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contribution.json +++ /dev/null @@ -1,25 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "hasTarget": { - "@type": "nsg:TextPositionTarget", - "hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015", - "hasSelector": { - "@type": "nsg:TextPositionSelector", - "start": 23171, - "end": 23212 - } - }, - "hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/b0435a19-dcde-4828-9e7e-7a1d7792b1a9", - "@type": "nsg:Parameter" - }, - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/0fe01a40-5c9c-4f9a-a673-9224e50c28c8", - "@type": "nsg:Parameter" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contributionshape-agent.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contributionshape-agent.json deleted file mode 100644 index 8116f460..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contributionshape-agent.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-entityshape-name.json +++ /dev/null @@ -1,36 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": "prov:Agent" - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - "@type": "nsg:TextPositionTarget", - "hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015", - "hasSelector": { - "@type": "nsg:TextPositionSelector", - "start": 23171, - "end": 23212 - } - }, - "hasBody": [ - { - "@id": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json deleted file mode 100644 index 259d1cab..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json +++ /dev/null @@ -1,28 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-position-52afbf40", - "providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - 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b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hastarget.json deleted file mode 100644 index 543307ce..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hastarget.json +++ /dev/null @@ -1,28 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": "prov:Agent" - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasBody": [ - { - "@id": 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b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json deleted file mode 100644 index 9eaab4fc..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json +++ /dev/null @@ -1,13 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003", - "series": { - "value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json deleted file mode 100644 index c37b34c4..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json +++ /dev/null @@ -1,10 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002" - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json 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b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json deleted file mode 100644 index f97014c1..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json +++ /dev/null @@ -1,13 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003", - "series": { - "unitCode": "um^2" - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json deleted file mode 100644 index 8288767d..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "unitCode": "mV", - "value": 1.0 - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json deleted file mode 100644 index 0d4ca9af..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json +++ /dev/null @@ -1,13 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "series": { - "unitCode": "um^2", - "value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json deleted file mode 100644 index 54368c3c..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "value": 1.0 - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json deleted file mode 100644 index b66920c2..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "unitCode": "mV" - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json deleted file mode 100644 index 9d822390..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json +++ /dev/null @@ -1,27 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "unitCode": "mV", - "value": 1.0 - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json deleted file mode 100644 index 091eeca4..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json +++ /dev/null @@ -1,14 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002", - "series": { - "unitCode": "um^2", - "value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json new file mode 100644 index 00000000..1ce85923 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json @@ -0,0 +1,17 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-cell_area-870f0288", + "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-121003", + "nsg:series": { + "schema:value": 9864.0 + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json new file mode 100644 index 00000000..9d4c25c8 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json @@ -0,0 +1,14 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-resting_membrane_potential-7516d66e", + "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-010002" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json new file mode 100644 index 00000000..438150bb --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json @@ -0,0 +1,14 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-cell_area-870f0288", + "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-121003" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json new file mode 100644 index 00000000..7922e02d --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json @@ -0,0 +1,17 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-cell_area-870f0288", + "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-121003", + "nsg:series": { + "schema:unitCode": "um^2" + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json new file mode 100644 index 00000000..3649eb3b --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json @@ -0,0 +1,30 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-resting_membrane_potential-7516d66e", + "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "mV", + "schema:value": -74.4 + }, + { + "nsg:statistic": "sem", + "schema:unitCode": "mV", + "schema:value": 1.0 + }, + { + "nsg:statistic": "N", + "schema:unitCode": "dimensionless", + "schema:value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json new file mode 100644 index 00000000..724145bb --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json @@ -0,0 +1,17 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-cell_area-870f0288", + "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:series": { + "schema:unitCode": "um^2", + "schema:value": 9864.0 + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json new file mode 100644 index 00000000..59d52f7d --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json @@ -0,0 +1,30 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-resting_membrane_potential-7516d66e", + "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-010002", + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "mV", + "schema:value": -74.4 + }, + { + "nsg:statistic": "sem", + "schema:value": 1.0 + }, + { + "nsg:statistic": "N", + "schema:unitCode": "dimensionless", + "schema:value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json new file mode 100644 index 00000000..cc9bc0d6 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json @@ -0,0 +1,30 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-resting_membrane_potential-7516d66e", + "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-010002", + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "mV", + "schema:value": -74.4 + }, + { + "nsg:statistic": "sem", + "schema:unitCode": "mV" + }, + { + "nsg:statistic": "N", + "schema:unitCode": "dimensionless", + "schema:value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json new file mode 100644 index 00000000..9d5cc9af --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json @@ -0,0 +1,31 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-cell_area-870f0288", + "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "nsg:dependentVariable": { + "@type": [ + "nsg:SimpleNumericalVariable" + ], + "nsg:quantityType": "BBP-121003", + "nsg:series": [ + { + "nsg:statistic": "mean", + "schema:unitCode": "mV", + "schema:value": -74.4 + }, + { + "nsg:statistic": "sem", + "schema:unitCode": "mV", + "schema:value": 1.0 + }, + { + "nsg:statistic": "N", + "schema:unitCode": "dimensionless", + "schema:value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json new file mode 100644 index 00000000..7d87f312 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json @@ -0,0 +1,18 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@type": [ + "nsg:PointValueParameter" + ], + "schema:name": "p-resting_membrane_potential-7516d66e", + "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "nsg:dependentVariable": { + "@type": [ + "nsg:CompoundNumericalVariable" + ], + "nsg:quantityType": "BBP-010002", + "nsg:series": { + "schema:unitCode": "um^2", + "schema:value": 9864.0 + } + } +} \ No newline at end of file From 2a14064ac5b8cada651b42410f1f4b23fb51d5dc Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Mohameth=20Fran=C3=A7ois=20SY?= Date: Mon, 26 Nov 2018 21:47:26 +0100 Subject: [PATCH 3/7] Update build.sbt --- build.sbt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/build.sbt b/build.sbt index f9a47d42..d3b2a493 100644 --- a/build.sbt +++ b/build.sbt @@ -131,7 +131,7 @@ lazy val literatureannotation = project .enablePlugins(WorkbenchPlugin) .disablePlugins(ScapegoatSbtPlugin, DocumentationPlugin) .dependsOn(core) - .settings(common) + .settings(publishSettings) .settings( name := "nsg-literatureannotation-schemas", moduleName := "nsg-literatureannotation-schemas" From 438b1dceba3c1114513d7a86746335203728a8b7 Mon Sep 17 00:00:00 2001 From: Pierre-Alexandre Fonta Date: Tue, 25 Sep 2018 17:10:36 +0200 Subject: [PATCH 4/7] Initialize Literature Annotation domain model --- .../commons/annotation/v0.1.0.json | 201 ++++++++++++++++++ .../commons/parameter/v0.1.0.json | 20 ++ .../commons/selectors/v0.1.0.json | 174 +++++++++++++++ .../commons/variables/v0.1.0.json | 136 ++++++++++++ .../core/annotation/v0.1.0.json | 62 ++++++ .../core/selectors/v0.1.0.json | 63 ++++++ .../core/variables/v0.1.0.json | 56 +++++ .../functionparameter/v0.1.0.json | 53 +++++ .../numericaltraceparameter/v0.1.0.json | 61 ++++++ .../parameterannotation/v0.1.0.json | 61 ++++++ .../pointvalueparameter/v0.1.0.json | 47 ++++ .../v0.1.0/auto-all-fields.json | 41 ++++ .../v0.1.0/auto-min-fields.json | 19 ++ .../all-fields-compound-compound-ignored.json | 5 + .../all-fields-simple-compound-ignored.json | 5 + .../auto-all-fields-compound-simple.json | 56 +++++ .../v0.1.0/auto-all-fields-simple-simple.json | 51 +++++ .../auto-min-fields-compound-simple.json | 49 +++++ .../v0.1.0/auto-min-fields-simple-simple.json | 39 ++++ .../min-fields-compound-compound-ignored.json | 5 + .../min-fields-simple-compound-ignored.json | 5 + .../v0.1.0/auto-all-fields-area.json | 35 +++ .../v0.1.0/auto-all-fields-equation.json | 47 ++++ .../v0.1.0/auto-all-fields-figure.json | 41 ++++ .../v0.1.0/auto-all-fields-table.json | 53 +++++ .../v0.1.0/auto-all-fields-text.json | 58 +++++ .../v0.1.0/auto-min-fields-area.json | 29 +++ .../v0.1.0/auto-min-fields-equation.json | 36 ++++ .../v0.1.0/auto-min-fields-figure.json | 28 +++ .../v0.1.0/auto-min-fields-table.json | 30 +++ .../v0.1.0/auto-min-fields-text.json | 37 ++++ .../v0.1.0/auto-all-fields-compound.json | 34 +++ .../v0.1.0/auto-all-fields-simple.json | 21 ++ .../v0.1.0/auto-min-fields-compound.json | 27 +++ .../v0.1.0/auto-min-fields-simple.json | 14 ++ .../v0.1.0/auto-missing-equation.json | 18 ++ ...uto-missing-indpendentvariable-simple.json | 22 ++ ...riable-series-compound-instead-simple.json | 54 +++++ ...riable-series-simple-instead-compound.json | 39 ++++ .../v0.1.0/auto-missing-contribution.json | 25 +++ .../auto-missing-contributionshape-agent.json | 26 +++ .../v0.1.0/auto-missing-entityshape-name.json | 36 ++++ ...sing-fragmentselectorshape-conformsto.json | 28 +++ ...o-missing-fragmentselectorshape-value.json | 28 +++ .../v0.1.0/auto-missing-hasbody.json | 27 +++ .../v0.1.0/auto-missing-hastarget.json | 28 +++ ...auto-missing-indexselectorshape-index.json | 27 +++ ...missing-selectortargetshape-hassource.json | 36 ++++ ...missing-textpositionselectorshape-end.json | 36 ++++ ...ssing-textpositionselectorshape-start.json | 36 ++++ ...g-textpositiontargetshape-hasselector.json | 32 +++ .../v0.1.0/empty-contributionshape-agent.json | 28 +++ .../v0.1.0/empty-hasbody.json | 28 +++ ...g-algebraicvalueshape-unitcode-simple.json | 13 ++ .../v0.1.0/auto-missing-series-compound.json | 10 + .../v0.1.0/auto-missing-series-simple.json | 10 + .../auto-missing-valueshape-value-simple.json | 13 ++ ...g-variableshape-quantitytype-compound.json | 26 +++ ...ing-variableshape-quantitytype-simple.json | 13 ++ ...algebraicvalueshape-unitcode-compound.json | 26 +++ .../missing-valueshape-value-compound.json | 26 +++ .../series-compound-instead-simple.json | 27 +++ .../series-simple-instead-compound.json | 14 ++ 63 files changed, 2431 insertions(+) create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json create mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json create mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json create mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json create mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json create mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-simple-compound-ignored.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-text.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-area.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-equation.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-figure.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-table.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-text.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-compound.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-simple.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-compound.json create mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-missing-equation.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-missing-indpendentvariable-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-compound-instead-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contribution.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contributionshape-agent.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-entityshape-name.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hastarget.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-indexselectorshape-index.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-selectortargetshape-hassource.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-start.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositiontargetshape-hasselector.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-contributionshape-agent.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-hasbody.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json create mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json new file mode 100644 index 00000000..5c43b1c6 --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json @@ -0,0 +1,201 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/" + } + ], + "imports": [ + "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0", + "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0" + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "AnnotationShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" + }, + { + "property": [ + { + "path": "nsg:contribution", + "name": "Contribution", + "description": "Information about the agent involved in the creation of this Annotation.", + "node": "ContributionShape", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:hasTarget", + "name": "Target", + "description": "The relationship between an Annotation and its Target.", + "node": "TargetShape", + "minCount": 1 + }, + { + "path": "nsg:hasBody", + "name": "Body", + "description": "The relationship between an Annotation and its Body.", + "node": "BodyShape" + } + ] + } + ] + }, + { + "@id": "TargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI" + }, + { + "@id": "SelectorTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "TargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSource", + "name": "Source", + "description": "The relationship between a Specific Resource and the resource that it is a more specific representation of.", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:hasSelector", + "name": "Selector", + "description": "The relationship between a Specific Resource and a Selector.", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/SelectorShape" + } + ] + } + ] + }, + { + "@id": "TextPositionTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TextPositionSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "FigureTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FigureSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "EquationTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/EquationSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "TableTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TableSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "AreaTargetShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorTargetShape" + }, + { + "property": [ + { + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/AreaSelectorShape", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "BodyShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI" + }, + { + "@id": "ContributionShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "property": [ + { + "path": "prov:agent", + "name": "Agent", + "nodeKind": "sh:IRI", + "class": "prov:Agent", + "minCount": 1 + } + ] + } + ] +} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json new file mode 100644 index 00000000..c57ac3cb --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json @@ -0,0 +1,20 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/" + } + ], + "imports": [ + "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0" + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "ParameterShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" + } + ] +} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json new file mode 100644 index 00000000..f86adf12 --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json @@ -0,0 +1,174 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/" + } + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "SelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "property": [ + { + "path": "rdf:type", + "name": "Selector type", + "description": "The class of the Selector.", + "minCount": 1, + "maxCount": 1 + } + ] + }, + { + "@id": "TextPositionSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:TextPositionSelector", + "and": [ + { + "node": "SelectorShape" + }, + { + "property": [ + { + "path": "nsg:start", + "name": "Start offset", + "description": "The starting position of the segment of text. The first character in the full text is character position 0, and the character is included within the segment.", + "datatype": "xsd:integer", + "minInclusive": 0, + "lessThan": "nsg:end", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:end", + "name": "End offset", + "description": "The end position of the segment of text. The character is not included within the segment.", + "datatype": "xsd:integer", + "minInclusive": 0, + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:text", + "name": "Text", + "description": "The segment of text.", + "datatype": "xsd:string", + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "IndexSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorShape" + }, + { + "property": [ + { + "path": "nsg:index", + "name": "Index", + "description": "The index in the document, verbatim (e.g. '1', '2.a', 'III').", + "datatype": "xsd:string", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "FigureSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:FigureSelector", + "node": "IndexSelectorShape" + }, + { + "@id": "EquationSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:EquationSelector", + "node": "IndexSelectorShape" + }, + { + "@id": "TableSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:TableSelector", + "and": [ + { + "node": "IndexSelectorShape" + }, + { + "property": [ + { + "path": "row", + "name": "Row index", + "description": "The index(es) in the table of the row(s) (e.g. '1', '1, 3')." + }, + { + "path": "column", + "name": "Column index", + "description": "The index(es) in the table of the columns(s) (e.g. '1', '1, 3')." + } + ] + } + ] + }, + { + "@id": "FragmentSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "SelectorShape" + }, + { + "property": [ + { + "path": "rdf:value", + "name": "Fragment value", + "description": "The contents of the fragment component of an IRI that describes the Segment.", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "dcterms:conformsTo", + "name": "Fragment specification", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "AreaSelectorShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:AreaSelector", + "and": [ + { + "node": "FragmentSelectorShape" + }, + { + "property": [ + { + "path": "dcterms:conformsTo", + "comment": "Used format is page=&viewrect=,,,. , and are measured from the top left corner of the page.", + "hasValue": "http://tools.ietf.org/rfc/rfc3778" + } + ] + } + ] + } + ] +} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json new file mode 100644 index 00000000..e265877a --- /dev/null +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json @@ -0,0 +1,136 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/" + } + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "AlgebraicValueShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "property": [ + { + "path": "schema:unitCode", + "name": "Unit code", + "datatype": "xsd:string", + "minCount": 1, + "maxCount": 1 + }, + { + "path": "nsg:statistic", + "name": "Statistic", + "description": "The name of the statistic describing the sample.", + "datatype": "xsd:string", + "maxCount": 1 + } + ] + }, + { + "@id": "ValueShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "AlgebraicValueShape" + }, + { + "property": [ + { + "path": "schema:value", + "name": "Value", + "datatype": "xsd:float", + "minCount": 1 + } + ] + } + ] + }, + { + "@id": "VariableShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "property": [ + { + "path": "nsg:quantityType", + "name": "Quantity type", + "description": "The type of the measured quantity represented by the variable.", + "minCount": 1, + "maxCount": 1 + } + ] + }, + { + "@id": "NumericalVariableShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "VariableShape" + }, + { + "property": [ + { + "path": "nsg:series", + "name": "Series", + "description": "The numerical value(s) taken by the variable", + "node": "ValueShape" + } + ] + } + ] + }, + { + "@id": "SimpleNumericalVariableShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "NumericalVariableShape" + }, + { + "property": [ + { + "path": "nsg:series", + "minCount": 1, + "maxCount": 1 + } + ] + } + ] + }, + { + "@id": "CompoundNumericalVariableShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "NumericalVariableShape" + }, + { + "property": [ + { + "path": "nsg:series", + "minCount": 2 + } + ] + } + ] + }, + { + "@id": "AlgebraicVariableShape", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI", + "and": [ + { + "node": "VariableShape" + }, + { + "node": "AlgebraicValueShape" + } + ] + } + ] +} \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json new file mode 100644 index 00000000..1e039f30 --- /dev/null +++ b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json @@ -0,0 +1,62 @@ +{ + "@context": [ + "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", + { + "@base": "{{base}}/schemas/neurosciencegraph/core/annotation/v0.1.0/shapes/" + } + ], + "imports": [ + "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0" + ], + "@type": "nxv:Schema", + "shapes": [ + { + "@id": "AnnotationShape", + "@type": "sh:NodeShape", + "targetClass": "nsg:Annotation", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AnnotationShape" + }, + { + "@id": "SelectorTargetShape", + "@type": "sh:NodeShape", + "targetClass": 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a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json new file mode 100644 index 00000000..6a9a7425 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json @@ -0,0 +1,5 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "comment": "No data on 24.09.18" +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json new file mode 100644 index 00000000..6a9a7425 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json @@ -0,0 +1,5 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "comment": "No data on 24.09.18" +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json new file mode 100644 index 00000000..a2eaf7c8 --- /dev/null +++ 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"requiredTag": [ + { + "rootId": "NIFCELL:sao1813327414", + "id": "NIFCELL:nifext_46", + "label": "Thalamus interneuron small" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json new file mode 100644 index 00000000..4df9d0dd --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json @@ -0,0 +1,51 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "name": "p-neuron_density-0ebdc338", + "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "dependentVariable": { + "@type": 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a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-simple.json new file mode 100644 index 00000000..704e96c0 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-simple.json @@ -0,0 +1,21 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": { + "unitCode": "um^2", + "value": 9864.0 + } + }, + "requiredTag": [ + { + "rootId": "sao1813327414", + "id": "NIFCELL:nifext_46", + "label": "Thalamus interneuron small" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-compound.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-compound.json new file mode 100644 index 00000000..5700ed84 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-compound.json @@ -0,0 +1,27 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json new file mode 100644 index 00000000..4fa572e4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json @@ -0,0 +1,39 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:NumericalTraceParameter", + "name": "p-neuron_density-0ebdc338", + "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-131001", + "series": { + "statistic": "mean", + "unitCode": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json new file mode 100644 index 00000000..06447908 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json @@ -0,0 +1,28 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-position-52afbf40", + "providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", + "contribution": { + "agent": [ + { + "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", + "@type": "prov:Agent" + } + ] + }, + "hasTarget": 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b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json @@ -0,0 +1,28 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-position-52afbf40", + "providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", + "contribution": { + "agent": [ + { + "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", + "@type": "prov:Agent" + } + ] + }, + "hasTarget": { + "@type": "nsg:AreaTarget", + "hasSource": "https://doi.org/10.1038/367069a0", + "hasSelector": { + "@type": "nsg:AreaSelector", + "dcterms:conformsTo": "http://tools.ietf.org/rfc/rfc3778" + } + }, + "hasBody": [ + { + "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/dd8c0513-25e8-4aba-aa73-ef750648f250", + "@type": "nsg:Parameter" + } + ] +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json new file mode 100644 index 00000000..19d624e4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json @@ -0,0 +1,27 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:ParameterAnnotation", + "name": "a-text-e6914b74", + "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", + "contribution": { + "agent": [ + { + "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", + "@type": "prov:Agent" + }, + { + "@id": 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a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json new file mode 100644 index 00000000..9eaab4fc --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json @@ -0,0 +1,13 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": { + "value": 9864.0 + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json new file mode 100644 index 00000000..c37b34c4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json @@ -0,0 +1,10 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json new file mode 100644 index 00000000..b244792d --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json @@ -0,0 +1,10 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json new file mode 100644 index 00000000..f97014c1 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json @@ -0,0 +1,13 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": { + "unitCode": "um^2" + } + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json new file mode 100644 index 00000000..8288767d --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json @@ -0,0 +1,26 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + 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+ "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + "statistic": "sem", + "unitCode": "mV" + }, + { + "statistic": "N", + "unitCode": "dimensionless", + "value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json new file mode 100644 index 00000000..9d822390 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json @@ -0,0 +1,27 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-cell_area-870f0288", + "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", + "dependentVariable": { + "@type": "nsg:SimpleNumericalVariable", + "quantityType": "nsg:BBP-121003", + "series": [ + { + "statistic": "mean", + "unitCode": "mV", + "value": -74.4 + }, + { + "statistic": "sem", + "unitCode": "mV", + "value": 1.0 + }, + { + "statistic": "N", + "unitCode": "dimensionless", + "value": 29.0 + } + ] + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json new file mode 100644 index 00000000..091eeca4 --- /dev/null +++ b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json @@ -0,0 +1,14 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", + "@type": "nsg:PointValueParameter", + "name": "p-resting_membrane_potential-7516d66e", + "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", + "dependentVariable": { + "@type": "nsg:CompoundNumericalVariable", + "quantityType": "nsg:BBP-010002", + "series": { + "unitCode": "um^2", + "value": 9864.0 + } + } +} \ No newline at end of file From ad6dbfb5ea8d914a5b17219925029c201f0fb187 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Sy=20Mohameth=20Fran=C3=A7ois?= Date: Mon, 26 Nov 2018 21:11:55 +0100 Subject: [PATCH 5/7] Revamped annotation data model: - Restricted the domain to annotating entities based on web annotation data model - Used nsg namespace instead of oa for hasTarget, hasBody, hasSource,hasSelector, Annotation - Removed targetClass assertion from all schemas in commons domain - Added a seeAlso links towards the web annotation recommendation - Used schema:value instead of nsg:text and rdf:value - Renamed IndexSelectorShape to DocumentIndexSelectorShape - Directly use DocumentIndexSelectorShape instead of FigureSelectorShape - Removed FigureSelectorShape because it does not add anything new on top of DocumentIndexSelectorShape - Removed EquationSelectorShape - Renamed AreaSelectorShape to DocumentAreaSelectorShape - Renamed selectors schema with annotationselector - Removed @base and use this instead - Removed the different *TargetShape in the core domain - Removed core/EquationTargetShape - Removed selector schema from core domain --- .../commons/annotation/v0.2.0.json | 114 ++++++++---------- .../v0.2.0.json | 82 +++++-------- .../commons/parameter/v0.2.0.json | 20 --- .../core/annotation/v0.2.0.json | 44 +------ .../core/selectors/v0.2.0.json | 63 ---------- .../core/annotation/v0.2.0/all-fields.json | 25 ++++ .../annotation/v0.2.0/missing_target.json | 15 +++ .../functionparameter/v0.2.0.json | 53 -------- .../numericaltraceparameter/v0.2.0.json | 61 ---------- .../parameterannotation/v0.2.0.json | 61 ---------- .../pointvalueparameter/v0.2.0.json | 47 -------- .../v0.2.0/auto-all-fields.json | 51 -------- .../v0.2.0/auto-min-fields.json | 25 ---- .../all-fields-compound-compound-ignored.json | 7 -- .../all-fields-simple-compound-ignored.json | 7 -- .../auto-all-fields-compound-simple.json | 62 ---------- .../v0.2.0/auto-all-fields-simple-simple.json | 57 --------- .../auto-min-fields-compound-simple.json | 55 --------- .../v0.2.0/auto-min-fields-simple-simple.json | 45 ------- .../min-fields-compound-compound-ignored.json | 7 -- .../min-fields-simple-compound-ignored.json | 7 -- .../v0.2.0/auto-all-fields-area.json | 46 ------- .../v0.2.0/auto-all-fields-equation.json | 62 ---------- .../v0.2.0/auto-all-fields-figure.json | 54 --------- .../v0.2.0/auto-all-fields-table.json | 64 ---------- .../v0.2.0/auto-all-fields-text.json | 75 ------------ .../v0.2.0/auto-min-fields-area.json | 40 ------ .../v0.2.0/auto-min-fields-equation.json | 51 -------- .../v0.2.0/auto-min-fields-figure.json | 39 ------ .../v0.2.0/auto-min-fields-table.json | 41 ------- .../v0.2.0/auto-min-fields-text.json | 52 -------- .../v0.2.0/auto-all-fields-compound.json | 38 ------ .../v0.2.0/auto-all-fields-simple.json | 25 ---- .../v0.2.0/auto-min-fields-compound.json | 31 ----- .../v0.2.0/auto-min-fields-simple.json | 18 --- .../v0.2.0/auto-missing-equation.json | 24 ---- ...uto-missing-indpendentvariable-simple.json | 26 ---- ...riable-series-compound-instead-simple.json | 60 --------- ...riable-series-simple-instead-compound.json | 45 ------- .../v0.2.0/auto-missing-contribution.json | 36 ------ .../auto-missing-contributionshape-agent.json | 37 ------ .../v0.2.0/auto-missing-entityshape-name.json | 51 -------- ...sing-fragmentselectorshape-conformsto.json | 39 ------ ...o-missing-fragmentselectorshape-value.json | 39 ------ .../v0.2.0/auto-missing-hasbody.json | 38 ------ .../v0.2.0/auto-missing-hastarget.json | 39 ------ ...auto-missing-indexselectorshape-index.json | 38 ------ ...missing-selectortargetshape-hassource.json | 51 -------- ...missing-textpositionselectorshape-end.json | 51 -------- ...ssing-textpositionselectorshape-start.json | 51 -------- ...g-textpositiontargetshape-hasselector.json | 45 ------- .../v0.2.0/empty-contributionshape-agent.json | 39 ------ .../v0.2.0/empty-hasbody.json | 39 ------ ...g-algebraicvalueshape-unitcode-simple.json | 17 --- .../v0.2.0/auto-missing-series-compound.json | 14 --- .../v0.2.0/auto-missing-series-simple.json | 14 --- .../auto-missing-valueshape-value-simple.json | 17 --- ...g-variableshape-quantitytype-compound.json | 30 ----- ...ing-variableshape-quantitytype-simple.json | 17 --- ...algebraicvalueshape-unitcode-compound.json | 30 ----- .../missing-valueshape-value-compound.json | 30 ----- .../series-compound-instead-simple.json | 31 ----- .../series-simple-instead-compound.json | 18 --- 63 files changed, 121 insertions(+), 2389 deletions(-) rename modules/commons/src/main/resources/schemas/neurosciencegraph/commons/{selectors => annotationselector}/v0.2.0.json (62%) delete mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json delete mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json create mode 100644 modules/core/src/test/resources/data/neurosciencegraph/core/annotation/v0.2.0/all-fields.json create mode 100644 modules/core/src/test/resources/invalid/neurosciencegraph/core/annotation/v0.2.0/missing_target.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-min-fields.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-compound-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/all-fields-simple-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-compound-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-compound-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-min-fields-simple-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-area.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-figure.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-table.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-text.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-min-fields-area.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-min-fields-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-min-fields-figure.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-min-fields-table.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-min-fields-text.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-all-fields-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-all-fields-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-min-fields-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-min-fields-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-missing-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-missing-indpendentvariable-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/independentvariable-series-compound-instead-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/independentvariable-series-simple-instead-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-contribution.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-contributionshape-agent.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-entityshape-name.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-fragmentselectorshape-conformsto.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-fragmentselectorshape-value.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-hasbody.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-hastarget.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-indexselectorshape-index.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-selectortargetshape-hassource.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-textpositionselectorshape-end.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-textpositionselectorshape-start.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-missing-textpositiontargetshape-hasselector.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/empty-contributionshape-agent.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/empty-hasbody.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json index a2c6e640..19d0261d 100644 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.2.0.json @@ -2,20 +2,21 @@ "@context": [ "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/" + "this": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/" } ], "imports": [ "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0", - "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0" + "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0" ], "@type": "nxv:Schema", "shapes": [ { - "@id": "AnnotationShape", + "@id": "this:AnnotationShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", - "class": "oa:Annotation", + "seeAlso":"https://www.w3.org/TR/annotation-model/#introduction", + "editorialNote":"The higher level vocabulary (hasTarget, hasBody, hasSource,hasSelector, Annotation) are mapped to the nsg namespace (instead of using oa namespace) for consistency and ease of use purpose. The selector", "and": [ { "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" @@ -23,75 +24,73 @@ { "property": [ { - "path": "nsg:contribution", - "name": "Contribution", - "description": "Information about the agent involved in the creation of this Annotation.", - "node": "ContributionShape", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "oa:hasTarget", + "path": "nsg:hasTarget", "name": "Target", - "description": "The relationship between an Annotation and its Target.", - "node": "TargetShape", + "description": "The target of an Annotation: the entity being annotated.", + "node": "this:TargetShape", "minCount": 1 }, { - "path": "oa:hasBody", + "path": "nsg:hasBody", "name": "Body", - "description": "The relationship between an Annotation and its Body.", - "node": "BodyShape" + "description": "The entity or value that the target entity is being annotated with.", + "node": "this:BodyShape" } ] } ] }, { - "@id": "TargetShape", + "@id": "this:TargetShape", + "label":"The target of an annotation is always an external resource.", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI" }, { - "@id": "SelectorTargetShape", + "@id": "this:BodyShape", + "label":"The body of an annotation can be an external or internal resource.", + "@type": "sh:NodeShape", + "nodeKind": "sh:BlankNodeOrIRI" + }, + { + "@id": "this:SelectorTargetShape", "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", "and": [ { - "node": "TargetShape" + "node": "this:TargetShape" }, { "property": [ { - "path": "oa:hasSource", + "path": "nsg:hasSource", "name": "Source", "description": "The relationship between a Specific Resource and the resource that it is a more specific representation of.", "minCount": 1, "maxCount": 1 }, { - "path": "oa:hasSelector", + "path": "nsg:hasSelector", "name": "Selector", "description": "The relationship between a Specific Resource and a Selector.", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/SelectorShape" + "node": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/SelectorShape" } ] } ] }, { - "@id": "TextPositionTargetShape", + "@id": "this:TextPositionTargetShape", "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", + "class":"nsg:TextPositionTarget", "and": [ { - "node": "SelectorTargetShape" + "node": "this:SelectorTargetShape" }, { "property": [ { - "path": "oa:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TextPositionSelectorShape", + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/TextPositionSelectorShape", "minCount": 1, "maxCount": 1 } @@ -100,18 +99,19 @@ ] }, { - "@id": "FigureTargetShape", + "@id": "this:FigureTargetShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", "and": [ { - "node": "SelectorTargetShape" + "node": "this:SelectorTargetShape" }, { "property": [ { - "path": "oa:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/FigureSelectorShape", + "path": "nsg:hasSelector", + "class": "nsg:FigureSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/DocumentIndexSelectorShape", "minCount": 1, "maxCount": 1 } @@ -120,18 +120,19 @@ ] }, { - "@id": "EquationTargetShape", + "@id": "this:EquationTargetShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", "and": [ { - "node": "SelectorTargetShape" + "node": "this:SelectorTargetShape" }, { "property": [ { - "path": "oa:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/EquationSelectorShape", + "path": "nsg:hasSelector", + "class": "nsg:EquationSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/DocumentIndexSelectorShape", "minCount": 1, "maxCount": 1 } @@ -140,18 +141,19 @@ ] }, { - "@id": "TableTargetShape", + "@id": "this:TableTargetShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", "and": [ { - "node": "SelectorTargetShape" + "node": "this:SelectorTargetShape" }, { "property": [ { - "path": "oa:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TableSelectorShape", + "path": "nsg:hasSelector", + "class": "nsg:TableSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/TableSelectorShape", "minCount": 1, "maxCount": 1 } @@ -160,43 +162,25 @@ ] }, { - "@id": "AreaTargetShape", + "@id": "this:AreaTargetShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", "and": [ { - "node": "SelectorTargetShape" + "node": "this:SelectorTargetShape" }, { "property": [ { - "path": "oa:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/AreaSelectorShape", + "path": "nsg:hasSelector", + "node": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/DocumentAreaSelectorShape", "minCount": 1, "maxCount": 1 } ] } ] - }, - { - "@id": "BodyShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI" - }, - { - "@id": "ContributionShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "prov:agent", - "name": "Agent", - "nodeKind": "sh:IRI", - "class": "prov:Agent", - "minCount": 1 - } - ] } + ] } \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.2.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotationselector/v0.2.0.json similarity index 62% rename from modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.2.0.json rename to modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotationselector/v0.2.0.json index 273b98af..a8dfbd04 100644 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.2.0.json +++ b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotationselector/v0.2.0.json @@ -2,33 +2,24 @@ "@context": [ "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", { - "@base": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/" + "this": "{{base}}/schemas/neurosciencegraph/commons/annotationselector/v0.2.0/shapes/" } ], "@type": "nxv:Schema", "shapes": [ { - "@id": "SelectorShape", + "@id": "this:SelectorShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "rdf:type", - "name": "Selector type", - "description": "The class of the Selector.", - "minCount": 1, - "maxCount": 1 - } - ] + "seeAlso": "https://www.w3.org/TR/annotation-model/#selectors" }, { - "@id": "TextPositionSelectorShape", + "@id": "this:TextPositionSelectorShape", "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", "class": "oa:TextPositionSelector", "and": [ { - "node": "SelectorShape" + "node": "this:SelectorShape" }, { "property": [ @@ -52,9 +43,9 @@ "maxCount": 1 }, { - "path": "nsg:text", - "name": "Text", - "description": "The segment of text.", + "path": "schema:value", + "name": "Value", + "description": "The selected segment of text.", "datatype": "xsd:string", "maxCount": 1 } @@ -63,19 +54,19 @@ ] }, { - "@id": "IndexSelectorShape", + "@id": "this:DocumentIndexSelectorShape", "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", + "class": "nsg:DocumentIndexSelector", "and": [ { - "node": "SelectorShape" + "node": "this:SelectorShape" }, { "property": [ { "path": "nsg:index", "name": "Index", - "description": "The index in the document, verbatim (e.g. '1', '2.a', 'III').", + "description": "The index of a document media (figure) or item (equation, table,...) (e.g. '1', '2.a', 'III').", "datatype": "xsd:string", "minCount": 1, "maxCount": 1 @@ -85,34 +76,20 @@ ] }, { - "@id": "FigureSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:FigureSelector", - "node": "IndexSelectorShape" - }, - { - "@id": "EquationSelectorShape", + "@id": "this:TableSelectorShape", "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:EquationSelector", - "node": "IndexSelectorShape" - }, - { - "@id": "TableSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", "class": "nsg:TableSelector", + "seeAlso":"https://www.w3.org/TR/csv2rdf/", "and": [ { - "node": "IndexSelectorShape" + "node": "this:DocumentIndexSelectorShape" }, { "property": [ { "path": "nsg:row", - "name": "Row index", - "description": "The index(es) in the table of the row(s) (e.g. '1', '1, 3')." + "name": "Row number", + "description": "The number of the row of a table (e.g. '1', '1, 3')." }, { "path": "nsg:column", @@ -124,25 +101,29 @@ ] }, { - "@id": "FragmentSelectorShape", + "@id": "this:FragmentSelectorShape", "@type": "sh:NodeShape", + "class": "oa:FragmentSelector", "nodeKind": "sh:BlankNodeOrIRI", "and": [ { - "node": "SelectorShape" + "node": "this:SelectorShape" }, { "property": [ { - "path": "rdf:value", + "path": "schema:value", "name": "Fragment value", "description": "The contents of the fragment component of an IRI that describes the Segment.", "minCount": 1, "maxCount": 1 }, { - "path": "dcterms:conformsTo", + "path": "nsg:conformsTo", "name": "Fragment specification", + "description": "Specification of the fragment syntax.", + "nodeKind": "sh:IRI", + "seeAlso": "https://www.w3.org/TR/annotation-model/#fragment-selector", "minCount": 1, "maxCount": 1 } @@ -151,22 +132,21 @@ ] }, { - "@id": "AreaSelectorShape", + "@id": "this:DocumentAreaSelectorShape", "@type": "sh:NodeShape", "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:AreaSelector", + "class": "nsg:PDFAreaSelector", "and": [ { - "node": "FragmentSelectorShape" + "node": "this:FragmentSelectorShape" }, { "property": [ { - "path": "dcterms:conformsTo", + "path": "nsg:conformsTo", + "name": "Specification", "comment": "Used format is page=&viewrect=,,,. , and are measured from the top left corner of the page.", - "hasValue": { - "@id": "http://tools.ietf.org/rfc/rfc3778" - } + "hasValue": "http://tools.ietf.org/rfc/rfc3778" } ] } diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json deleted file mode 100644 index b4d392ed..00000000 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.2.0.json +++ /dev/null @@ -1,20 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "ParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" - } - ] -} \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json index f71658cd..f1f3d41d 100644 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json +++ b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.2.0.json @@ -13,50 +13,8 @@ { "@id": "AnnotationShape", "@type": "sh:NodeShape", - "targetClass": "oa:Annotation", + "targetClass": "nsg:Annotation", "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AnnotationShape" - }, - { - "@id": "SelectorTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:SelectorTargetShape", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/SelectorTarget" - }, - { - "@id": "TextPositionTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TextPositionTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TextPositionTargetShape" - }, - { - "@id": "FigureTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:FigureTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/FigureTargetShape" - }, - { - "@id": "EquationTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:EquationTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/EquationTargetShape" - }, - { - "@id": "TableTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TableTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TableTargetShape" - }, - { - "@id": "AreaTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AreaTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AreaTargetShape" - }, - { - "@id": "ContributionShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Contribution", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/ContributionShape" } ] } \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json deleted file mode 100644 index e7ae619d..00000000 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.2.0.json +++ /dev/null @@ -1,63 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/core/selectors/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "SelectorShape", - "@type": "sh:NodeShape", - "targetClass": "oa:Selector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/SelectorShape" - }, - { - "@id": "TextPositionSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "oa:TextPositionSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TextPositionSelectorShape" - }, - { - "@id": "IndexSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:IndexSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/IndexSelectorShape" - }, - { - "@id": "FigureSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:FigureSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/FigureSelectorShape" - }, - { - "@id": "EquationSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:EquationSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/EquationSelectorShape" - }, - { - "@id": "TableSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TableSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/TableSelectorShape" - }, - { - "@id": "FragmentSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "oa:FragmentSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/FragmentSelectorShape" - }, - { - "@id": "AreaSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AreaSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.2.0/shapes/AreaSelectorShape" - } - ] -} \ No newline at end of file diff --git a/modules/core/src/test/resources/data/neurosciencegraph/core/annotation/v0.2.0/all-fields.json b/modules/core/src/test/resources/data/neurosciencegraph/core/annotation/v0.2.0/all-fields.json new file mode 100644 index 00000000..b9240e47 --- /dev/null +++ b/modules/core/src/test/resources/data/neurosciencegraph/core/annotation/v0.2.0/all-fields.json @@ -0,0 +1,25 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@id": "{{base}}/schemas/neurosciencegraph/core/entity/v1.0.0/057622e3-5ea6-499a-a434-e38ba70ac83b", + "@type": "nsg:Annotation", + "schema:name": "Annotation example with all fields", + "prov:wasAttributedTo":{ + "@id": "{{base}}/schemas/neurosciencegraph/core/person/v0.1.0/03b67cb6-db1a-4acd-a628-8dd3e5f3ee12", + "@type": "nsg:Person" + }, + "nsg:providerId": "db201d2e-e185-11e6-a0b3-c869cd917532", + "nsg:hasBody": { + "@id": "{{base}}/schemas/neurosciencegraph/core/entity/v1.0.0/027622e3-5ea6-499a-a434-e38ba70ac82c", + "@type": "prov:Entity" + }, + "nsg:hasTarget": { + "@type": "nsg:TextPositionTarget", + "nsg:hasSelector": { + "@type": "oa:TextPositionSelector", + "schema:value": "while 10–90 % EPSP rise times were below 1 ms in all 22 pairs. ", + "oa:end": 15430, + "oa:start": 15367 + }, + "nsg:hasSource": "https://www.ncbi.nlm.nih.gov/pubmed/14984412" + } +} \ No newline at end of file diff --git a/modules/core/src/test/resources/invalid/neurosciencegraph/core/annotation/v0.2.0/missing_target.json b/modules/core/src/test/resources/invalid/neurosciencegraph/core/annotation/v0.2.0/missing_target.json new file mode 100644 index 00000000..76fb1ee4 --- /dev/null +++ b/modules/core/src/test/resources/invalid/neurosciencegraph/core/annotation/v0.2.0/missing_target.json @@ -0,0 +1,15 @@ +{ + "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", + "@id": "{{base}}/schemas/neurosciencegraph/core/entity/v1.0.0/057622e3-5ea6-499a-a434-e38ba70ac83b", + "@type": "nsg:Annotation", + "schema:name": "Annotation example with all fields", + "prov:wasAttributedTo":{ + "@id": "{{base}}/schemas/neurosciencegraph/core/person/v0.1.0/03b67cb6-db1a-4acd-a628-8dd3e5f3ee12", + "@type": "nsg:Person" + }, + "nsg:providerId": "db201d2e-e185-11e6-a0b3-c869cd917532", + "nsg:hasBody": { + "@id": "{{base}}/schemas/neurosciencegraph/core/entity/v1.0.0/027622e3-5ea6-499a-a434-e38ba70ac82c", + "@type": "prov:Entity" + } +} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json deleted file mode 100644 index d68222d2..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0.json +++ /dev/null @@ -1,53 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "FunctionParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:FunctionParameter", - "comment": "Parameter shape for a functional relationship between independent and dependent variables.", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/ParameterShape" - }, - { - "property": [ - { - "path": "nsg:dependentVariable", - "name": "Dependent variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicVariableShape", - "class": "nsg:AlgebraicVariable", - "minCount": 1 - }, - { - "path": "nsg:independentVariable", - "name": "Independent variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicVariableShape", - "class": "nsg:AlgebraicVariable", - "minCount": 1 - }, - { - "path": "nsg:equation", - "name": "Equation", - "description": "The functional relationship described with the variable type labels and the Python mathematical operators.", - "datatype": "xsd:string", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json deleted file mode 100644 index ae2e9250..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0.json +++ /dev/null @@ -1,61 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "NumericalTraceParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:NumericalTraceParameter", - "comment": "Parameter shape for the values of (an) independent variable(s) associated with the values of (a) dependent variable(s).", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/ParameterShape" - }, - { - "property": [ - { - "path": "nsg:dependentVariable", - "name": "Dependent variable", - "sh:xone": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape", - "class": "nsg:SimpleNumericalVariable" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape", - "class": "nsg:CompoundNumericalVariable" - } - ], - "minCount": 1 - }, - { - "path": "nsg:independentVariable", - "name": "Independent variable", - "sh:xone": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape", - "class": "nsg:SimpleNumericalVariable" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape", - "class": "nsg:CompoundNumericalVariable" - } - ], - "minCount": 1 - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json deleted file mode 100644 index f8863d04..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0.json +++ /dev/null @@ -1,61 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/core/annotation/v0.2.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "ParameterAnnotationShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:ParameterAnnotation", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AnnotationShape" - }, - { - "property": [ - { - "path": "oa:hasTarget", - "sh:xone": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TextPositionTargetShape", - "class": "nsg:TextPositionTarget" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/FigureTargetShape", - "class": "nsg:FigureTarget" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/EquationTargetShape", - "class": "nsg:EquationTarget" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/TableTargetShape", - "class": "nsg:TableTarget" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.2.0/shapes/AreaTargetShape", - "class": "nsg:AreaTarget" - } - ], - "maxCount": 1 - }, - { - "path": "oa:hasBody", - "nodeKind": "sh:IRI", - "class": "nsg:Parameter", - "minCount": 1 - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json deleted file mode 100644 index 806fefd3..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0.json +++ /dev/null @@ -1,47 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "PointValueParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:PointValueParameter", - "comment": "Parameter shape for the value(s) of an unidimensional variable (i.e., not establishing a relationship between a dependant and an independent variable).", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.2.0/shapes/ParameterShape" - }, - { - "property": [ - { - "path": "nsg:dependentVariable", - "name": "Dependent variable", - "sh:xone": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/SimpleNumericalVariableShape", - "class": "nsg:SimpleNumericalVariable" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/CompoundNumericalVariableShape", - "class": "nsg:CompoundNumericalVariable" - } - ], - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json deleted file mode 100644 index 5d10209f..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.2.0/auto-all-fields.json +++ /dev/null @@ -1,51 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:FunctionParameter" - ], - "schema:name": "p-prop_inact_ion_curr-71233092", - "nsg:providerId": "71233092-eb80-11e5-a9b7-64006a4c56ef", - "nsg:dependentVariable": { - 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"rdfs:label": "Thalamus interneuron small" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json deleted file mode 100644 index c4b291af..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/auto-all-fields-simple-simple.json +++ /dev/null @@ -1,57 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:NumericalTraceParameter" - ], - "schema:name": "p-neuron_density-0ebdc338", - "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-131001", - 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"@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:NumericalTraceParameter" - ], - "schema:name": "p-neuron_density-0ebdc338", - "nsg:providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-131001", - "nsg:series": { - "nsg:statistic": "mean", - "schema:unitCode": "mm^-3", - "schema:value": [ - 278146.0, - 170264.0, - 88874.4, - 51258.8, - 50132.7, - 27815.8 - ] - } - }, - "nsg:independentVariable": [ - { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-002001", - "nsg:series": { - "schema:unitCode": "day", - "schema:value": [ - 0.0, - 3.0, - 6.0, - 12.0, - 21.0, - 30.0 - ] - } - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json deleted file mode 100644 index bf2202eb..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-compound-compound-ignored.json +++ /dev/null @@ -1,7 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:NumericalTraceParameter" - ], - "comment": "No data on 24.09.18" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json deleted file mode 100644 index bf2202eb..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.2.0/min-fields-simple-compound-ignored.json +++ /dev/null @@ -1,7 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:NumericalTraceParameter" - ], - "comment": "No data on 24.09.18" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-area.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-area.json deleted file mode 100644 index 559fb0d7..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-area.json +++ /dev/null @@ -1,46 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:ParameterAnnotation", - "oa:Annotation" - ], - "schema:name": "a-position-52afbf40", - "nsg:providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", - "nsg:contribution": { - "prov:agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": [ - "prov:Agent" - ] - } - ] - }, - "oa:hasTarget": { - "@type": [ - "nsg:AreaTarget" - ], - "oa:hasSource": "https://doi.org/10.1038/367069a0", - "oa:hasSelector": { - "@type": [ - "nsg:AreaSelector" - ], - "rdf:value": "page=1&viewrect=0.23699421965317918,0.8180169286577993,0.14285714285714285,0.012091898428053138", - "dcterms:conformsTo": "http://tools.ietf.org/rfc/rfc3778" - } - }, - "oa:hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/041ba2d5-b2f8-4fe3-9bbb-30412a93ad60", - "@type": [ - "nsg:Parameter" - ] - } - ], - "nsg:keyword": [ - { - "@id": "NIFORG:birnlex_254", - "rdfs:label": "Wistar Rat" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-equation.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-equation.json deleted file mode 100644 index 2059613d..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-equation.json +++ /dev/null @@ -1,62 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:ParameterAnnotation", - "oa:Annotation" - ], - "schema:name": "a-equation-c3af1a82", - "nsg:providerId": "c3af1a82-c5a7-11e5-b8a7-3417ebb8f5ca", - "nsg:contribution": { - "prov:agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": [ - "prov:Agent" - ] - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": [ - "prov:Agent" - ] - } - ] - }, - "oa:hasTarget": { - "@type": [ - "nsg:EquationTarget" - ], - "oa:hasSource": "https://doi.org/10.1152/jn.00647.2013", - "oa:hasSelector": { - "@type": [ - "nsg:EquationSelector" - ], - "nsg:index": "(7) and (8) and (9)" - } - }, - "oa:hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/307143d5-912e-490f-be1b-d1a856f03c0b", - "@type": [ - "nsg:Parameter" - ] - }, - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/dc0238c3-ec33-419a-8686-637590df79e3", - "@type": [ - "nsg:Parameter" - ] - } - ], - "nsg:keyword": [ - { - "@id": "nlx_151691", - "rdfs:label": "Thalamus ventroposterior nucleus principal neuron" - }, - { - "@id": "NIFORG:birnlex_167", - "rdfs:label": "Mouse" - } - ], - "nsg:comment": "Sodium persistend current, from mesencephalic tregeminal sensory neurons rats. (m*h). Q_10 = 3" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-figure.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-figure.json deleted file mode 100644 index 4f5689f8..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-figure.json +++ /dev/null @@ -1,54 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:ParameterAnnotation", - "oa:Annotation" - ], - "schema:name": "a-figure-1132613e", - "nsg:providerId": "1132613e-31b1-11e8-b594-64006a67e5d0", - "nsg:contribution": { - "prov:agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": [ - "prov:Agent" - ] - } - ] - }, - "oa:hasTarget": { - "@type": [ - "nsg:FigureTarget" - ], - "oa:hasSource": "https://doi.org/10.1097/nen.0b013e31815f3899", - "oa:hasSelector": { - "@type": [ - "nsg:FigureSelector" - ], - "nsg:index": "1.B" - } - }, - "oa:hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/7475ddad-800b-4ae2-b97e-ef7c77f01859", - "@type": [ - "nsg:Parameter" - ] - } - ], - "nsg:keyword": [ - { - "@id": "NIFORG:birnlex_393", - "rdfs:label": "C57BL/6J" - } - ], - "nsg:comment": "Used N=5.5 since in the paper it is written as 5-6.", - "nsg:experimentalProperty": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/1ff07c64-baf7-456a-86d2-11389c9ccba5", - "@type": [ - "nsg:Parameter" - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/auto-all-fields-table.json 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b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/empty-contributionshape-agent.json deleted file mode 100644 index c8995109..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.2.0/empty-contributionshape-agent.json +++ /dev/null @@ -1,39 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:ParameterAnnotation", - "oa:Annotation" - ], - "schema:name": "a-text-e6914b74", - "nsg:providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "nsg:contribution": { - "prov:agent": [] - }, - "oa:hasTarget": { - "@type": [ - "nsg:TextPositionTarget" - ], - "oa:hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015", - "oa:hasSelector": { - "@type": [ - "oa:TextPositionSelector" - ], - "oa:start": 23171, - "oa:end": 23212 - } - }, - "oa:hasBody": [ - { - "@id": 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"nsg:ParameterAnnotation", - "oa:Annotation" - ], - "schema:name": "a-text-e6914b74", - "nsg:providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "nsg:contribution": { - "prov:agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": [ - "prov:Agent" - ] - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": [ - "prov:Agent" - ] - } - ] - }, - "oa:hasTarget": { - "@type": [ - "nsg:TextPositionTarget" - ], - "oa:hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015", - "oa:hasSelector": { - "@type": [ - "oa:TextPositionSelector" - ], - "oa:start": 23171, - "oa:end": 23212 - } - }, - "oa:hasBody": [] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json deleted file mode 100644 index 1ce85923..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-algebraicvalueshape-unitcode-simple.json +++ /dev/null @@ -1,17 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-cell_area-870f0288", - "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-121003", - "nsg:series": { - "schema:value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json deleted file mode 100644 index 9d4c25c8..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-compound.json +++ /dev/null @@ -1,14 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-resting_membrane_potential-7516d66e", - "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:CompoundNumericalVariable" - ], - "nsg:quantityType": "BBP-010002" - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json deleted file mode 100644 index 438150bb..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-series-simple.json +++ /dev/null @@ -1,14 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-cell_area-870f0288", - "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-121003" - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json deleted file mode 100644 index 7922e02d..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-valueshape-value-simple.json +++ /dev/null @@ -1,17 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-cell_area-870f0288", - "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-121003", - "nsg:series": { - "schema:unitCode": "um^2" - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json deleted file mode 100644 index 3649eb3b..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-compound.json +++ /dev/null @@ -1,30 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-resting_membrane_potential-7516d66e", - "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:CompoundNumericalVariable" - ], - "nsg:series": [ - { - "nsg:statistic": "mean", - "schema:unitCode": "mV", - "schema:value": -74.4 - }, - { - "nsg:statistic": "sem", - "schema:unitCode": "mV", - "schema:value": 1.0 - }, - { - "nsg:statistic": "N", - "schema:unitCode": "dimensionless", - "schema:value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json deleted file mode 100644 index 724145bb..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/auto-missing-variableshape-quantitytype-simple.json +++ /dev/null @@ -1,17 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-cell_area-870f0288", - "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:series": { - "schema:unitCode": "um^2", - "schema:value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json deleted file mode 100644 index 59d52f7d..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-algebraicvalueshape-unitcode-compound.json +++ /dev/null @@ -1,30 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-resting_membrane_potential-7516d66e", - "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:CompoundNumericalVariable" - ], - "nsg:quantityType": "BBP-010002", - "nsg:series": [ - { - "nsg:statistic": "mean", - "schema:unitCode": "mV", - "schema:value": -74.4 - }, - { - "nsg:statistic": "sem", - "schema:value": 1.0 - }, - { - "nsg:statistic": "N", - "schema:unitCode": "dimensionless", - "schema:value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json deleted file mode 100644 index cc9bc0d6..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/missing-valueshape-value-compound.json +++ /dev/null @@ -1,30 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-resting_membrane_potential-7516d66e", - "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:CompoundNumericalVariable" - ], - "nsg:quantityType": "BBP-010002", - "nsg:series": [ - { - "nsg:statistic": "mean", - "schema:unitCode": "mV", - "schema:value": -74.4 - }, - { - "nsg:statistic": "sem", - "schema:unitCode": "mV" - }, - { - "nsg:statistic": "N", - "schema:unitCode": "dimensionless", - "schema:value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json deleted file mode 100644 index 9d5cc9af..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-compound-instead-simple.json +++ /dev/null @@ -1,31 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-cell_area-870f0288", - "nsg:providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "nsg:dependentVariable": { - "@type": [ - "nsg:SimpleNumericalVariable" - ], - "nsg:quantityType": "BBP-121003", - "nsg:series": [ - { - "nsg:statistic": "mean", - "schema:unitCode": "mV", - "schema:value": -74.4 - }, - { - "nsg:statistic": "sem", - "schema:unitCode": "mV", - "schema:value": 1.0 - }, - { - "nsg:statistic": "N", - "schema:unitCode": "dimensionless", - "schema:value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json deleted file mode 100644 index 7d87f312..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.2.0/series-simple-instead-compound.json +++ /dev/null @@ -1,18 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.6", - "@type": [ - "nsg:PointValueParameter" - ], - "schema:name": "p-resting_membrane_potential-7516d66e", - "nsg:providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "nsg:dependentVariable": { - "@type": [ - "nsg:CompoundNumericalVariable" - ], - "nsg:quantityType": "BBP-010002", - "nsg:series": { - "schema:unitCode": "um^2", - "schema:value": 9864.0 - } - } -} \ No newline at end of file From 5ed1533aca01e0986422eccdbd33d19814572ce0 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Sy=20Mohameth=20Fran=C3=A7ois?= Date: Mon, 26 Nov 2018 22:27:34 +0100 Subject: [PATCH 6/7] Removed literatureannotation domain --- build.sbt | 12 +- .../commons/annotation/v0.1.0.json | 201 ------------------ .../commons/selectors/v0.1.0.json | 174 --------------- .../core/annotation/v0.1.0.json | 62 ------ .../core/selectors/v0.1.0.json | 63 ------ .../functionparameter/v0.1.0.json | 53 ----- .../numericaltraceparameter/v0.1.0.json | 61 ------ .../parameterannotation/v0.1.0.json | 61 ------ .../pointvalueparameter/v0.1.0.json | 47 ---- .../v0.1.0/auto-all-fields.json | 41 ---- .../v0.1.0/auto-min-fields.json | 19 -- .../all-fields-compound-compound-ignored.json | 5 - .../all-fields-simple-compound-ignored.json | 5 - .../auto-all-fields-compound-simple.json | 56 ----- .../v0.1.0/auto-all-fields-simple-simple.json | 51 ----- .../auto-min-fields-compound-simple.json | 49 ----- .../v0.1.0/auto-min-fields-simple-simple.json | 39 ---- .../min-fields-compound-compound-ignored.json | 5 - .../min-fields-simple-compound-ignored.json | 5 - .../v0.1.0/auto-all-fields-area.json | 35 --- .../v0.1.0/auto-all-fields-equation.json | 47 ---- .../v0.1.0/auto-all-fields-figure.json | 41 ---- .../v0.1.0/auto-all-fields-table.json | 53 ----- .../v0.1.0/auto-all-fields-text.json | 58 ----- .../v0.1.0/auto-min-fields-area.json | 29 --- .../v0.1.0/auto-min-fields-equation.json | 36 ---- .../v0.1.0/auto-min-fields-figure.json | 28 --- .../v0.1.0/auto-min-fields-table.json | 30 --- .../v0.1.0/auto-min-fields-text.json | 37 ---- .../v0.1.0/auto-all-fields-compound.json | 34 --- .../v0.1.0/auto-all-fields-simple.json | 21 -- .../v0.1.0/auto-min-fields-compound.json | 27 --- .../v0.1.0/auto-min-fields-simple.json | 14 -- .../v0.1.0/auto-missing-equation.json | 18 -- ...uto-missing-indpendentvariable-simple.json | 22 -- ...riable-series-compound-instead-simple.json | 54 ----- ...riable-series-simple-instead-compound.json | 39 ---- .../v0.1.0/auto-missing-contribution.json | 25 --- .../auto-missing-contributionshape-agent.json | 26 --- .../v0.1.0/auto-missing-entityshape-name.json | 36 ---- ...sing-fragmentselectorshape-conformsto.json | 28 --- ...o-missing-fragmentselectorshape-value.json | 28 --- .../v0.1.0/auto-missing-hasbody.json | 27 --- .../v0.1.0/auto-missing-hastarget.json | 28 --- ...auto-missing-indexselectorshape-index.json | 27 --- ...missing-selectortargetshape-hassource.json | 36 ---- ...missing-textpositionselectorshape-end.json | 36 ---- ...ssing-textpositionselectorshape-start.json | 36 ---- ...g-textpositiontargetshape-hasselector.json | 32 --- .../v0.1.0/empty-contributionshape-agent.json | 28 --- .../v0.1.0/empty-hasbody.json | 28 --- ...g-algebraicvalueshape-unitcode-simple.json | 13 -- .../v0.1.0/auto-missing-series-compound.json | 10 - .../v0.1.0/auto-missing-series-simple.json | 10 - .../auto-missing-valueshape-value-simple.json | 13 -- ...g-variableshape-quantitytype-compound.json | 26 --- ...ing-variableshape-quantitytype-simple.json | 13 -- ...algebraicvalueshape-unitcode-compound.json | 26 --- .../missing-valueshape-value-compound.json | 26 --- .../series-compound-instead-simple.json | 27 --- .../series-simple-instead-compound.json | 14 -- 61 files changed, 1 insertion(+), 2230 deletions(-) delete mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json delete mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json delete mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json delete mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json delete mode 100644 modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-all-fields.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-min-fields.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-compound-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-simple-compound-ignored.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-area.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-figure.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-table.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-all-fields-text.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-area.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-figure.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-table.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-min-fields-text.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-all-fields-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-min-fields-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/auto-missing-equation.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-missing-indpendentvariable-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-compound-instead-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/independentvariable-series-simple-instead-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contribution.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-contributionshape-agent.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-entityshape-name.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-value.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hasbody.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-hastarget.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-indexselectorshape-index.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-selectortargetshape-hassource.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-start.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositiontargetshape-hasselector.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-contributionshape-agent.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-hasbody.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json delete mode 100644 modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json diff --git a/build.sbt b/build.sbt index d3b2a493..050b784c 100644 --- a/build.sbt +++ b/build.sbt @@ -126,23 +126,13 @@ lazy val simulation = project moduleName := "nsg-simulation-schemas" ) -lazy val literatureannotation = project - .in(file("modules/literatureannotation")) - .enablePlugins(WorkbenchPlugin) - .disablePlugins(ScapegoatSbtPlugin, DocumentationPlugin) - .dependsOn(core) - .settings(publishSettings) - .settings( - name := "nsg-literatureannotation-schemas", - moduleName := "nsg-literatureannotation-schemas" - ) lazy val root = project .in(file(".")) .settings(name := "nsg-schemas", moduleName := "nsg-schemas") .settings(noPublish) - .aggregate(core, experiment, atlas, morphology, electrophysiology, simulation, nexusschema,nsgcommons, literatureannotation) + .aggregate(core, experiment, atlas, morphology, electrophysiology, simulation, nexusschema,nsgcommons) inThisBuild( List( diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json deleted file mode 100644 index 5c43b1c6..00000000 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/annotation/v0.1.0.json +++ /dev/null @@ -1,201 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0", - "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "AnnotationShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" - }, - { - "property": [ - { - "path": "nsg:contribution", - "name": "Contribution", - "description": "Information about the agent involved in the creation of this Annotation.", - "node": "ContributionShape", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "nsg:hasTarget", - "name": "Target", - "description": "The relationship between an Annotation and its Target.", - "node": "TargetShape", - "minCount": 1 - }, - { - "path": "nsg:hasBody", - "name": "Body", - "description": "The relationship between an Annotation and its Body.", - "node": "BodyShape" - } - ] - } - ] - }, - { - "@id": "TargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI" - }, - { - "@id": "SelectorTargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "TargetShape" - }, - { - "property": [ - { - "path": "nsg:hasSource", - "name": "Source", - "description": "The relationship between a Specific Resource and the resource that it is a more specific representation of.", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "nsg:hasSelector", - "name": "Selector", - "description": "The relationship between a Specific Resource and a Selector.", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/SelectorShape" - } - ] - } - ] - }, - { - "@id": "TextPositionTargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorTargetShape" - }, - { - "property": [ - { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TextPositionSelectorShape", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "FigureTargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorTargetShape" - }, - { - "property": [ - { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FigureSelectorShape", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "EquationTargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorTargetShape" - }, - { - "property": [ - { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/EquationSelectorShape", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "TableTargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorTargetShape" - }, - { - "property": [ - { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TableSelectorShape", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "AreaTargetShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorTargetShape" - }, - { - "property": [ - { - "path": "nsg:hasSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/AreaSelectorShape", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "BodyShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI" - }, - { - "@id": "ContributionShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "prov:agent", - "name": "Agent", - "nodeKind": "sh:IRI", - "class": "prov:Agent", - "minCount": 1 - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json deleted file mode 100644 index f86adf12..00000000 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/selectors/v0.1.0.json +++ /dev/null @@ -1,174 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/" - } - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "SelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "rdf:type", - "name": "Selector type", - "description": "The class of the Selector.", - "minCount": 1, - "maxCount": 1 - } - ] - }, - { - "@id": "TextPositionSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:TextPositionSelector", - "and": [ - { - "node": "SelectorShape" - }, - { - "property": [ - { - "path": "nsg:start", - "name": "Start offset", - "description": "The starting position of the segment of text. The first character in the full text is character position 0, and the character is included within the segment.", - "datatype": "xsd:integer", - "minInclusive": 0, - "lessThan": "nsg:end", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "nsg:end", - "name": "End offset", - "description": "The end position of the segment of text. The character is not included within the segment.", - "datatype": "xsd:integer", - "minInclusive": 0, - "minCount": 1, - "maxCount": 1 - }, - { - "path": "nsg:text", - "name": "Text", - "description": "The segment of text.", - "datatype": "xsd:string", - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "IndexSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorShape" - }, - { - "property": [ - { - "path": "nsg:index", - "name": "Index", - "description": "The index in the document, verbatim (e.g. '1', '2.a', 'III').", - "datatype": "xsd:string", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "FigureSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:FigureSelector", - "node": "IndexSelectorShape" - }, - { - "@id": "EquationSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:EquationSelector", - "node": "IndexSelectorShape" - }, - { - "@id": "TableSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:TableSelector", - "and": [ - { - "node": "IndexSelectorShape" - }, - { - "property": [ - { - "path": "row", - "name": "Row index", - "description": "The index(es) in the table of the row(s) (e.g. '1', '1, 3')." - }, - { - "path": "column", - "name": "Column index", - "description": "The index(es) in the table of the columns(s) (e.g. '1', '1, 3')." - } - ] - } - ] - }, - { - "@id": "FragmentSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "SelectorShape" - }, - { - "property": [ - { - "path": "rdf:value", - "name": "Fragment value", - "description": "The contents of the fragment component of an IRI that describes the Segment.", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "dcterms:conformsTo", - "name": "Fragment specification", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "AreaSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "class": "nsg:AreaSelector", - "and": [ - { - "node": "FragmentSelectorShape" - }, - { - "property": [ - { - "path": "dcterms:conformsTo", - "comment": "Used format is page=&viewrect=,,,. , and are measured from the top left corner of the page.", - "hasValue": "http://tools.ietf.org/rfc/rfc3778" - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json deleted file mode 100644 index 1e039f30..00000000 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/annotation/v0.1.0.json +++ /dev/null @@ -1,62 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/core/annotation/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "AnnotationShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Annotation", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AnnotationShape" - }, - { - "@id": "SelectorTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:SelectorTargetShape", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/SelectorTarget" - }, - { - "@id": "TextPositionTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TextPositionTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TextPositionTargetShape" - }, - { - "@id": "FigureTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:FigureTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/FigureTargetShape" - }, - { - "@id": "EquationTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:EquationTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/EquationTargetShape" - }, - { - "@id": "TableTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TableTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TableTargetShape" - }, - { - "@id": "AreaTargetShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AreaTarget", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AreaTargetShape" - }, - { - "@id": "ContributionShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Contribution", - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/ContributionShape" - } - ] -} \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json deleted file mode 100644 index 3a40b13f..00000000 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/selectors/v0.1.0.json +++ /dev/null @@ -1,63 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/core/selectors/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "SelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Selector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/SelectorShape" - }, - { - "@id": "TextPositionSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TextPositionSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TextPositionSelectorShape" - }, - { - "@id": "IndexSelectorShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:IndexSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/IndexSelectorShape" - }, - { - "@id": "FigureSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:FigureSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FigureSelectorShape" - }, - { - "@id": "EquationSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:EquationSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/EquationSelectorShape" - }, - { - "@id": "TableSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:TableSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/TableSelectorShape" - }, - { - "@id": "FragmentSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:FragmentSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/FragmentSelectorShape" - }, - { - "@id": "AreaSelectorShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AreaSelector", - "node": "{{base}}/schemas/neurosciencegraph/commons/selectors/v0.1.0/shapes/AreaSelectorShape" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json deleted file mode 100644 index a1a42b42..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0.json +++ /dev/null @@ -1,53 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/functionparameter/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "FunctionParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:FunctionParameter", - "comment": "Parameter shape for a functional relationship between independent and dependent variables.", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/ParameterShape" - }, - { - "property": [ - { - "path": "nsg:dependentVariable", - "name": "Dependent variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicVariableShape", - "class": "nsg:AlgebraicVariable", - "minCount": 1 - }, - { - "path": "nsg:independentVariable", - 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}, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape", - "class": "nsg:CompoundNumericalVariable" - } - ], - "minCount": 1 - }, - { - "path": "nsg:independentVariable", - "name": "Independent variable", - "sh:xone": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape", - "class": "nsg:SimpleNumericalVariable" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape", - "class": "nsg:CompoundNumericalVariable" - } - ], - "minCount": 1 - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json deleted file mode 100644 index 3e31bbe3..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0.json +++ /dev/null @@ -1,61 +0,0 @@ -{ - 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"class": "nsg:EquationTarget" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/TableTargetShape", - "class": "nsg:TableTarget" - }, - { - "node": "{{base}}/schemas/neurosciencegraph/commons/annotation/v0.1.0/shapes/AreaTargetShape", - "class": "nsg:AreaTarget" - } - ], - "maxCount": 1 - }, - { - "path": "nsg:hasBody", - "nodeKind": "sh:IRI", - "class": "nsg:Parameter", - "minCount": 1 - } - ] - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json b/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json deleted file mode 100644 index 0f2257cc..00000000 --- a/modules/literatureannotation/src/main/resources/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0.json +++ /dev/null @@ -1,47 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0", - "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "PointValueParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "targetClass": "nsg:PointValueParameter", - "comment": "Parameter shape for the value(s) of an unidimensional variable (i.e., not establishing a relationship between a dependant and an independent variable).", - "and": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/ParameterShape" - }, - { - "property": [ - { - "path": "nsg:dependentVariable", - "name": "Dependent variable", - "sh:xone": [ - { - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape", - "class": "nsg:SimpleNumericalVariable" - }, - { - 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"@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "comment": "No data on 24.09.18" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json deleted file mode 100644 index 6a9a7425..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/all-fields-simple-compound-ignored.json +++ /dev/null @@ -1,5 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "comment": "No data on 24.09.18" -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json deleted file mode 100644 index a2eaf7c8..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-compound-simple.json +++ /dev/null @@ -1,56 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-spine_number_per_cell-db0e39fe", - "providerId": "db0e39fe-9a9c-11e6-974a-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-121008", - "series": [ - { - "statistic": "mean", - "unitCode": "dimensionless", - "value": [ - 109.6, - 81.6 - ] - }, - { - "statistic": "sem", - "unitCode": "dimensionless", - "value": [ - 27.1, - 15.1 - ] - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": [ - 15.0, - 16.0 - ] - } - ] - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 14.0, - 21.0 - ] - } - } - ], - "requiredTag": [ - { - "rootId": "NIFCELL:sao1813327414", - "id": "NIFCELL:nifext_46", - "label": "Thalamus interneuron small" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json deleted file mode 100644 index 4df9d0dd..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-all-fields-simple-simple.json +++ /dev/null @@ -1,51 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-neuron_density-0ebdc338", - "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-131001", - "series": { - "statistic": "mean", - "unitCode": "mm^-3", - "value": [ - 278146.0, - 170264.0, - 88874.4, - 51258.8, - 50132.7, - 27815.8 - ] - } - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 0.0, - 3.0, - 6.0, - 12.0, - 21.0, - 30.0 - ] - } - } - ], - "requiredTag": [ - { - "rootId": "NIFGA:birnlex_1167", - "id": "NIFGA:birnlex_1116", - "label": "Ventral posterior nucleus" - }, - { - "rootId": "NIFCELL:sao1813327414", - "id": "NIFCELL:nlx_cell_20081203", - "label": "Thalamus relay cell" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json deleted file mode 100644 index f042d918..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-compound-simple.json +++ /dev/null @@ -1,49 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-spine_number_per_cell-db0e39fe", - "providerId": "db0e39fe-9a9c-11e6-974a-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-121008", - "series": [ - { - "statistic": "mean", - "unitCode": "dimensionless", - "value": [ - 109.6, - 81.6 - ] - }, - { - "statistic": "sem", - "unitCode": "dimensionless", - "value": [ - 27.1, - 15.1 - ] - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": [ - 15.0, - 16.0 - ] - } - ] - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 14.0, - 21.0 - ] - } - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json deleted file mode 100644 index 00f05649..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/auto-min-fields-simple-simple.json +++ /dev/null @@ -1,39 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:NumericalTraceParameter", - "name": "p-neuron_density-0ebdc338", - "providerId": "0ebdc338-6d38-11e6-b432-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-131001", - "series": { - "statistic": "mean", - "unitCode": "mm^-3", - "value": [ - 278146.0, - 170264.0, - 88874.4, - 51258.8, - 50132.7, - 27815.8 - ] - } - }, - "independentVariable": [ - { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-002001", - "series": { - "unitCode": "day", - "value": [ - 0.0, - 3.0, - 6.0, - 12.0, - 21.0, - 30.0 - ] - } - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json b/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json deleted file mode 100644 index 6a9a7425..00000000 --- a/modules/literatureannotation/src/test/resources/data/neurosciencegraph/literatureannotation/numericaltraceparameter/v0.1.0/min-fields-compound-compound-ignored.json +++ /dev/null @@ -1,5 +0,0 @@ -{ - 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"@type": "nsg:Parameter" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json deleted file mode 100644 index 06447908..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-fragmentselectorshape-conformsto.json +++ /dev/null @@ -1,28 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-position-52afbf40", - "providerId": "52afbf40-04bc-11e6-b795-64006a4c56ef", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - 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} - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json deleted file mode 100644 index 034cb1c3..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositionselectorshape-end.json +++ /dev/null @@ -1,36 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": "prov:Agent" - 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"@type": "nsg:Parameter" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositiontargetshape-hasselector.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositiontargetshape-hasselector.json deleted file mode 100644 index 5ec5c781..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/auto-missing-textpositiontargetshape-hasselector.json +++ /dev/null @@ -1,32 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": "prov:Agent" - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - "@type": "nsg:TextPositionTarget", - "hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015" - }, - "hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/b0435a19-dcde-4828-9e7e-7a1d7792b1a9", - "@type": "nsg:Parameter" - }, - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/0fe01a40-5c9c-4f9a-a673-9224e50c28c8", - "@type": "nsg:Parameter" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-contributionshape-agent.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-contributionshape-agent.json deleted file mode 100644 index b0a89cd7..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-contributionshape-agent.json +++ /dev/null @@ -1,28 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": { - "agent": [] - }, - "hasTarget": { - "@type": "nsg:TextPositionTarget", - "hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015", - "hasSelector": { - "@type": "nsg:TextPositionSelector", - "start": 23171, - "end": 23212 - } - }, - "hasBody": [ - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/402717da-d261-4cf7-a329-b33bd997be60", - "@type": "nsg:Parameter" - }, - { - "@id": "{{base}}/data/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/f86facd0-2dbe-4d80-9371-c98f86854db7", - "@type": "nsg:Parameter" - } - ] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-hasbody.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-hasbody.json deleted file mode 100644 index 02723950..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/parameterannotation/v0.1.0/empty-hasbody.json +++ /dev/null @@ -1,28 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:ParameterAnnotation", - "name": "a-text-e6914b74", - "providerId": "e6914b74-ed2a-11e5-b291-3417ebb8f5ca", - "contribution": { - "agent": [ - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/575c0c49-3203-4dc7-813b-2903680b6b8a", - "@type": "prov:Agent" - }, - { - "@id": "{{base}}/data/neurosciencegraph/contributor/agent/v0.1.0/124d1066-41cd-4d1b-b0ad-eed2672cf927", - "@type": "prov:Agent" - } - ] - }, - "hasTarget": { - "@type": "nsg:TextPositionTarget", - "hasSource": "https://doi.org/10.1523/JNEUROSCI.2740-15.2015", - "hasSelector": { - "@type": "nsg:TextPositionSelector", - "start": 23171, - "end": 23212 - } - }, - "hasBody": [] -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json deleted file mode 100644 index 9eaab4fc..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-algebraicvalueshape-unitcode-simple.json +++ /dev/null @@ -1,13 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003", - "series": { - "value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json deleted file mode 100644 index c37b34c4..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-compound.json +++ /dev/null @@ -1,10 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002" - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json deleted file mode 100644 index b244792d..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-series-simple.json +++ /dev/null @@ -1,10 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003" - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json deleted file mode 100644 index f97014c1..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-valueshape-value-simple.json +++ /dev/null @@ -1,13 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003", - "series": { - "unitCode": "um^2" - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json deleted file mode 100644 index 8288767d..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-compound.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "unitCode": "mV", - "value": 1.0 - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json deleted file mode 100644 index 0d4ca9af..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/auto-missing-variableshape-quantitytype-simple.json +++ /dev/null @@ -1,13 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "series": { - "unitCode": "um^2", - "value": 9864.0 - } - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json deleted file mode 100644 index 54368c3c..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-algebraicvalueshape-unitcode-compound.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "value": 1.0 - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json deleted file mode 100644 index b66920c2..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/missing-valueshape-value-compound.json +++ /dev/null @@ -1,26 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "unitCode": "mV" - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json deleted file mode 100644 index 9d822390..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-compound-instead-simple.json +++ /dev/null @@ -1,27 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-cell_area-870f0288", - "providerId": "870f0288-061b-11e6-9d1c-c869cd917532", - "dependentVariable": { - "@type": "nsg:SimpleNumericalVariable", - "quantityType": "nsg:BBP-121003", - "series": [ - { - "statistic": "mean", - "unitCode": "mV", - "value": -74.4 - }, - { - "statistic": "sem", - "unitCode": "mV", - "value": 1.0 - }, - { - "statistic": "N", - "unitCode": "dimensionless", - "value": 29.0 - } - ] - } -} \ No newline at end of file diff --git a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json b/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json deleted file mode 100644 index 091eeca4..00000000 --- a/modules/literatureannotation/src/test/resources/invalid/neurosciencegraph/literatureannotation/pointvalueparameter/v0.1.0/series-simple-instead-compound.json +++ /dev/null @@ -1,14 +0,0 @@ -{ - "@context": "{{base}}/contexts/neurosciencegraph/core/data/v1.0.4", - "@type": "nsg:PointValueParameter", - "name": "p-resting_membrane_potential-7516d66e", - "providerId": "7516d66e-0bb4-11e6-843d-64006a4c56ef", - "dependentVariable": { - "@type": "nsg:CompoundNumericalVariable", - "quantityType": "nsg:BBP-010002", - "series": { - "unitCode": "um^2", - "value": 9864.0 - } - } -} \ No newline at end of file From c5a7a43d87387b51582ee58810ffb591042a2efd Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Sy=20Mohameth=20Fran=C3=A7ois?= Date: Mon, 26 Nov 2018 22:36:25 +0100 Subject: [PATCH 7/7] Removed variables and parameter schemas --- .../commons/parameter/v0.1.0.json | 20 --- .../commons/variables/v0.1.0.json | 136 ------------------ .../commons/variables/v0.2.0.json | 136 ------------------ .../core/variables/v0.1.0.json | 56 -------- .../core/variables/v0.2.0.json | 56 -------- 5 files changed, 404 deletions(-) delete mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json delete mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json delete mode 100644 modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json delete mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json delete mode 100644 modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json deleted file mode 100644 index c57ac3cb..00000000 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/parameter/v0.1.0.json +++ /dev/null @@ -1,20 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/commons/parameter/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "ParameterShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "node": "{{base}}/schemas/neurosciencegraph/commons/entity/v1.0.0/shapes/EntityShape" - } - ] -} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json deleted file mode 100644 index e265877a..00000000 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.1.0.json +++ /dev/null @@ -1,136 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/" - } - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "AlgebraicValueShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "schema:unitCode", - "name": "Unit code", - "datatype": "xsd:string", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "nsg:statistic", - "name": "Statistic", - "description": "The name of the statistic describing the sample.", - "datatype": "xsd:string", - "maxCount": 1 - } - ] - }, - { - "@id": "ValueShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "AlgebraicValueShape" - }, - { - "property": [ - { - "path": "schema:value", - "name": "Value", - "datatype": "xsd:float", - "minCount": 1 - } - ] - } - ] - }, - { - "@id": "VariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "nsg:quantityType", - "name": "Quantity type", - "description": "The type of the measured quantity represented by the variable.", - "minCount": 1, - "maxCount": 1 - } - ] - }, - { - "@id": "NumericalVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "VariableShape" - }, - { - "property": [ - { - "path": "nsg:series", - "name": "Series", - "description": "The numerical value(s) taken by the variable", - "node": "ValueShape" - } - ] - } - ] - }, - { - "@id": "SimpleNumericalVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "NumericalVariableShape" - }, - { - "property": [ - { - "path": "nsg:series", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "CompoundNumericalVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "NumericalVariableShape" - }, - { - "property": [ - { - "path": "nsg:series", - "minCount": 2 - } - ] - } - ] - }, - { - "@id": "AlgebraicVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "VariableShape" - }, - { - "node": "AlgebraicValueShape" - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json b/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json deleted file mode 100644 index acc4e0c2..00000000 --- a/modules/commons/src/main/resources/schemas/neurosciencegraph/commons/variables/v0.2.0.json +++ /dev/null @@ -1,136 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/" - } - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "AlgebraicValueShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "schema:unitCode", - "name": "Unit code", - "datatype": "xsd:string", - "minCount": 1, - "maxCount": 1 - }, - { - "path": "nsg:statistic", - "name": "Statistic", - "description": "The name of the statistic describing the sample.", - "datatype": "xsd:string", - "maxCount": 1 - } - ] - }, - { - "@id": "ValueShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "AlgebraicValueShape" - }, - { - "property": [ - { - "path": "schema:value", - "name": "Value", - "datatype": "xsd:float", - "minCount": 1 - } - ] - } - ] - }, - { - "@id": "VariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "property": [ - { - "path": "nsg:quantityType", - "name": "Quantity type", - "description": "The type of the measured quantity represented by the variable.", - "minCount": 1, - "maxCount": 1 - } - ] - }, - { - "@id": "NumericalVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "VariableShape" - }, - { - "property": [ - { - "path": "nsg:series", - "name": "Series", - "description": "The numerical value(s) taken by the variable", - "node": "ValueShape" - } - ] - } - ] - }, - { - "@id": "SimpleNumericalVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "NumericalVariableShape" - }, - { - "property": [ - { - "path": "nsg:series", - "minCount": 1, - "maxCount": 1 - } - ] - } - ] - }, - { - "@id": "CompoundNumericalVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "NumericalVariableShape" - }, - { - "property": [ - { - "path": "nsg:series", - "minCount": 2 - } - ] - } - ] - }, - { - "@id": "AlgebraicVariableShape", - "@type": "sh:NodeShape", - "nodeKind": "sh:BlankNodeOrIRI", - "and": [ - { - "node": "VariableShape" - }, - { - "node": "AlgebraicValueShape" - } - ] - } - ] -} \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json deleted file mode 100644 index eb921061..00000000 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.1.0.json +++ /dev/null @@ -1,56 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.1.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/core/variables/v0.1.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "AlgebraicValueShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AlgebraicValue", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicValueShape" - }, - { - "@id": "ValueShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Value", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/ValueShape" - }, - { - "@id": "VariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/VariableShape" - }, - { - "@id": "NumericalVariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:NumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/NumericalVariableShape" - }, - { - "@id": "SimpleNumericalVariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:SimpleNumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/SimpleNumericalVariableShape" - }, - { - "@id": "CompoundNumericalVariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:CompoundNumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/CompoundNumericalVariableShape" - }, - { - "@id": "AlgebraicVariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AlgebraicVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.1.0/shapes/AlgebraicVariableShape" - } - ] -} \ No newline at end of file diff --git a/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json b/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json deleted file mode 100644 index 0ed03661..00000000 --- a/modules/core/src/main/resources/schemas/neurosciencegraph/core/variables/v0.2.0.json +++ /dev/null @@ -1,56 +0,0 @@ -{ - "@context": [ - "{{base}}/contexts/neurosciencegraph/core/schema/v0.2.0", - { - "@base": "{{base}}/schemas/neurosciencegraph/core/variables/v0.2.0/shapes/" - } - ], - "imports": [ - "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0" - ], - "@type": "nxv:Schema", - "shapes": [ - { - "@id": "AlgebraicValueShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:AlgebraicValue", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/AlgebraicValueShape" - }, - { - "@id": "ValueShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Value", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/ValueShape" - }, - { - "@id": "VariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:Variable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/VariableShape" - }, - { - "@id": "NumericalVariableShape", - "@type": "sh:NodeShape", - "targetClass": "nsg:NumericalVariable", - "node": "{{base}}/schemas/neurosciencegraph/commons/variables/v0.2.0/shapes/NumericalVariableShape" - 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